10-Q

UNITED STATES

SECURITIES AND EXCHANGE COMMISSION

WASHINGTON, D.C. 20549

FORM 10-Q

(Mark One)

☒    QUARTERLY REPORT PURSUANT TO SECTION 13 OR 15(d) OF THE SECURITIES EXCHANGE ACT OF 1934

For the quarterly period ended June 30, 2021

OR

☐    TRANSITION REPORT PURSUANT TO SECTION 13 OR 15(d) OF THE SECURITIES EXCHANGE ACT OF 1934

For the transition period from                    to                   

Commission File Number: 000-30319

INNOVIVA, INC.

(Exact Name of Registrant as Specified in its Charter)

Delaware	94-3265960
(State or Other Jurisdiction of Incorporation or Organization)	(I.R.S. Employer Identification No.)

1350 Old Bayshore Highway Suite 400

Burlingame, CA 94010

(Address of Principal Executive Offices)

(650) 238-9600

(Registrant’s Telephone Number, Including Area Code)

Securities registered pursuant to Section 12(b) of the Act:

Title of each class	Trading Symbol(s)	Name of each exchange on which registered
Common Stock, par value $0.01 per share	INVA	The NASDAQ Global Select Market

Indicate by check mark whether the registrant: (1) has filed all reports required to be filed by Section 13 or 15(d) of the Securities Exchange Act of 1934 during the preceding 12 months (or for such shorter period that the registrant was required to file such reports), and (2) has been subject to such filing requirements for the past 90 days.  Yes  ☒  No  ☐

Indicate by check mark whether the registrant has submitted electronically every Interactive Data File required to be submitted pursuant to Rule 405 of Regulation S-T (§ 232.405 of this chapter) during the preceding 12 months (or for such shorter period that the registrant was required to submit such files).  Yes  ☒  No  ☐

Indicate by check mark whether the registrant is a large accelerated filer, an accelerated filer, a non-accelerated filer, a smaller reporting company, or an emerging growth company. See the definitions of “large accelerated filer,” “accelerated filer,” “smaller reporting company,” and “emerging growth company” in Rule 12b-2 of the Act.

Large accelerated filer ☒	Accelerated filer ☐
Non-accelerated filer ☐	Smaller reporting company ☐
	Emerging growth company ☐

If an emerging growth company, indicate by check mark if the registrant has elected not to use the extended transition period for complying with any new or revised financial accounting standards provided pursuant to Section 13(a) of the Exchange Act.  ☐

Indicate by check mark whether the registrant is a shell company (as defined in Rule 12b-2 of the Act).  Yes  ☐  No  ☒

The number of shares of registrant’s common stock outstanding on July 19, 2021 was 69,494,582.

TABLE OF CONTENTS

PART I. FINANCIAL INFORMATION
Item 1. Financial Statements
Consolidated Balance Sheets as of June 30, 2021 (Unaudited) and December 31, 2020	3
Unaudited Consolidated Statements of Income for the Three and Six Months ended June 30, 2021 and 2020	4
Unaudited Consolidated Statements of Comprehensive Income for the Three and Six Months ended June 30, 2021 and 2020	5
Unaudited Consolidated Statements of Stockholders’ Equity for the Three and Six Months ended June 30, 2021 and 2020	6
Unaudited Consolidated Statements of Cash Flows for the Six Months ended June 30, 2021 and 2020	8
Notes to Unaudited Consolidated Financial Statements	9
Item 2. Management’s Discussion and Analysis of Financial Condition and Results of Operations	21
Item 3. Quantitative and Qualitative Disclosures About Market Risk	26
Item 4. Controls and Procedures	27
PART II. OTHER INFORMATION
Item 1. Legal Proceedings	27
Item 1A. Risk Factors	28
Item 2. Unregistered Sales of Equity Securities and Use of Proceeds	28
Item 3. Defaults Upon Senior Securities	28
Item 4. Mine Safety Disclosure	28
Item 5. Other Information	28
Item 6. Exhibits	29
Signatures	30
Exhibits

2

PART I. FINANCIAL INFORMATION

Item 1. Financial Statements

INNOVIVA, INC.

CONSOLIDATED BALANCE SHEETS

(In thousands, except per share data)

	June 30,		December 31,
	2021		2020
	(unaudited)		*
Assets
Current assets:
Cash and cash equivalents	$	43,265	$	246,487
Related party receivables from collaborative arrangements		104,262		93,931
Prepaid expenses and other current assets		734		1,640
Total current assets		148,261		342,058
Property and equipment, net		19		28
Equity and long-term investments		473,677		438,258
Capitalized fees paid to a related party, net		118,341		125,253
Deferred tax assets, net		48,690		93,759
Other assets		162		214
Total assets	$	789,150	$	999,570
Liabilities and Stockholders’ Equity
Current liabilities:
Accounts payable	$	30	$	66
Accrued personnel-related expenses		389		490
Accrued interest payable		4,152		4,152
Other accrued liabilities		800		1,402
Total current liabilities		5,371		6,110
Long-term debt, net of discount and issuance costs		389,989		385,517
Other long-term liabilities		45		106
Commitments and contingencies (Note 8)
Stockholders’ equity:
Preferred stock: $0.01 par value, 230 shares authorized, no shares issued and outstanding		—		—
Common stock: $0.01 par value, 200,000 shares authorized, 69,495 and 101,392 issued and outstanding as of June 30, 2021 and December 31, 2020, respectively		695		1,014
Treasury stock: at cost, 32,005 and 0 shares at June 30, 2021 and December 31, 2020, respectively		(393,829)		—
Additional paid-in capital		1,261,845		1,260,900
Accumulated deficit		(538,931)		(722,002)
Total Innoviva stockholders’ equity		329,780		539,912
Noncontrolling interest		63,965		67,925
Total stockholders’ equity		393,745		607,837
Total liabilities and stockholders’ equity	$	789,150	$	999,570

* Consolidated balance sheet as of December 31, 2020 has been derived from audited consolidated financial statements.

See accompanying notes to consolidated financial statements.

3

INNOVIVA, INC.

CONSOLIDATED STATEMENTS OF INCOME

(In thousands, except per share data)

(Unaudited)

	Three Months Ended June 30,				Six Months Ended June 30,
	2021		2020		2021		2020
Royalty revenue from a related party, net of amortization of capitalized fees paid to a related party of $3,456 in the three months ended June 30, 2021 and 2020, and $6,912 in the six months ended June 30, 2021 and 2020	$	100,806	$	68,946	$	186,324	$	147,624
Revenue from collaborative arrangements with a related party		—		10,000		—		10,000
Total net revenue		100,806		78,946		186,324		157,624
Operating expenses:
Research and development		38		559		87		559
General and administrative		4,228		2,596		10,214		5,159
Total operating expenses		4,266		3,155		10,301		5,718
Income from operations		96,540		75,791		176,023		151,906
Other income (expense), net		(951)		30		(1,384)		98
Interest income		20		158		50		1,460
Interest expense		(4,745)		(4,561)		(9,439)		(9,077)
Changes in fair values of equity and long-term investments, net		45,315		46,698		100,360		68,613
Income before income taxes		136,179		118,116		265,610		213,000
Income tax expense, net		25,333		19,891		45,069		35,823
Net income		110,846		98,225		220,541		177,177
Net income attributable to noncontrolling interest		21,898		21,381		37,470		34,896
Net income attributable to Innoviva stockholders	$	88,948	$	76,844	$	183,071	$	142,281
Basic net income per share attributable to Innoviva stockholders	$	1.01	$	0.76	$	1.93	$	1.40
Diluted net income per share attributable to Innoviva stockholders	$	0.90	$	0.69	$	1.73	$	1.27
Shares used to compute Innoviva basic and diluted net income per share:
Shares used to compute basic net income per share		88,423		101,324		94,858		101,280
Shares used to compute diluted net income per share		100,639		113,545		107,096		113,527

See accompanying notes to consolidated financial statements.

4

INNOVIVA, INC.

CONSOLIDATED STATEMENTS OF COMPREHENSIVE INCOME

(In thousands)

(Unaudited)

		Three Months Ended June 30,			Six Months Ended June 30,
	2021		2020		2021		2020
Net income	$	110,846	$	98,225	$	220,541	$	177,177
Unrealized loss on marketable securities, net		—		(35)		—		(29)
Comprehensive income		110,846		98,190		220,541		177,148
Comprehensive income attributable to noncontrolling interest		21,898		21,381		37,470		34,896
Comprehensive income attributable to Innoviva stockholders	$	88,948	$	76,809	$	183,071	$	142,252

See accompanying notes to consolidated financial statements.

5

INNOVIVA, INC.

CONSOLIDATED STATEMENTS OF STOCKHOLDERS’ EQUITY

(In thousands)

(Unaudited)

	Six Months ended June 30, 2021
				Additional		Accumulated Other										Total
	Common Stock			Paid-In		Comprehensive		Accumulated		Treasury Stock				Noncontrolling		Stockholders’
	Shares	Amount		Capital		Income (Loss)		Deficit		Shares		Amount		Interest		Equity
Balance as of December 31, 2020	101,392	$	1,014	$	1,260,900	$	—	$	(722,002)		—	$	—	$	67,925	$	607,837
Distributions to noncontrolling interest	—		—		—		—		—		—		—		(21,285)		(21,285)
Equity activity of noncontrolling interest from a consolidated variable interest entity	—		—		—		—		—		—		—		8		8
Exercise of stock options, and issuance of common stock units and stock awards, net of repurchase of shares to satisfy tax withholding	16		—		(25)		—		—		—		—		—		(25)
Stock-based compensation	—		—		451		—		—		—		—		—		451
Net income	—		—		—		—		94,123		—		—		15,572		109,695
Balance as of March 31, 2021	101,408	$	1,014	$	1,261,326	$	—	$	(627,879)		—	$	—	$	62,220	$	696,681
Distributions to noncontrolling interest	—		—		—		—		—		—		—		(20,161)		(20,161)
Equity activity of noncontrolling interest from a consolidated variable interest entity	—		—		—		—		—		—		—		8		8
Exercise of stock options, and issuance of common stock units and stock awards, net of repurchase of shares to satisfy tax withholding	92		1		49		—		—		—		—		—		50
Repurchase of common stock	(32,005)		(320)		—		—		—		32,005		(393,829)		—		(394,149)
Stock-based compensation	—		—		470		—		—		—		—		—		470
Net income	—		—		—		—		88,948		—		—		21,898		110,846
Balance as of June 30, 2021	69,495	$	695	$	1,261,845	$	—	$	(538,931)		32,005	$	(393,829)	$	63,965	$	393,745

6

	Six Months ended June 30, 2020
				Additional		Accumulated Other						Total
	Common Stock			Paid-In		Comprehensive		Accumulated		Noncontrolling		Stockholders’
	Shares	Amount		Capital		Income (Loss)		Deficit		Interest		Equity
Balance as of December 31, 2019	101,288	$	1,013	$	1,258,859	$	27	$	(946,404)	$	28,621	$	342,116
Distributions to noncontrolling interest	—		—		—		—		—		(15,810)		(15,810)
Exercise of stock options, and issuance of common stock units and stock awards, net of repurchase of shares to satisfy tax withholding	32		—		170		—		—		—		170
Stock-based compensation	—		—		435		—		—		—		435
Net income	—		—		—		—		65,437		13,515		78,952
Other comprehensive income	—		—		—		6		—		—		6
Balance as of March 31, 2020	101,320	$	1,013	$	1,259,464	$	33	$	(880,967)	$	26,326	$	405,869
Equity activity of noncontrolling interest from a consolidated variable interest entity	—		—		—		—		—		350		350
Distributions to noncontrolling interest	—		—		—		—		—		(12,152)		(12,152)
Exercise of stock options, and issuance of common stock units and stock awards, net of repurchase of shares to satisfy tax withholding	72		2		178		—		—		—		180
Stock-based compensation	—		—		375		—		—		—		375
Net income	—		—		—		—		76,844		21,381		98,225
Other comprehensive income	—		—		—		(35)		—		—		(35)
Balance as of June 30, 2020	101,392	$	1,015	$	1,260,017	$	(2)	$	(804,123)	$	35,905	$	492,812

See accompanying notes to consolidated financial statements.

7

INNOVIVA, INC.

CONSOLIDATED STATEMENTS OF CASH FLOWS

(In thousands)

(Unaudited)

	Six Months Ended June 30,
	2021		2020
Cash flows from operating activities
Net income	$	220,541	$	177,177
Adjustments to reconcile net income to net cash provided by operating activities:
Deferred income taxes		45,069		35,823
Depreciation and amortization		6,918		6,921
Stock-based compensation		921		810
Amortization of debt discount and issuance costs		4,472		4,110
Amortization of discount on short-term investments		—		(336)
Amortization of lease guarantee		—		(135)
Changes in fair values of equity and long-term investments, net		(99,046)		(68,613)
Other non-cash items		16		6
Changes in operating assets and liabilities:
Receivables from collaborative arrangements		(10,331)		(2,975)
Prepaid expenses and other current assets		906		317
Accounts payable		(36)		185
Accrued personnel-related expenses and other accrued liabilities		(709)		(15)
Net cash provided by operating activities		168,721		153,275
Cash flows from investing activities
Maturities of marketable securities		—		82,000
Purchases of marketable securities		—		(12,943)
Purchases of equity and long-term investments		(46,373)		(60,000)
Distributions of equity and long-term investments		110,000		—
Purchases of property and equipment		—		(13)
Net cash provided by investing activities		63,627		9,044
Cash flows from financing activities
Repurchase of common stock		(394,149)		—
Distributions to noncontrolling interest		(41,446)		(27,962)
Repurchase of shares to satisfy tax withholding		(35)		(72)
Proceeds from issuances of common stock, net		60		422
Net proceeds from the issuance of variable interest entity’s equity		—		344
Net cash used in financing activities		(435,570)		(27,268)
Net increase (decrease) in cash and cash equivalents		(203,222)		135,051
Cash and cash equivalents at beginning of period		246,487		278,096
Cash and cash equivalents at end of period	$	43,265	$	413,147
Supplemental disclosure of cash flow information
Cash paid for interest	$	4,967	$	4,967

See accompanying notes to consolidated financial statements

.

8

INNOVIVA, INC.

NOTES TO CONSOLIDATED FINANCIAL STATEMENTS

(Unaudited)

1. Description of Operations and Summary of Significant Accounting Policies

Description of Operations

Innoviva Inc. (referred to as “Innoviva”, the “Company”, or “we” and other similar pronouns) is a company with a portfolio of royalties and other healthcare assets. Our royalty portfolio contains respiratory assets partnered with Glaxo Group Limited (“GSK”), including RELVAR^®/BREO^® ELLIPTA^® (fluticasone furoate/ vilanterol, “FF/VI”), ANORO^® ELLIPTA^® (umeclidinium bromide/ vilanterol, “UMEC/VI”) and TRELEGY^® ELLIPTA^® (the combination FF/UMEC/VI). Under the Long-Acting Beta2 Agonist (“LABA”) Collaboration Agreement, Innoviva is entitled to receive royalties from GSK on sales of RELVAR^®/BREO^® ELLIPTA^® as follows: 15% on the first $3.0 billion of annual global net sales and 5% for all annual global net sales above $3.0 billion; and royalties from the sales of ANORO^® ELLIPTA^®, which tier upward at a range from 6.5% to 10%. Innoviva is also entitled to 15% of royalty payments made by GSK under its agreements originally entered into with us, and since assigned to Theravance Respiratory Company, LLC (“TRC”), including TRELEGY^® ELLIPTA^® and any other product or combination of products that may be discovered or developed in the future under the LABA Collaboration Agreement and the Strategic Alliance Agreement with GSK (referred to herein as the “GSK Agreements”), which have been assigned to TRC other than RELVAR^®/BREO^® ELLIPTA^® and ANORO^® ELLIPTA^®.

Basis of Presentation

The accompanying unaudited consolidated financial statements have been prepared in accordance with accounting principles generally accepted in the United States of America (“US GAAP”) for interim financial information. Accordingly, they do not include all of the information and notes required by US GAAP for complete financial statements. In our opinion, the unaudited consolidated financial statements have been prepared on the same basis as audited consolidated financial statements and include all adjustments, consisting of only normal recurring adjustments, necessary for the fair presentation of our financial position, results of operations, comprehensive income and cash flows. The interim results are not necessarily indicative of the results of operations to be expected for the year ending December 31, 2021 or any other period.

The accompanying unaudited consolidated financial statements include the accounts of Innoviva, our wholly-owned subsidiaries and certain variable interest entities for which we are the primary beneficiary. All intercompany balances and transactions have been eliminated in consolidation. For consolidated entities where we own or are exposed to less than 100% of the economics, we record net income (loss) attributable to noncontrolling interest in our unaudited consolidated statements of income equal to the percentage of the economic or ownership interest retained in such entities by the respective noncontrolling parties. The accompanying unaudited consolidated financial statements should be read in conjunction with the audited consolidated financial statements and notes thereto included in our Annual Report on Form 10-K for the year ended December 31, 2020 filed with the Securities and Exchange Commission (“SEC”) on February 25, 2021 (“2020 Form 10-K”).

Variable Interest Entities

We evaluate our ownership, contractual and other interest in entities to determine if they are variable interest entities (“VIE”). We evaluate whether we have a variable interest in those entities and the nature and extent of those interests. Based on our evaluation, if we determine we are the primary beneficiary of a VIE, we consolidate the entity in our financial statements.

9

Equity Investments

We invest from time to time in equity securities of private or public companies. If we determine that we have control over these companies under either voting or VIE models, we include them in our consolidated financial statements. If we determine that we do not have control over these companies under either voting or VIE models, we then determine if we have an ability to exercise significant influence via voting interests, board representation or other business relationships.

We may account for the equity investments where we exercise significant influence using either an equity method of accounting or at fair value by electing the fair value option under Accounting Standards Codification (“ASC”) Topic 825, Financial Instruments. If the fair value option is applied to an investment that would otherwise be accounted for under the equity method, we apply it to all our financial interests in the same entity (equity and debt, including guarantees) that are eligible items. All gains and losses from fair value changes, unrealized and realized, are presented as changes in fair values of equity and long-term investments, net on the consolidated statements of income.

If we conclude that we do not have an ability to exercise significant influence over an investee, we may elect to account for an equity security without a readily determinable fair value using the measurement alternative described in ASC Topic 825. This measurement alternative allows us to measure the equity investment at its cost minus impairment, if any, plus or minus changes resulting from observable price changes in orderly transactions for the identical or a similar investment of the same issuer.

Accounting Pronouncement Adopted by the Company

In December 2019, the Financial Accounting Standards Board (“FASB”) issued Accounting Standards Update (“ASU”) No. 2019-12, “Income Taxes (Topic 740): Simplifying the Accounting for Income Taxes”, which is intended to simplify various aspects related to accounting for income taxes by removing certain exceptions to the general principles in Topic 740. The pronouncement is effective for fiscal years, and for interim periods within those fiscal years, beginning after December 15, 2020, with early adoption permitted. We adopted ASU 2019-12 effective January 1, 2021. The adoption did not have a material impact on our consolidated financial statements.

In October 2020, the FASB issued ASU 2020-10, Codification Improvements. This ASU improves the codification by ensuring that all guidance that requires or provides an option for an entity to provide information in the notes to financial statements is codified in the disclosure section of the codification. The ASU also clarifies various topics in the codification so that entities can apply guidance more consistently. The ASU is effective for fiscal years beginning after December 15, 2020. We adopted ASU 2020-10 effective January 1, 2021. The adoption did not have a material impact on our consolidated financial statements.

Recently Issued Accounting Standards or Updates Not Yet Adopted

In August 2020, the FASB issued ASU 2020-06, Debt-Debt with Conversion and Other Options (Subtopic 470-20) and Derivatives and Hedging-Contracts in Entity’s Own Equity (Subtopic 815-40): Accounting for Convertible Instruments and Contracts in an Entity’s Own Equity, which is intended to simplify the accounting for convertible instruments by removing certain separation models in Subtopic 470-20 for convertible instruments. The ASU is effective for fiscal years beginning after December 15, 2021, and for interim periods within those fiscal years with early adoption permitted. We are currently in the process of evaluating the effects of the provisions of ASU 2020-06 on our consolidated financial statements.

2. Net Income Per Share

Basic net income per share attributable to Innoviva stockholders is computed by dividing net income attributable to Innoviva stockholders by the weighted-average number of shares of common stock outstanding. Diluted net income per share attributable to Innoviva stockholders is computed by dividing net income attributable to Innoviva stockholders by the weighted-average number of shares of common stock and dilutive potential common stock equivalents then outstanding. Dilutive potential common stock equivalents include the assumed exercise, vesting and issuance of employee stock awards using the treasury stock method, as well as common stock issuable upon assumed conversion of our convertible subordinated notes due 2023 (the “2023 Notes”) using the if converted method.

10

Our convertible senior notes due 2025 (the “2025 Notes”) are convertible, based on the applicable conversion rate, into cash, shares of our common stock or a combination thereof, at our election. Our current intent is to settle the principal amount of the 2025 Notes in cash upon conversion. The impact of the assumed conversion premium to diluted net income per share is computed using the treasury stock method. As the average market price per share of our common stock as reported on The Nasdaq Global Select Market was lower than the initial conversion price of $17.26 per share, there was no dilutive effect of the assumed conversion premium for the three and six months ended June 30, 2021 and 2020, respectively.

The following table shows the computation of basic and diluted net income per share for the three and six months ended June 30, 2021 and 2020:

	Three Months Ended June 30,				Six Months Ended June 30,
(In thousands except per share data)	2021		2020		2021		2020
Numerator:
Net income attributable to Innoviva stockholders, basic	$	88,948	$	76,844	$	183,071	$	142,281
Add: interest expense on 2023 Notes		1,163		1,184		2,367		2,364
Net income attributable to Innoviva stockholders, diluted	$	90,111	$	78,028	$	185,438	$	144,645
Denominator:
Weighted-average shares used to compute basic net income per share attributable to Innoviva stockholders		88,423		101,324		94,858		101,280
Dilutive effect of 2023 Notes		12,189		12,189		12,189		12,189
Dilutive effect of options and awards granted under equity incentive plan and employee stock purchase plan		27		32		49		58
Weighted-average shares used to compute diluted net income per share attributable to Innoviva stockholders		100,639		113,545		107,096		113,527
Net income per share attributable to Innoviva stockholders
Basic	$	1.01	$	0.76	$	1.93	$	1.40
Diluted	$	0.90	$	0.69	$	1.73	$	1.27

Anti-Dilutive Securities

The following common stock equivalents were not included in the computation of diluted net income per share because their effect was anti-dilutive:

	Three Months Ended June 30,				Six Months Ended June 30,
(In thousands)	2021		2020		2021		2020
Outstanding options and awards granted under equity incentive plan and employee stock purchase plan		1,093		1,154		1,126		1,124

3. Revenue Recognition and Collaborative Arrangements

We recognize royalty revenue on net sales of products with respect to which we have contractual royalty rights in the period in which the royalties are earned and reported to us. Royalties, which may include adjustments of estimates of net sales in prior periods, are recognized net of amortization of capitalized fees associated with any approval and launch milestone payments made to GSK.

11

Net Revenue from Collaborative Arrangements

Net revenue recognized under our GSK Agreements was as follows:

	Three Months Ended June 30,				Six Months Ended June 30,
(In thousands)	2021		2020		2021		2020
Royalties from a related party - RELVAR/BREO	$	65,916	$	45,570	$	122,306	$	101,719
Royalties from a related party - ANORO		11,960		11,199		22,460		21,049
Royalties from a related party - TRELEGY		26,386		15,633		48,470		31,768
Total royalties from a related party		104,262		72,402		193,236		154,536
Less: amortization of capitalized fees paid to a related party		(3,456)		(3,456)		(6,912)		(6,912)
Royalty revenue		100,806		68,946		186,324		147,624
Strategic alliance  - MABA program		—		10,000		—		10,000
Total net revenue from GSK	$	100,806	$	78,946	$	186,324	$	157,624

4. Consolidated Entities

We consolidate the financial results of TRC and Pulmoquine Therapeutics, Inc. (“Pulmoquine”), which we have determined to be VIEs. As we have the power to direct the economically significant activities of these entities and the obligation to absorb losses of, or the right to receive benefits from them, we are the primary beneficiary of the entities. We also consolidate the financial results of ISP Fund LP (the “Partnership”), our partnership with Sarissa Capital Management LP (“Sarissa Capital”), as we have determined that the Partnership is a VIE and we are its primary beneficiary.

Theravance Respiratory Company, LLC

The primary source of revenue for TRC is the royalties generated from the net sales of TRELEGY^® ELLIPTA^® by GSK. As of June 30, 2021, TRC held equity investments in InCarda Therapeutics, Inc. (“InCarda”) and ImaginAb, Inc. (“ImaginAb”). Refer to Note 5, “Financial Instruments and Fair Value Measurements,” for more information.

The summarized financial information for TRC is presented as follows:

Balance sheets

	June 30,		December 31,
(In thousands)	2021		2020
Assets
Cash and cash equivalents	$	26,128	$	38,081
Receivables from collaborative arrangements		26,386		24,946
Prepaid expenses and other current assets		1		—
Equity and long-term investments		22,594		16,959
Total assets		75,109		79,986
Liabilities and LLC Members’ Equity
Current liabilities		274		508
LLC members’ equity		74,835		79,478
Total liabilities and LLC members’ equity	$	75,109	$	79,986

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Income statements

	Three Months Ended June 30,				Six Months Ended June 30,
(In thousands)	2021		2020		2021		2020
Royalty revenue from a related party	$	26,386	$	15,633	$	48,470	$	31,768
Strategic alliance - MABA program		—		10,000		—		10,000
Total net revenue		26,386		25,633		48,470		41,768
Operating expenses		336		480		3,617		751
Income from operations		26,050		25,153		44,853		41,017
Other income, net		—		1		—		37
Changes in fair values of equity and long-term investments		(254)		—		(737)		—
Net income	$	25,796	$	25,154	$	44,116	$	41,054

Pulmoquine Therapeutics, Inc.

In April 2020, we purchased 5,808,550 shares of Series A preferred stock of Pulmoquine for $5.0 million in cash and held a majority voting interest. Pulmoquine is a biotechnology company focused on the research and development of an aerosolized formulation of hydroxychloroquine to treat respiratory infections. As of June 30, 2021 and December 31, 2020, Pulmoquine’s total assets, mainly attributable to cash and cash equivalents, were $3.2 million and $3.5 million, respectively. Pulmoquine does not currently generate revenue. Total operating expense was de minimis and $0.2 million for the three months and six months ended June 30, 2021, respectively. Total operating expense was $0.6 million for the three and six months ended June 30, 2020.

ISP Fund LP

In December 2020, Innoviva Strategic Partners LLC, our wholly owned subsidiary (“Strategic Partners”), contributed $300.0 million to ISP Fund LP (the “Partnership”) for investing in “long” positions in the healthcare, pharmaceutical and biotechnology sectors and became a limited partner. The general partner of the Partnership (“General Partner”) is an affiliate of Sarissa Capital.

In May 2021, Strategic Partners received a distribution of $110.0 million from the Partnership to provide funding to Innoviva for a strategic repurchase of shares held by GSK. Pursuant to the letter agreement entered into between Strategic Partners, the Partnership and Sarissa Capital Fund GP LP on May 20, 2021, Strategic Partners is obligated to make additional capital contributions to the Partnership in an aggregate amount equal to the amount of the distribution ($110.0 million) prior to March 31, 2022. The capital contributions will then be subject to a 36-month lock up period from the contribution date.

As of June 30, 2021, we continued to hold 100% of the economic interest of the Partnership. As of June 30, 2021 and December 31, 2020, total assets of the Partnership were $219.0 million and $299.3 million, respectively, of which all were attributable to equity and long-term investments. During the three and six months ended June 30, 2021, the Partnership incurred $0.9 million and $1.3 million, respectively, of investment-related expenses, net of investment-related income. During the three and six months ended June 30, 2021, the Partnership recorded net unrealized and realized gains of $25.2 million and $31.0 million, respectively, as changes in fair values of equity and long-term investments, net on the consolidated statements of income.

5. Financial Instruments and Fair Value Measurements

Equity Investment in Armata

During the first quarter of 2020, Innoviva acquired 8,710,800 shares of common stock and an equal number of warrants of Armata Pharmaceuticals, Inc. (“Armata”) for $25.0 million in cash. Armata is a clinical stage biotechnology company focused on precisely targeted bacteriophage therapeutics for antibiotic-resistant infections.

On January 26, 2021, Innoviva Strategic Opportunities LLC (“ISO”), our wholly owned subsidiary, entered into a securities purchase agreement with Armata to acquire 6,153,847 shares of Armata common stock and warrants to purchase 6,153,847 additional shares of Armata common stock for approximately $20.0 million. The investment was closed in two tranches on January 26, 2021 and March 17, 2021. The investments support Armata’s ongoing advancement of its bacteriophage development programs. The additional investment in the first quarter of 2021 increased Innoviva and ISO’s combined ownership to 59.6% as of March 31, 2021. Armata entered into a voting agreement with the Company and ISO, pursuant to which the Company and ISO agreed not to vote or take any action by written consent with respect to any common shares held by the Company and ISO that represent, in the aggregate, more than

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49.5% of the total number of shares of Armata’s common stock issued and outstanding as of the record date for voting on the matters related to election or removal of Armata’s board members. Currently, three of the seven members of Armata’s board of directors are also members of the board of directors of Innoviva. As of June 30, 2021 and December 31, 2020, we owned approximately 59.5% and 46.6%, respectively, of Armata’s common stock.

The investment in Armata provides Innoviva and ISO the ability to have significant influence, but not control over Armata’s operations. Based on our evaluation, we determined that Armata is a VIE, but Innoviva and ISO are not the primary beneficiary of the VIE. We continue to elect the fair value option to account for both Armata’s common stock and warrants. The fair value of Armata’s common stock is measured based on its closing market price. The warrants purchased in 2020 and 2021 have an exercise price of $2.87 and $3.25 per share, respectively, are exercisable immediately within five years from the issuance date of the warrants and include a cashless exercise option. We use the Black-Scholes-Merton pricing model to estimate the fair value of these warrants with the following input assumptions: Armata’s closing market price on the valuation date, the risk-free interest rate computed based on the U.S. Treasury yield, the remaining contractual term as the expected term, and the expected stock price volatility calculated based on the historical volatility of the common stock of Armata and its peer companies.

As of June 30, 2021, the fair values of Armata’s common stock and warrants were estimated at $59.0 million and $41.9 million, respectively. As of December 31, 2020, the fair values of Armata’s common stock and warrants were estimated at $26.0 million and $18.0 million, respectively. The total fair value of both financial instruments in the amount of $100.9 million and $44.0 million was recorded as equity and long-term investments on the consolidated balance sheets as of June 30, 2021 and December 31, 2020, respectively. During the three and six months ended June 30, 2021, we recorded $24.3 million unrealized loss and $36.9 million unrealized gains, respectively, as changes in fair values of equity and long-term investments, net on the consolidated statements of income. We recorded $13.4 million and $35.3 million of unrealized gains for the three and six months ended June 30, 2020, respectively.

Equity Investment in Entasis

During the second quarter of 2020, we purchased 14,000,000 shares of common stock as well as warrants to purchase 14,000,000 additional shares of common stock of Entasis Therapeutics, Inc. (“Entasis”) for approximately $35.0 million in cash. Entasis is a clinical-stage biotechnology company focused on the discovery and development of novel antibacterial products.

During the third quarter of 2020, we purchased 4,672,897 shares of Entasis common stock as well as warrants to purchase 4,672,897 additional shares of its common stock for approximately $12.5 million in cash. Innoviva has a right to designate two members to Entasis’ board. As of June 30, 2021 and the date hereof, no Innoviva designees are serving on Entasis’ six-member board.

On May 3, 2021, ISO entered into a securities purchase agreement with Entasis to acquire 10,000,000 shares of Entasis common stock and warrants to purchase 10,000,000 additional shares of Entasis common stock for approximately $20.0 million. The investment was closed in two tranches on May 3, 2021 and June 11, 2021. This investment supports the continued development of Entasis’ novel pipeline of pathogen-targeted antibacterial product candidates. The additional investment increased Innoviva and ISO’s combined ownership, such that as of June 30,2021, we owned approximately 60.6% of Entasis’ common stock. As of December 31, 2020, we owned approximately 51.0% of Entasis’ common stock.

The investment in Entasis provides Innoviva the ability to have significant influence, but not control over Entasis’ operations. Based on our evaluation, we determined that Entasis is a VIE, but Innoviva is not the primary beneficiary of the VIE. We elected the fair value option to account for both Entasis’s common stock and warrants at fair value. The fair value of Entasis’ common stock is measured based on its closing market price at each balance sheet date. The warrants have an exercise price of $2.50 per share and $2.675 per share for those warrants acquired in the second and third quarter of 2020, respectively. The warrants acquired in the second quarter of 2021 have an exercise price of $2.00 per share. All of the warrants are exercisable immediately within five years from the issuance date of the warrants and include a cashless exercise option. We use the Black-Scholes-Merton pricing model to estimate the fair value of these warrants.

As of June 30, 2021, the fair values of Entasis’s common stock and warrants were estimated at $76.6 million and $54.7 million, respectively. As of December 31, 2020, the fair values of Entasis’s common stock and warrants were estimated at $46.1 million and $31.9 million, respectively. The total fair value of both financial instruments in the amount of $131.3 million and $78.0 million was recorded as equity and long-term investments on the consolidated balance sheets as of June 30, 2021 and December 31, 2020, respectively. We recorded $44.7 million and $33.2 million unrealized gains as changes in fair values of equity and long-term

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investments, net on the consolidated statements of income, for the three and six months ended June 30, 2021, respectively. We recorded $33.3 million of unrealized gains for the three and six months ended June 30, 2020.

Equity Investment in InCarda

In October, 2020, TRC purchased 20,469,432 shares of Series C preferred stock and warrants to purchase 5,117,358 additional shares of Series C preferred stock of InCarda Therapeutics, Inc. (“InCarda”) for $15.0 million. $0.8 million was incurred for investment due diligence costs and recorded as part of the equity investment on the consolidated balance sheets. InCarda is a privately held biopharmaceutical company focused on developing inhaled therapies for cardiovascular diseases. As of June 30, 2021 and as of the date hereof, one of InCarda’s eight board members is designated by TRC. As of June 30, 2021 and December 31, 2020, TRC held 13.0% and 13.4%, respectively, of InCarda’s outstanding equity.

The investment in InCarda does not provide TRC the ability to control or have significant influence over InCarda’s operations. Based on our evaluation, we determined that InCarda is a VIE, but TRC is not the primary beneficiary of the VIE. We account for our investment in the Series C preferred shares in InCarda using the measurement alternative. Under the measurement alternative, the equity investment is initially recorded at its allocated cost, but the carrying value may be adjusted through earnings upon an impairment or when there is an observable price change involving the same or a similar investment with the same issuer. As of June 30, 2021 and December 31, 2020, we recorded $15.8 million from our investment in InCarda’s Series C preferred stock as equity and long-term investments on the consolidated balance sheets. There was no impairment or other change to the value of InCarda’s Series C preferred stock as of June 30, 2021 and December 31, 2020.

The warrants are recorded at fair value and subject to remeasurement at each balance sheet date. The warrants are exercisable immediately with an exercise price of $0.7328 per share and expire on October 6, 2021, one year from the issuance date. We use the Black-Scholes-Merton pricing model to estimate the fair value of the warrants with the following input assumptions: the exercise price of the warrants, the risk-free interest rate computed based on the U.S. Treasury yield, the remaining contractual term as the expected term, and the expected stock price volatility calculated based on the historical volatility of the common stock of its peer companies. As of June 30, 2021 and December 31, 2020, the fair value of InCarda’s warrants was estimated at $0.4 million and $1.1 million, respectively, and recorded as equity and long-term investments on the consolidated balance sheets. During the three and six months ended June 30, 2021, we recorded $0.3 million and $0.7 million, respectively, of unrealized loss from fair value changes in our investment in InCarda’s warrants as changes in fair values of equity and long-term investments, net on the consolidated statements of income.

Equity Investment in ImaginAb

On March 18, 2021, TRC entered into a securities purchase agreement with ImaginAb, Inc. to purchase 4,051,724 shares of ImaginAb Series C preferred stock for $4.7 million. On the same day, TRC also entered into a securities purchase agreement with one of ImaginAb’s common stockholders to purchase 4,097,157 shares of ImaginAb common stock for $1.3 million. ImaginAb is a privately held biotechnology company focused on clinically managing cancer and autoimmune diseases via molecular imaging. $0.4 million was incurred for investment due diligence costs and execution and recorded as part of the equity investment on the consolidated balance sheets. As of the date hereof, one of ImaginAb’s five board members is designated by TRC. As of June 30, 2021, TRC held 12.5% of ImaginAb equity ownership.

The investment in ImaginAb does not provide TRC the ability to control or have significant influence over ImaginAb’s operations. Based on our evaluation, we determined that ImaginAb is a VIE, but TRC is not the primary beneficiary of the VIE. Because ImaginAb’s equity securities are not publicly traded and do not have a readily determinable fair value, we have accounted for our investment in ImaginAb’s Series C preferred stock and common stock using the measurement alternative. Under the measurement alternative, the equity investment is initially recorded at its allocated cost, but the carrying value may be adjusted through earnings upon an impairment or when there is an observable price change involving the same or a similar investment with the same issuer. As of June 30, 2021, $6.4 million was recorded as equity and long-term investments on the consolidated balance sheets. There was no change to the value of our investment in ImaginAB’s equity securities as of June 30, 2021.

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Available-for-Sale Securities

The estimated fair value of available-for-sale securities is based on quoted market prices for these or similar investments that were based on prices obtained from a commercial pricing service. Available-for-sale securities are summarized below:

	June 30, 2021
			Gross		Gross
			Unrealized		Unrealized		Estimated
(In thousands)	Amortized Cost		Gains		Losses		Fair Value
Money market funds(1)	$	2,843	$	—	$	—	$	2,843
Total	$	2,843	$	—	$	—	$	2,843

(1) Money market funds were included in cash and cash equivalents on the consolidated balance sheets.

	December 31, 2020
			Gross		Gross
			Unrealized		Unrealized		Estimated
(In thousands)	Amortized Cost		Gains		Losses		Fair Value
Money market funds (1)	$	204,808	$	—	$	—	$	204,808
Total	$	204,808	$	—	$	—	$	204,808

(1) Money market funds were included in cash and cash equivalents on the consolidated balance sheets.

There was no credit loss to our available-for-sale securities as of June 30, 2021 and December 31, 2020.

Fair Value Measurements

Our available-for-sale securities and equity investments are measured at fair value on a recurring basis and our debt is carried at amortized cost basis. The estimated fair values were as follows:

	Estimated Fair Value Measurements as of June 30, 2021 Using:
	Quoted Price in Active		Significant Other		Significant
	Markets for		Observable		Unobservable
Types of Instruments	Identical Assets		Inputs		Inputs
(In thousands)	Level 1		Level 2		Level 3		Total
Assets
Money market funds	$	2,843	$	—	$	—	$	2,843
Investments held by ISP Fund LP (1)		218,978		—		—		218,978
Equity investment - Armata Common Stock		59,013		—		—		59,013
Equity investment - Armata Warrants		—		41,874		—		41,874
Equity investment - Entasis Common Stock		76,557		—		—		76,557
Equity investment - Entasis Warrants		—		54,660		—		54,660
Equity investment - InCarda Warrants		—		—		410		410
Total assets measured at estimated fair value	$	357,391	$	96,534	$	410	$	454,335
Debt
2023 Notes	$	—	$	246,298	$	—	$	246,298
2025 Notes		—		210,185		—		210,185
Total fair value of debt	$	—	$	456,483	$	—	$	456,483

(1) The investments held by ISP Fund LP consisted of equity investments and money market funds are subject to a 36-month lock-up period from our initial contribution date, December 11, 2020.

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	Estimated Fair Value Measurements as of December 31, 2020 Using:
	Quoted Price
	in Active		Significant
	Markets for		Other		Significant
	Identical		Observable		Unobservable
Types of Instruments	Assets		Inputs		Inputs
(In thousands)	Level 1		Level 2		Level 3		Total
Assets
Money market funds	$	204,808	$	—	$	—	$	204,808
Investments held by ISP Fund LP (1)		299,288		—		—		299,288
Equity investment - Armata Common Stock		25,958		—		—		25,958
Equity investment - Armata Warrants		—		18,049		—		18,049
Equity investment - Entasis Common Stock		46,122		—		—		46,122
Equity investment - Entasis Warrants		—		31,882		—		31,882
Equity investment - InCarda Warrants		—		—		1,147		1,147
Total assets measured at estimated fair value	$	576,176	$	49,931	$	1,147	$	627,254
Debt
2023 Notes	$	—	$	239,779	$	—	$	239,779
2025 Notes		—		206,135		—		206,135
Total fair value of debt	$	—	$	445,914	$	—	$	445,914

(1) The investments held by ISP Fund LP consisted of equity investments and money market funds are subject to a 36-month lock-up period from our initial contribution date, December 11, 2020.

The fair values of our equity investments in Armata and Entasis’s common stock and those investments held by ISP Fund LP are based on the quoted prices in active markets and are classified as Level 1 financial instruments. The fair values of the warrants of Armata and Entasis classified within Level 2 are based upon observable inputs that may include benchmark yields, reported trades, broker/dealer quotes, issuer spreads, two-sided markets, benchmark securities, bids, offers, and reference data including market research publications.

InCarda’s warrants are classified as Level 3 financial instruments as InCarda’s securities are not publicly traded and the assumptions used in the valuation model for valuing the warrants are based on significant unobservable and observable inputs including those of publicly traded peer companies.

The fair values of our 2023 Notes and our 2025 Notes are based on recent trading prices of the respective instruments.

6. Stock-Based Compensation

Stock- Based Compensation Expense

Stock-based compensation expense was included in the consolidated statements of income as follows:

	Three Months Ended June 30,				Six Months Ended June 30,
(In thousands)	2021		2020		2021		2020
General and administrative	$	470	$	375	$	921	$	810

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Valuation Assumptions

Black-Scholes-Merton assumptions used in calculating the estimated value of our stock options on the date of grant were as follows:

	Three Months Ended			Six Months Ended
	June 30, 2021			June 30, 2021
Risk-free interest rate		1.07	%		1.07% - 1.13	%
Expected term (in years)		6			6
Volatility		45	%		45	%
Dividend yield		—	%		—	%
Weighted-average estimated fair value of stock options granted	$	5.80		$	5.61

There were no grants of stock options during the three and six months ended June 30, 2020.

7. Debt

Our debt consists of:

	June 30,		December 31,
(In thousands)	2021		2020
2023 Notes	$	240,984	$	240,984
2025 Notes		192,500		192,500
Total debt		433,484		433,484
Unamortized debt discount and issuance costs		(43,495)		(47,967)
Net long-term debt	$	389,989	$	385,517

Convertible Senior Notes Due 2025

In accordance with accounting guidance for debt with conversion and other options, we separately account for the liability and equity components of the 2025 Notes by allocating the proceeds between the liability component and the embedded conversion option (“equity component”) due to our ability to settle the conversion obligation of the 2025 Notes in cash, common stock or a combination of cash and common stock, at our option. The carrying amount of the liability component was calculated by measuring the fair value of a similar liability that does not have an associated convertible feature using the income approach. The allocation was performed in a manner that reflected our non-convertible debt borrowing rate for similar debt. The equity component of the 2025 Notes was recognized as a debt discount and represents the difference between the proceeds from the issuance of the 2025 Notes and the fair value of the liability of the 2025 Notes on the date of issuance. The excess of the principal amount of the liability component over its carrying amount (“debt discount”) is amortized to interest expense using the effective interest method over the term of the 2025 Notes. The equity component is not remeasured as long as it continues to meet the conditions for equity classification.

Our outstanding 2025 Notes balances consisted of the following:

	June 30,		December 31,
(In thousands)	2021		2020
Liability component
Principal	$	192,500	$	192,500
Debt discount and issuance costs, net		(42,583)		(46,766)
Net carrying amount	$	149,917	$	145,734
Equity component, net	$	65,361	$	65,361

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The following table sets forth total interest expense recognized related to the 2025 Notes for the three and six months ended June 30, 2021 and 2020:

	Three Months Ended June 30,				Six Months Ended June 30,
(In thousands)	2021		2020		2021		2020
Contractual interest expense	$	1,203	$	1,203	$	2,406	$	2,406
Amortization of debt issuance costs		162		149		321		294
Amortization of debt discount		1,951		1,786		3,862		3,535
Total interest and amortization expense	$	3,316	$	3,138	$	6,589	$	6,235

Debt Maturities

The aggregate scheduled maturities of our long-term debt as of June 30, 2021 were as follows:

(In thousands)
Years ending December 31:
Remainder of 2021	$	—
2022		—
2023		240,984
2024		—
2025		192,500
Total	$	433,484

8. Commitments and Contingencies

Operating Lease

Future minimum operating lease payments on our corporate headquarters as of June 30, 2021 were as follows:

(In thousands)
Years ending December 31:
Remainder of 2021	$	62
2022		109
Thereafter		—
Total	$	171

Legal Proceedings

From time to time, the Company is involved in legal proceedings in the ordinary course of its business. Currently, we believe that no litigation or arbitration, either individually or in the aggregate, to which we are presently a party is likely to have a material adverse effect on our operating results or financial position.

9. Shareholders’ Equity

On May 20, 2021, the Company entered into a share repurchase agreement with GSK to buy back 32,005,260 shares of its common stock at $12.25 per share from GSK, representing all of the shares of common stock or other capital interests of Innoviva owned by GSK or its affiliates. The total consideration including related transaction fees was $394.1 million. The share repurchase closed on May 25, 2021, and the shares were transferred to the Company. These shares are recorded as treasury stock on the consolidated balance sheets.

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10. Income Taxes

Provisional income tax expense for the three and six months ended June 30, 2021 was $25.3 million and $45.1 million, respectively, compared to $19.9 million and $35.8 million for the same periods in 2020 respectively. The Company’s effective income tax rate for the six months ended June 30, 2021 was 18.6%, compared to 17.0% for the same period in 2020. The income tax expense for the six months ended June 30, 2021 and 2020 was determined based upon estimates of the Company’s effective income tax rates in various jurisdictions. Our effective income tax rate for the six months ended June 30, 2021 was lower than the U.S. federal statutory income tax rate of 21% due primarily to non-deductible expenses and noncontrolling interest.

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Item 2. Management’s Discussion and Analysis of Financial Condition and Results of Operations

Forward-Looking Statements

The information in this Quarterly Report on Form 10-Q contains forward-looking statements within the meaning of Section 27A of the Securities Act of 1933, as amended (“Securities Act”), and Section 21E of the Securities Exchange Act of 1934, as amended. Such forward-looking statements involve substantial risks, uncertainties, and assumptions. All statements contained herein that are not of historical fact, including, without limitation, statements regarding our strategy, future operations, future financial position, future revenue, projected costs, prospects, plans, intentions, expectations, goals and objectives, may be forward-looking statements. The words “anticipates,” “believes,” “could,” “designed,” “estimates,” “expects,” “goal,” “intends,” “may,” “objective,” “plans,” “projects,” “pursue,” “will,” “would” and similar expressions (including the negatives thereof) are intended to identify forward-looking statements, although not all forward-looking statements contain these identifying words. We may not actually achieve the plans, intentions, expectations or objectives disclosed in our forward-looking statements and the assumptions underlying our forward-looking statements may prove incorrect. Therefore, you should not place undue reliance on our forward-looking statements. Actual results or events could differ materially from the plans, intentions, expectations and objectives disclosed in the forward-looking statements that we make. All written and verbal forward-looking statements attributable to us or any person acting on our behalf are expressly qualified in their entirety by the cautionary statements contained or referred to in this section. Important factors that we believe could cause actual results or events to differ materially from our forward-looking statements include, but are not limited to, risks related to: lower than expected future royalty revenue from respiratory products partnered with GSK; the commercialization of RELVAR^®/BREO^® ELLIPTA^®, ANORO^® ELLIPTA^® and TRELEGY^® ELLIPTA^® in the jurisdictions in which these products have been approved; substantial competition from products discovered, developed, launched and commercialized both by GSK and by other pharmaceutical companies; the strategies, plans and objectives of the Company (related to the Company’s growth strategy and corporate development initiatives beyond the Company’s existing portfolio); the timing, manner and amount of capital deployment, including potential capital returns to stockholders; risks related to the Company’s growth strategy; projections of revenue, expenses and other financial items and risks discussed in “Risk Factors” in Item 1A of Part I of our Annual Report on Form 10-K for the year ended December 31, 2020 filed with the Securities and Exchange Commission (“SEC”) on February 25, 2021, (“2020 Form 10-K”), and Item 1A of Part II of our Quarterly Reports on Form 10-Q and below in “Management’s Discussion and Analysis of Financial Condition and Results of Operations” in this Item 2 of Part I. All forward-looking statements in this Quarterly Report on Form 10-Q are based on current expectations as of the date hereof and we do not assume any obligation to update any forward-looking statements on account of new information, future events or otherwise, except as required by law.

We encourage you to read our consolidated financial statements contained in this Quarterly Report on Form 10-Q. We also encourage you to read Item 1A of Part I of our 2020 Form 10-K and Item 1A of Part II of our Quarterly Reports on Form 10-Q entitled “Risk Factors,” which contain a more complete discussion of the risks and uncertainties associated with our business. In addition to the risks described above and in Item 1A of Part I of our 2020 Form 10-K and Item 1A of Part II of this report, other unknown or unpredictable factors also could affect our results. Therefore, the information in this report should be read together with other reports and documents that we file with the SEC from time to time, including on Form 10-K, Form 10-Q and Form 8-K, which may supplement, modify, supersede or update those risk factors. As a result of these factors, we cannot assure you that the forward-looking statements in this report will prove to be accurate. Furthermore, if our forward-looking statements prove to be inaccurate, the inaccuracy may be material. In light of the significant uncertainties in these forward-looking statements, you should not regard these statements as a representation or warranty by us or any other person that we will achieve our objectives and plans in any specified time frame, or at all.

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OVERVIEW

Executive Summary

Innoviva, Inc. (“Innoviva”, the “Company”, the “Registrant” or “we” and other similar pronouns) is a company with a portfolio of royalties and other healthcare assets. Our royalty portfolio contains respiratory assets partnered with Glaxo Group Limited (“GSK”), including RELVAR^®/BREO^® ELLIPTA^® (fluticasone furoate/ vilanterol, “FF/VI”), ANORO^® ELLIPTA^® (umeclidinium bromide/ vilanterol, “UMEC/VI”) and TRELEGY^® ELLIPTA^® (the combination FF/UMEC/VI). Under the Long-Acting Beta2 Agonist (“LABA”) Collaboration Agreement, Innoviva is entitled to receive royalties from GSK on sales of RELVAR^®/BREO^® ELLIPTA^® as follows: 15% on the first $3.0 billion of annual global net sales and 5% for all annual global net sales above $3.0 billion; and royalties from the sales of ANORO^® ELLIPTA^®, which tier upward at a range from 6.5% to 10%. Innoviva is also entitled to 15% of royalty payments made by GSK under its agreements originally entered into with us, and since assigned to Theravance Respiratory Company, LLC (“TRC”), including TRELEGY^® ELLIPTA^® and any other product or combination of products that may be discovered or developed in the future under the LABA Collaboration Agreement and the Strategic Alliance Agreement with GSK (referred to herein as the “GSK Agreements”), which have been assigned to TRC other than RELVAR^®/BREO^® ELLIPTA^® and ANORO^® ELLIPTA^®.

Our company structure and organization are tailored to our focused activities of managing our respiratory assets partnered with GSK, optimizing our operations and augmenting capital allocation. Our revenues consist of royalties from our respiratory partnership agreements with GSK.

Recent Highlights

● GSK Net Sales:

● Second quarter 2021 net sales of RELVAR^®/BREO^® ELLIPTA^® by GSK were $439.5 million, up 45% from $303.8 million in the same quarter of 2020, with $212.3 million in net sales from the U.S. market and $227.2 million from non-U.S. markets.

● Second quarter 2021 net sales of ANORO^® ELLIPTA^® by GSK were $184.0 million, up 7% from $172.3 million in the same quarter of 2020, with $106.0 million net sales from the U.S. market and $78.0 million from non-U.S. markets.

● Second quarter 2021 net sales of TRELEGY^® ELLIPTA^® by GSK were $405.9 million, up 69% from $240.5 million in the same quarter of 2020, with $285.5 million in net sales from the U.S. market and $120.4 million in net sales from non-U.S. markets.

● Capital Allocation:

● In May 2021, the Company repurchased 32,005,260 shares of its common stock from GSK at $12.25 per share for a total amount (including related transaction fees) of $394.1 million. The repurchased shares represented all of GSK’s equity stake in the Company, which was approximately 32% of the Company.

● During the second quarter of 2021, the Company’s wholly owned subsidiary, Innoviva Strategic Opportunities LLC, invested $20.0 million to acquire 10 million shares of Entasis’ common stock and warrants to purchase up to an additional 10 million shares of common stock at $2.00 per share. With this additional investment, Innoviva collectively owned approximately 60.6% of Entasis’ common stock as of June 30, 2021 in addition to the warrants.

22

Collaborative Arrangements with GSK

LABA Collaboration

In November 2002, we entered into the LABA collaboration with GSK to develop and commercialize once-daily LABA products for the treatment of chronic obstructive pulmonary disorder (“COPD”) and asthma (the “LABA Collaboration Agreement”). For the treatment of COPD, the collaboration has developed three combination products:

● RELVAR^®/BREO^® ELLIPTA^® (“FF/VI”) (BREO^® ELLIPTA^® is the proprietary name in the U.S. and Canada and RELVAR^® ELLIPTA^® is the proprietary name outside the U.S. and Canada), a once-daily combination medicine consisting of a LABA, vilanterol (VI), and an inhaled corticosteroid (“ICS”), fluticasone furoate (“FF”),

● ANORO^® ELLIPTA^® (“UMEC/VI”), a once-daily medicine combining a long-acting muscarinic antagonist (“LAMA”), umeclidinium bromide (“UMEC”), with a LABA, vilanterol (VI), and

● TRELEGY^® ELLIPTA^® (the combination FF/UMEC/VI), a once-daily combination medicine consisting of an ICS, LAMA and LABA.

As a result of the launch and approval of RELVAR^®/BREO^® ELLIPTA^® and ANORO^® ELLIPTA^® in the U.S., Japan and Europe, in accordance with the LABA Collaboration Agreement, we paid milestone fees to GSK totaling $220.0 million during the year ended December 31, 2014. The milestone fees paid to GSK were recognized as capitalized fees paid to a related party, which are being amortized over their estimated useful lives commencing upon the commercial launch of the products.

Critical Accounting Policies and Estimates

Our management’s discussion and analysis of our financial condition and results of operations is based on our financial statements, which have been prepared in accordance with accounting principles generally accepted in the United States of America (“US GAAP”). The preparation of these financial statements requires us to make estimates and assumptions that affect the reported amounts of assets and liabilities and the disclosure of contingent assets and liabilities as of the date of the financial statements, as well as the reported revenue generated and expenses incurred during the reporting periods. Our estimates are based on our historical experience and on various other factors that we believe are reasonable under the circumstances, the results of which form the basis for making judgments about the carrying value of assets and liabilities that are not readily apparent from other sources. Actual results may differ from these estimates under different assumptions or conditions.

As part of our capital allocation strategies, we invest from time to time in equity securities of private or public companies. We also enter into strategic partnerships in order to accelerate the execution of our strategy and enhance returns on our capital. If we determine that we have control over these companies or partnerships, we consolidate the financial statements of these companies or partnerships. If we determine that we do not have control over these companies or partnerships under either voting or VIE models, we then determine if we have an ability to exercise significant influence via voting interests, board representation or other business relationships.

We may account for the equity investments where we exercise significant influence using either an equity method of accounting or at fair value by electing the fair value option under Accounting Standards Codification (“ASC”) Topic 825, Financial Instruments. If the fair value option is applied to an investment that would otherwise be accounted for under the equity method, we apply it to all our financial interests in the same entity (equity and debt, including guarantees) that are eligible items. All gains and losses from fair value changes, unrealized and realized, are presented as changes in fair values of equity and long-term investments, net on the consolidated statements of income.

If we conclude that we do not have an ability to exercise significant influence over an investee, we may elect to account for an equity security without a readily determinable fair value using the measurement alternative as prescribed by ASC Topic 825. This measurement alternative allows us to measure the equity investment at its cost minus impairment, if any, plus or minus changes resulting from observable price changes in orderly transactions for the identical or a similar investment of the same issuer.

There were no significant changes to our critical accounting policies and estimates. Management’s Discussion and Analysis of Financial Condition and Results of Operations contained in Part II, Item 7 of our Annual Report on Form 10-K for the year ended December 31, 2020 filed with the SEC on February 25, 2021 provides a more complete discussion of our critical accounting policies and estimates.

23

Results of Operations

Net Revenue

Total net revenue, as compared to the prior year periods, was as follows:

	Three Months Ended June 30,				Change				Six Months Ended June 30,				Change
(In thousands)	2021		2020		$		%		2021		2020		$		%
Royalties from a related party - RELVAR/BREO	$	65,916	$	45,570	$	20,346	45	%	$	122,306	$	101,719	$	20,587	20	%
Royalties from a related party - ANORO		11,960		11,199		761	7	%		22,460		21,049		1,411	7	%
Royalties from a related party - TRELEGY		26,386		15,633		10,753	69	%		48,470		31,768		16,702	53	%
Total royalties from a related party		104,262		72,402		31,860	44	%		193,236		154,536		38,700	25	%
Less: amortization of capitalized fees paid to a related party		(3,456)		(3,456)		—	0	%		(6,912)		(6,912)		—	0	%
Royalty revenue		100,806		68,946		31,860	46	%		186,324		147,624		38,700	26	%
Strategic alliance -MABA program		—		10,000		(10,000)	*			—		10,000		(10,000)	*
Total net revenue from GSK	$	100,806	$	78,946	$	21,860	28	%	$	186,324	$	157,624	$	28,700	18	%

*Not Meaningful

Total net revenue increased to $100.8 million and $186.3 million for the three and six months ended June 30, 2021, compared to $78.9 million and $157.6 million, respectively, for the same periods a year ago, primarily due to favorable adjustments and the growth in prescriptions for our respiratory products.

Research & Development

Research and development (“R&D”) expenses attributable to Pulmoquine’s product development efforts were de minimis for the three and six months ended June 30, 2021. Research and development expenses of $0.6 million for the three and six months ended June 30, 2020 were attributable to Pulmoquine’s product development efforts.

General & Administrative

General and administrative expenses, as compared to the prior year periods, were as follows:

	Three Months Ended June 30,				Change				Six Months Ended June 30,				Change
(In thousands)	2021		2020		$		%		2021		2020		$		%
General and administrative	$	4,228	$	2,596	$	1,632	63	%	$	10,214	$	5,159	$	5,055	98	%

General and administrative expenses for the three and six months ended June 30, 2021 increased compared to the same periods in 2020 mainly due to business development related advisory service fees and legal expenses incurred for the arbitration initiated by Theravance Biopharma against the Company and TRC. The arbitration related legal fees were recognized in TRC’s statement of income.

Other Income, net and Interest Income

Other income, net and interest income, as compared to the prior year periods, were as follows:

	Three Months Ended June 30,				Change				Six Months Ended June 30,				Change
(In thousands)	2021		2020		$		%		2021		2020		$		%
Other income (expense), net	$	(951)	$	30	$	(981)	*		$	(1,384)	$	98	$	(1,482)	*
Interest income	$	20	$	158	$	(138)	(87)	%	$	50	$	1,460	$	(1,410)	(97)	%

*Not Meaningful

24

The increase in other expense, net, for the three and six months ended June 30, 2021 compared to the same periods a year ago was primarily due to the expenses incurred by ISP Fund LP. Interest income decreased for the three and six months ended June 30, 2021 compared to the same periods a year ago mainly due to lower interest rates impacted by the COVID-19 pandemic.

Interest Expense

Interest expense, as compared to the prior year periods, was as follows:

	Three Months Ended June 30,				Change				Six Months Ended June 30,				Change
(In thousands)	2021		2020		$		%		2021		2020		$		%
Interest expense	$	4,745	$	4,561	$	184	4	%	$	9,439	$	9,077	$	362	4	%

Interest expense includes the amortization of debt discount and issuance costs for our convertible notes. The increase in interest expense was mainly due to more debt discount and issuance costs being recognized through amortization.

Changes in Fair Values of Equity and Long-Term Investments

Changes in fair values of equity and long-term investments, as compared to the prior year periods, were as follows:

	Three Months Ended June 30,				Change				Six Months Ended June 30,				Change
(In thousands)	2021		2020		$		%		2021		2020		$		%
Changes in fair values of equity and long-term investments	$	45,315	$	46,698	$	(1,383)	(3)	%	$	100,360	$	68,613	$	31,747	46	%

The changes in fair values of equity and long-term investments reflect the net changes in the fair values of our equity investments in Armata, Entasis, and InCarda, and those equity investments managed by ISP Fund LP.

Provision for Income Taxes

The provisional income tax expense for the three and six months ended June 30, 2021 was $25.3 million and $45.1 million with an effective income tax rate of 18.6%, respectively, compared to $19.9 million and $35.8 million, respectively, with an effective interest rate of 17.0% in the same period a year ago.

Net Income Attributable to Noncontrolling Interest

Net income attributable to noncontrolling interest, as compared to the prior periods, was as follows:

	Three Months Ended June 30,				Change				Six Months Ended June 30,				Change
(In thousands)	2021		2020		$		%		2021		2020		$		%
Net income attributable to noncontrolling interest	$	21,898	$	21,381	$	517	2	%	$	37,470	$	34,896	$	2,574	7	%

This represents the 85% share of net income in Theravance Respiratory Company, LLC for Theravance Biopharma for the three and six months ended June 30, 2021 and 2020. The increase was primarily due to the increase in the growth in prescriptions and market share for TRELEGY^® ELLIPTA^®.

Liquidity and Capital Resources

Liquidity

Since our inception, we have financed our operations primarily through private placements and public offerings of equity and debt securities and payments received under collaborative arrangements. For the six months ended June 30, 2021, we generated gross royalty revenues from GSK of $193.2 million. Net cash and cash equivalents totaled $43.3 million and receivables from GSK totaled $104.3 million as of June 30, 2021.

25

Adequacy of Cash Resources to Meet Future Needs

We believe that cash from projected future royalty revenues and our cash, cash equivalents and marketable securities will be sufficient to meet our anticipated debt service and operating needs for at least the next 12 months based upon current operating plans and financial forecasts. If our current operating plans and financial forecasts change, we may require additional funding sooner in the form of public or private equity offerings or debt financings. Furthermore, if in our view favorable financing opportunities arise, we may seek additional funding at any time. However, future financing may not be available in amounts or on terms acceptable to us, if at all. This could leave us without adequate financial resources to fund our operations as currently planned. In addition, from time to time we may restructure or reduce our debt, including through tender offers, redemptions, amendments, repurchases or otherwise, all allowable with the terms of our debt agreements.

Cash Flows

Cash flows, as compared to the prior year period, were as follows:

	Six Months Ended June 30,
(In thousands)	2021		2020		Change
Net cash provided by operating activities	$	168,721	$	153,275	$	15,446
Net cash provided by investing activities		63,627		9,044		54,583
Net cash used in financing activities		(435,570)		(27,268)		(408,302)

Cash Flows from Operating Activities

Net cash provided by operating activities for the six months ended June 30, 2021 was $168.7 million, consisting primarily of our net income of $220.5 million, adjusted for net non-cash items such as $45.1 million of deferred income taxes, $6.9 million of depreciation and amortization, and $4.5 million of amortization of debt discount and issuance costs, partially offset by an increase of $99.0 million in the fair value of our equity and long-term investments, net and an increase in receivables from collaborative arrangements of $10.3 million.

Net cash provided by operating activities for the six months ended June 30, 2020 was $153.3 million, consisting primarily of our net income of $177.2 million, adjusted for net non-cash items such as $35.8 million of deferred income taxes, $7.0 million of depreciation and amortization, partially offset by an increase of $68.6 million in the fair value of our equity investments.

Cash Flows from Investing Activities

Net cash provided by investing activities for the six months ended June 30, 2021 of $63.6 million was primarily due to $110.0 million in distribution of equity and long-term investments from the ISP Fund LP, partially offset by $46.4 million investments in Armata, ImaginAb and Entasis.

Net cash provided by investing activities for the six months ended June 30, 2020 of $9.0 million was primarily due to $82.0 million received from maturities of marketable securities, partially offset by $12.9 million in purchases of marketable securities and $60.0 million for our investments in Armata and Entasis.

Cash Flows from Financing Activities

Net cash used in financing activities for the six months ended June 30, 2021 of $435.6 million was primarily due to $394.1 million used for our common stock repurchase from GSK and $41.4 million distributions to noncontrolling interest.

Net cash used in financing activities for the six months ended June 30, 2020 of $27.3 million was primarily due to $28.0 million distributions to noncontrolling interest.

Item 3. Quantitative and Qualitative Disclosure about Market Risk

There have been no significant changes in our market risk or how our market risk is managed compared to those disclosed in our Annual Report on Form 10-K for the year ended December 31, 2020.

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Item 4. Controls and Procedures

Evaluation of Disclosure Controls and Procedures.

We conducted an evaluation as of June 30, 2021, under the supervision and with the participation of our management, of the effectiveness of the design and operation of our disclosure controls and procedures, which are defined under SEC rules as controls and other procedures of a company that are designed to ensure that information required to be disclosed by a company in the reports that it files under the Securities Exchange Act of 1934 (“Exchange Act”) is recorded, processed, summarized and reported within required time periods. Based upon that evaluation, our Chief Executive Officer and Chief Accounting Officer, concluded that, as of such date, our disclosure controls and procedures were effective at the reasonable assurance levels.

Limitations on the Effectiveness of Controls

Our management does not expect that our disclosure controls and procedures or our internal control over financial reporting will prevent all errors and all frauds. A control system, no matter how well conceived and operated, can provide only reasonable, not absolute, assurance that the objectives of the control system are met. Further, the design of a control system must reflect the fact that there are resource constraints, and the benefit of controls must be considered relative to their costs. Because of the inherent limitations in all control systems, no evaluation of controls can provide absolute assurance that all control issues and instances of fraud, if any, within Innoviva have been detected. Also, projections of any evaluation of effectiveness to future periods are subject to the risk that controls may become inadequate because of changes in conditions, or that the degree of compliance with the policies or procedures may deteriorate.

Changes in Internal Control over Financial Reporting

There have been no material changes in our internal control over financial reporting (as defined in Rule 13a-15(f) of the Exchange Act) during the quarter ended June 30, 2021 that have materially affected, or are reasonably likely to materially affect, our internal control over financial reporting.

PART II. OTHER INFORMATION

Item 1. Legal Proceedings

In May 2019, Theravance Biopharma, which is the owner of 85% of the economic interests in TRC, initiated arbitration against the Company and TRC, relating to a dispute as to the determination by Innoviva (as manager of TRC) to cause TRC to explore potential reinvestment opportunities for the royalty proceeds received by GSK into initiatives that Innoviva believes will increase the value of TRC and TRELEGY^® ELLIPTA^®. Theravance Biopharma alleged that, in causing TRC to not distribute substantially all royalty proceeds received from GSK, Innoviva breached the limited liability company operating agreement governing TRC (the “Operating Agreement”), as well as the fiduciary duties applicable to Innoviva as manager of TRC. The hearing in respect of the arbitration was conducted from July 23, 2019 through July 25, 2019. Post-arbitration oral argument was heard on August 14, 2019. On September 26, 2019, the arbitrator issued a final decision. The arbitrator ruled that Innoviva did not breach the Operating Agreement or its fiduciary duties by withholding royalties or pursuing reinvestment opportunities. Accordingly, the Company is permitted to continue to pursue development and commercialization initiatives. The arbitrator did conclude that Innoviva breached a provision of the Operating Agreement requiring Innoviva to deliver quarterly financial plans to Theravance Biopharma. However, the arbitrator concluded that this technical breach did not cause any damages to Theravance Biopharma and the arbitrator awarded limited injunctive relief to expand and clarify the disclosure obligations under the Operating Agreement related to the delivery of financial plans and the pursuit of investment opportunities (if those opportunities related to TRELEGY^® ELLIPTA^®). Finally, the arbitrator ruled that the Company is entitled to indemnification from TRC for 95% of its fees and expenses incurred in connection with the arbitration.

On September 30, 2019, the Company and TRC filed a Verified Complaint in the Court of Chancery of the State of Delaware (“Court of Chancery”) to confirm the arbitration award. The award was confirmed by the Court of Chancery on May 4, 2020.

27

On July 16, 2020, Innoviva and TRC initiated a lawsuit in the Court of Chancery against Theravance Biopharma, seeking a permanent injunction preventing Theravance Biopharma from interfering with Innoviva’s ability to cause TRC to reserve cash to pursue non-Trelegy related investments opportunities and a declaration that the arbitration award conclusively established that Innoviva, as manager of TRC, has such authority. The Court of Chancery directed the parties to obtain the arbitrator’s opinion as to whether the arbitration award addressed non-Trelegy related investment opportunities. On July 31, 2020, the arbitrator, while reiterating that Innoviva has broad authority as manager of TRC, found that this award did not specifically address this situation. Accordingly, on August 5, 2020, the parties stipulated to the dismissal of the Court of Chancery action.

On October 6, 2020, Theravance Biopharma initiated a new arbitration against the Company and TRC, challenging Innoviva’s authority as manager of TRC to cause TRC to pursue non-Trelegy related investment opportunities and again alleging that Innoviva is required to cause TRC to distribute substantially all royalty proceeds from GSK. The hearing in respect of the arbitration was conducted from February 16, 2021 through February 19, 2021. Post-arbitration oral argument was heard on March 8, 2021. On March 30, 2021, the arbitrator issued a final decision. The arbitrator ruled that Innoviva did not breach the Operating Agreement or its fiduciary duties by withholding royalties to pursue non-Trelegy-related investment opportunities. Additionally, the arbitrator ruled that the Company is entitled to indemnification from TRC for 100% of its fees and expenses reasonably incurred in connection with the arbitration.

On April 15, 2021, the Company filed a Verified Complaint in the Court of Chancery to confirm the arbitration award. On May 19, 2021, Theravance Biopharma submitted an answer to the Verified Complaint and filed a Motion to Modify the Arbitral Award, alleging that it contained a mathematical error. The parties filed a proposed stipulation to remand the motion to Chancellor Chandler for his consideration, which the Court of Chancery granted. On June 25, 2021, Innoviva submitted a brief to Chancellor Chandler in opposition to the motion. On July 15, 2021, Theravance Biopharma submitted a reply brief. Chancellor Chandler’s decision on the motion is pending.

Item 1A. Risk Factors

Our business is subject to a number of risks, including those identified in Item 1A of Part I of our 2020 Form 10-K. There have been no material changes to the risk factors described in our 2020 Form 10-K.

Item 2. Unregistered Sales of Equity Securities and Use of Proceeds

None.

Item 3: Defaults Upon Senior Securities

None.

Item 4: Mine Safety Disclosures

None.

Item 5: Other Information

None.

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Item 6. Exhibits

(a) Index to Exhibits

Exhibit Number	Description	Form	Exhibit	Incorporated by Reference Filing Date/Period End Date
10.1	Share Repurchase Agreement, dated as of May 20, 2021, by and between Innoviva, Inc. and Glaxo Group Limited	8-K	10.1	May 20, 2021
10.2	Letter Agreement, dated as of May 20, 2021, by and among Innoviva Strategic Partners LLC, ISP Fund LP and Sarissa Capital Fund GP LP	8-K	10.2	May 20, 2021
31.1	Certification of Principal Executive Officer pursuant to Rules 13a-14 pursuant to the Securities Exchange Act of 1934
31.2	Certification of Principal Financial Officer pursuant to Rules 13a-14 pursuant to the Securities Exchange Act of 1934
32	Certifications Pursuant to 18 U.S.C. Section 1350
101	Interactive Data File (Quarterly Report on Form 10-Q, for the quarterly period ended June 30, 2021) formatted in iXBRL (Inline eXtensible Business Reporting Language).
104	Cover Page Interactive Data File (embedded within the Inline XBRL document and included in Exhibit 101).

29

SIGNATURES

Pursuant to the requirements of the Securities Exchange Act of 1934, the registrant has duly caused this report to be signed on its behalf by the undersigned thereunto duly authorized.

	Innoviva, Inc.
Date: July 29, 2021	/s/ Pavel Raifeld
	Pavel Raifeld
	Chief Executive Officer
	(Principal Executive Officer)
Date: July 29, 2021	/s/ Marianne Zhen
	Marianne Zhen
	Chief Accounting Officer
	(Principal Financial Officer)

30

EX-31.1

Exhibit 31.1

Certification of Principal Executive Officer

Pursuant to Section 302 of the Sarbanes-Oxley Act of 2002

I,    Pavel Raifeld, certify that:

1.    I have reviewed this quarterly report on Form 10-Q of Innoviva, Inc.;

2.    Based on my knowledge, this report does not contain any untrue statement of a material fact or omit to state a material fact necessary to make the statements made, in light of the circumstances under which such statements were made, not misleading with respect to the period covered by this report;

3.    Based on my knowledge, the financial statements, and other financial information included in this report, fairly present in all material respects the financial condition, results of operations and cash flows of the registrant as of, and for, the periods presented in this report;

4.    The registrant’s other certifying officer(s) and I are responsible for establishing and maintaining disclosure controls and procedures (as defined in Exchange Act Rules 13a-15(e) and 15d-15(e)) and internal control over financial reporting (as defined in Exchange Act Rules 13a-15(f) and 15(d)-15(f)) for the registrant and have:

a)    Designed such disclosure controls and procedures, or caused such disclosure controls and procedures to be designed under our supervision, to ensure that material information relating to the registrant, including its consolidated subsidiaries, is made known to us by others within those entities, particularly during the period in which this report is being prepared;

b)    Designed such internal control over financial reporting, or caused such internal control over financial reporting to be designed under our supervision, to provide reasonable assurance regarding the reliability of financial reporting and the preparation of financial statements for external purposes in accordance with generally accepted accounting principles;

c)    Evaluated the effectiveness of the registrant’s disclosure controls and procedures and presented in this report our conclusions about the effectiveness of the disclosure controls and procedures, as of the end of the period covered by this report based on such evaluation; and

d)    Disclosed in this report any change in the registrant’s internal control over financial reporting that occurred during the registrant’s most recent fiscal quarter (the registrant’s fourth fiscal quarter in the case of an annual report) that has materially affected, or is reasonably likely to materially affect, the registrant’s internal control over financial reporting; and

5.    The registrant’s other certifying officer(s) and I have disclosed, based on our most recent evaluation of internal control over financial reporting, to the registrant’s auditors and the audit committee of the registrant’s board of directors (or persons performing the equivalent functions):

a)    All significant deficiencies and material weaknesses in the design or operation of internal control over financial reporting which are reasonably likely to adversely affect the registrant’s ability to record, process, summarize and report financial information; and

b)    Any fraud, whether or not material, that involves management or other employees who have a significant role in the registrant’s internal control over financial reporting.

Date:	July 29, 2021	/s/ Pavel Raifeld
		Pavel Raifeld
		Chief Executive Officer
		(Principal Executive Officer)

EX-31.2

Exhibit 31.2

Certification of Principal Financial Officer

Pursuant to Section 302 of the Sarbanes-Oxley Act of 2002

I,    Marianne Zhen, certify that:

1.    I have reviewed this quarterly report on Form 10-Q of Innoviva, Inc.;

2.    Based on my knowledge, this report does not contain any untrue statement of a material fact or omit to state a material fact necessary to make the statements made, in light of the circumstances under which such statements were made, not misleading with respect to the period covered by this report;

3.    Based on my knowledge, the financial statements, and other financial information included in this report, fairly present in all material respects the financial condition, results of operations and cash flows of the registrant as of, and for, the periods presented in this report;

4.    The registrant’s other certifying officer(s) and I are responsible for establishing and maintaining disclosure controls and procedures (as defined in Exchange Act Rules 13a-15(e) and 15d-15(e)) and internal control over financial reporting (as defined in Exchange Act Rules 13a-15(f) and 15(d)-15(f)) for the registrant and have:

a)    Designed such disclosure controls and procedures, or caused such disclosure controls and procedures to be designed under our supervision, to ensure that material information relating to the registrant, including its consolidated subsidiaries, is made known to us by others within those entities, particularly during the period in which this report is being prepared;

b)    Designed such internal control over financial reporting, or caused such internal control over financial reporting to be designed under our supervision, to provide reasonable assurance regarding the reliability of financial reporting and the preparation of financial statements for external purposes in accordance with generally accepted accounting principles;

c)    Evaluated the effectiveness of the registrant’s disclosure controls and procedures and presented in this report our conclusions about the effectiveness of the disclosure controls and procedures, as of the end of the period covered by this report based on such evaluation; and

d)    Disclosed in this report any change in the registrant’s internal control over financial reporting that occurred during the registrant’s most recent fiscal quarter (the registrant’s fourth fiscal quarter in the case of an annual report) that has materially affected, or is reasonably likely to materially affect, the registrant’s internal control over financial reporting; and

5.    The registrant’s other certifying officer(s) and I have disclosed, based on our most recent evaluation of internal control over financial reporting, to the registrant’s auditors and the audit committee of the registrant’s board of directors (or persons performing the equivalent functions):

a)    All significant deficiencies and material weaknesses in the design or operation of internal control over financial reporting which are reasonably likely to adversely affect the registrant’s ability to record, process, summarize and report financial information; and

b)    Any fraud, whether or not material, that involves management or other employees who have a significant role in the registrant’s internal control over financial reporting.

9
Date:	July 29, 2021	/s/ Marianne Zhen
		Marianne Zhen
		Chief Accounting Officer
		(Principal Financial Officer)

EX-32

Exhibit 32

CERTIFICATION OF PRINCIPAL EXECUTIVE OFFICER

PURSUANT TO

18 U.S.C. SECTION 1350,

AS ADOPTED PURSUANT TO

SECTION 906 OF THE SARBANES-OXLEY ACT OF 2002

I, Pavel Raifeld, certify, pursuant to 18 U.S.C. Section 1350, as adopted pursuant to Section 906 of the Sarbanes-Oxley Act of 2002, that the Quarterly Report of Innoviva, Inc. on Form 10-Q for the period ended June 30, 2021 fully complies with the requirements of Section 13(a) or 15(d) of the Securities Exchange Act of 1934, as amended and that information contained in such Quarterly Report on Form 10-Q fairly presents in all material respects the financial condition of Innoviva, Inc. at the end of the periods covered by such Quarterly Report on Form 10-Q and results of operations of Innoviva, Inc. for the periods covered by such Quarterly Report on Form 10-Q.

Date:	July 29, 2021	By:	/s/ Pavel Raifeld
			Pavel Raifeld
			Chief Executive Officer
			(Principal Executive Officer)

CERTIFICATION OF

PRINCIPAL FINANCIAL OFFICER

PURSUANT TO

18 U.S.C. SECTION 1350,

AS ADOPTED PURSUANT TO

SECTION 906 OF THE SARBANES-OXLEY ACT OF 2002

I, Marianne Zhen, certify, pursuant to 18 U.S.C. Section 1350, as adopted pursuant to Section 906 of the Sarbanes-Oxley Act of 2002, that the Quarterly Report of Innoviva, Inc. on Form 10-Q for the period ended June 30, 2021 fully complies with the requirements of Section 13(a) or 15(d) of the Securities Exchange Act of 1934, as amended and that information contained in such Quarterly Report on Form 10-Q fairly presents in all material respects the financial condition of Innoviva, Inc. at the end of the periods covered by such Quarterly Report on Form 10-Q and results of operations of Innoviva, Inc. for the periods covered by such Quarterly Report on Form 10-Q.

Date:	July 29, 2021	By:	/s/ Marianne Zhen
			Marianne Zhen
			Chief Accounting Officer
			(Principal Financial Officer)

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Document and Entity Information - shares	6 Months Ended
	Jun. 30, 2021	Jul. 19, 2021
Document and Entity Information
Entity Registrant Name	INNOVIVA, INC.
Document Type	10-Q
Document Quarterly Report	true
Document Period End Date	Jun. 30, 2021
Document Transition Report	false
Entity File Number	000-30319
Entity Incorporation, State or Country Code	DE
Entity Tax Identification Number	94-3265960
Entity Address, Address Line One	1350 Old Bayshore Highway Suite 400
Entity Address, City or Town	Burlingame
Entity Address, State or Province	CA
Entity Address, Postal Zip Code	94010
City Area Code	650
Local Phone Number	238-9600
Title of 12(b) Security	Common Stock, par value $0.01 per share
Trading Symbol	INVA
Security Exchange Name	NASDAQ
Entity Current Reporting Status	Yes
Entity Interactive Data Current	Yes
Entity Filer Category	Large Accelerated Filer
Entity Small Business	false
Entity Emerging Growth Company	false
Entity Shell Company	false
Entity Common Stock, Shares Outstanding		69,494,582
Entity Central Index Key	0001080014
Current Fiscal Year End Date	--12-31
Document Fiscal Year Focus	2021
Document Fiscal Period Focus	Q2
Amendment Flag	false

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CONSOLIDATED BALANCE SHEETS - USD ($) $ in Thousands	Jun. 30, 2021	Dec. 31, 2020	[1]
Current assets:
Cash and cash equivalents	$ 43,265	$ 246,487
Related party receivables from collaborative arrangements	104,262	93,931
Prepaid expenses and other current assets	734	1,640
Total current assets	148,261	342,058
Property and equipment, net	19	28
Equity and long-term investments	473,677	438,258
Capitalized fees paid to a related party, net	118,341	125,253
Deferred tax assets, net	48,690	93,759
Other assets	162	214
Total assets	789,150	999,570
Current liabilities:
Accounts payable	30	66
Accrued personnel-related expenses	389	490
Accrued interest payable	4,152	4,152
Other accrued liabilities	800	1,402
Total current liabilities	5,371	6,110
Long-term debt, net of discount and issuance costs	389,989	385,517
Other long-term liabilities	45	106
Commitments and contingencies (Note 8)
Stockholders' equity:
Preferred stock: $0.01 par value, 230 shares authorized, no shares issued and outstanding	0	0
Common stock: $0.01 par value, 200,000 shares authorized, 69,495 and 101,392 issued and outstanding as of June 30, 2021 and December 31, 2020, respectively	695	1,014
Treasury stock: at cost, 32,005 and 0 shares at June 30, 2021 and December 31, 2020, respectively	(393,829)	0
Additional paid-in capital	1,261,845	1,260,900
Accumulated deficit	(538,931)	(722,002)
Total Innoviva stockholders' equity	329,780	539,912
Noncontrolling interest	63,965	67,925
Total stockholders' equity	393,745	607,837
Total liabilities and stockholders' equity	$ 789,150	$ 999,570

[1] Consolidated balance sheet as of December 31, 2020 has been derived from audited consolidated financial statements.

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CONSOLIDATED BALANCE SHEETS (Parenthetical) - $ / shares shares in Thousands	Jun. 30, 2021	Dec. 31, 2020
CONSOLIDATED BALANCE SHEETS
Preferred stock, par value (in dollars per share)	$ 0.01	$ 0.01
Preferred stock, shares authorized	230	230
Preferred stock, shares issued	0	0
Preferred stock, shares outstanding	0	0
Common stock, par value (in dollars per share)	$ 0.01	$ 0.01
Common stock, shares authorized	200,000	200,000
Common stock, shares issued	69,495	101,392
Common stock, shares outstanding	69,495	101,392
Treasury stock, shares	32,005	0

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CONSOLIDATED STATEMENTS OF INCOME - USD ($) shares in Thousands, $ in Thousands	3 Months Ended		6 Months Ended
	Jun. 30, 2021	Jun. 30, 2020	Jun. 30, 2021	Jun. 30, 2020
Total net revenue	$ 100,806	$ 78,946	$ 186,324	$ 157,624
Operating expenses:
Research and development	38	559	87	559
General and administrative	4,228	2,596	10,214	5,159
Total operating expenses	4,266	3,155	10,301	5,718
Income from operations	96,540	75,791	176,023	151,906
Other income (expense), net	(951)	30	(1,384)	98
Interest income	20	158	50	1,460
Interest expense	(4,745)	(4,561)	(9,439)	(9,077)
Changes in fair values of equity and long-term investments, net	45,315	46,698	100,360	68,613
Income before income taxes	136,179	118,116	265,610	213,000
Income tax expense, net	25,333	19,891	45,069	35,823
Net income	110,846	98,225	220,541	177,177
Net income attributable to noncontrolling interest	21,898	21,381	37,470	34,896
Net income attributable to Innoviva stockholders	$ 88,948	$ 76,844	$ 183,071	$ 142,281
Basic net income per share attributable to Innoviva stockholders	$ 1.01	$ 0.76	$ 1.93	$ 1.40
Diluted net income per share attributable to Innoviva stockholders	$ 0.90	$ 0.69	$ 1.73	$ 1.27
Shares used to compute Innoviva basic and diluted net income per share:
Shares used to compute basic net income per share	88,423	101,324	94,858	101,280
Shares used to compute diluted net income per share	100,639	113,545	107,096	113,527
Royalty revenue from a related party
Total net revenue	$ 100,806	$ 68,946	$ 186,324	$ 147,624
Revenue from collaborative arrangements with a related party
Total net revenue	$ 0	$ 10,000	$ 0	$ 10,000

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CONSOLIDATED STATEMENTS OF INCOME (Parenthetical) - USD ($) $ in Thousands	3 Months Ended		6 Months Ended
	Jun. 30, 2021	Jun. 30, 2020	Jun. 30, 2021	Jun. 30, 2020
Royalty revenue from a related party | GSK
Amortization of capitalized fees paid to a related party	$ 3,456	$ 3,456	$ 6,912	$ 6,912

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CONSOLIDATED STATEMENTS OF COMPREHENSIVE INCOME - USD ($) $ in Thousands	3 Months Ended		6 Months Ended
	Jun. 30, 2021	Jun. 30, 2020	Jun. 30, 2021	Jun. 30, 2020
CONSOLIDATED STATEMENTS OF COMPREHENSIVE INCOME
Net income	$ 110,846	$ 98,225	$ 220,541	$ 177,177
Unrealized loss on marketable securities, net	0	(35)	0	(29)
Comprehensive income	110,846	98,190	220,541	177,148
Comprehensive income attributable to noncontrolling interest	21,898	21,381	37,470	34,896
Comprehensive income attributable to Innoviva stockholders	$ 88,948	$ 76,809	$ 183,071	$ 142,252

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CONSOLIDATED STATEMENTS OF STOCKHOLDERS' EQUITY - USD ($) shares in Thousands, $ in Thousands	Common stock	Additional Paid-In Capital	Accumulated Other Comprehensive Income (Loss)	Accumulated Deficit	Treasury Stock	Noncontrolling Interest	Total
Balance at Dec. 31, 2019	$ 1,013	$ 1,258,859	$ 27	$ (946,404)		$ 28,621	$ 342,116
Balance (in shares) at Dec. 31, 2019	101,288
Increase (Decrease) in Stockholders' Equity
Distributions to noncontrolling interest	$ 0	0	0	0		(15,810)	(15,810)
Exercise of stock options, and issuance of common stock units and stock awards, net of repurchase of shares to satisfy tax withholding	$ 0	170	0	0		0	170
Exercise of stock options, and issuance of common stock units and stock awards, net of repurchase of shares to satisfy tax withholding (in shares)	32
Stock-based compensation	$ 0	435	0	0		0	435
Net income	0	0	0	65,437		13,515	78,952
Other comprehensive income	0	0	6	0		0	6
Balance at Mar. 31, 2020	$ 1,013	1,259,464	33	(880,967)		26,326	405,869
Balance (in shares) at Mar. 31, 2020	101,320
Balance at Dec. 31, 2019	$ 1,013	1,258,859	27	(946,404)		28,621	342,116
Balance (in shares) at Dec. 31, 2019	101,288
Increase (Decrease) in Stockholders' Equity
Net income							177,177
Balance at Jun. 30, 2020	$ 1,015	1,260,017	(2)	(804,123)		35,905	492,812
Balance (in shares) at Jun. 30, 2020	101,392
Balance at Mar. 31, 2020	$ 1,013	1,259,464	33	(880,967)		26,326	405,869
Balance (in shares) at Mar. 31, 2020	101,320
Increase (Decrease) in Stockholders' Equity
Distributions to noncontrolling interest	$ 0	0	0	0		(12,152)	(12,152)
Equity activity of noncontrolling interest from a consolidated variable interest entity	0	0	0	0		350	350
Exercise of stock options, and issuance of common stock units and stock awards, net of repurchase of shares to satisfy tax withholding	$ 2	178	0	0		0	180
Exercise of stock options, and issuance of common stock units and stock awards, net of repurchase of shares to satisfy tax withholding (in shares)	72
Stock-based compensation	$ 0	375	0	0		0	375
Net income	0	0	0	76,844		21,381	98,225
Other comprehensive income	0	0	(35)	0		0	(35)
Balance at Jun. 30, 2020	$ 1,015	1,260,017	(2)	(804,123)		35,905	492,812
Balance (in shares) at Jun. 30, 2020	101,392
Balance at Dec. 31, 2020	$ 1,014	1,260,900	0	(722,002)	$ 0	67,925	$ 607,837	[1]
Balance (in shares) at Dec. 31, 2020	101,392						101,392
Increase (Decrease) in Stockholders' Equity
Distributions to noncontrolling interest	$ 0	0	0	0	0	(21,285)	$ (21,285)
Equity activity of noncontrolling interest from a consolidated variable interest entity	0	0	0	0	0	8	8
Exercise of stock options, and issuance of common stock units and stock awards, net of repurchase of shares to satisfy tax withholding	$ 0	(25)	0	0	0	0	(25)
Exercise of stock options, and issuance of common stock units and stock awards, net of repurchase of shares to satisfy tax withholding (in shares)	16
Stock-based compensation	$ 0	451	0	0	0	0	451
Net income	0	0	0	94,123	0	15,572	109,695
Balance at Mar. 31, 2021	$ 1,014	1,261,326	0	(627,879)	0	62,220	696,681
Balance (in shares) at Mar. 31, 2021	101,408
Balance at Dec. 31, 2020	$ 1,014	1,260,900	0	(722,002)	0	67,925	$ 607,837	[1]
Balance (in shares) at Dec. 31, 2020	101,392						101,392
Increase (Decrease) in Stockholders' Equity
Net income							$ 220,541
Balance at Jun. 30, 2021	$ 695	1,261,845	0	(538,931)	$ (393,829)	63,965	$ 393,745
Balance (in shares) at Jun. 30, 2021	69,495				32,005		69,495
Balance at Mar. 31, 2021	$ 1,014	1,261,326	0	(627,879)	$ 0	62,220	$ 696,681
Balance (in shares) at Mar. 31, 2021	101,408
Increase (Decrease) in Stockholders' Equity
Distributions to noncontrolling interest	$ 0	0	0	0	0	(20,161)	(20,161)
Equity activity of noncontrolling interest from a consolidated variable interest entity	0	0	0	0	0	8	8
Exercise of stock options, and issuance of common stock units and stock awards, net of repurchase of shares to satisfy tax withholding	$ 1	49	0	0	0	0	50
Exercise of stock options, and issuance of common stock units and stock awards, net of repurchase of shares to satisfy tax withholding (in shares)	92
Repurchase of common stock	$ (320)	0	0	0	$ (393,829)	0	(394,149)
Repurchase of common stock (in shares)	(32,005)				32,005
Stock-based compensation	$ 0	470	0	0	$ 0	0	470
Net income	0	0	0	88,948	0	21,898	110,846
Balance at Jun. 30, 2021	$ 695	$ 1,261,845	$ 0	$ (538,931)	$ (393,829)	$ 63,965	$ 393,745
Balance (in shares) at Jun. 30, 2021	69,495				32,005		69,495

[1] Consolidated balance sheet as of December 31, 2020 has been derived from audited consolidated financial statements.

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CONSOLIDATED STATEMENTS OF CASH FLOWS - USD ($) $ in Thousands	6 Months Ended
	Jun. 30, 2021	Jun. 30, 2020
Cash flows from operating activities
Net income	$ 220,541	$ 177,177
Adjustments to reconcile net income to net cash provided by operating activities:
Deferred income taxes	45,069	35,823
Depreciation and amortization	6,918	6,921
Stock-based compensation	921	810
Amortization of debt discount and issuance costs	4,472	4,110
Amortization of discount on short-term investments	0	(336)
Amortization of lease guarantee	0	(135)
Changes in fair values of equity and long-term investments, net	(99,046)	(68,613)
Other non-cash items	16	6
Changes in operating assets and liabilities:
Receivables from collaborative arrangements	(10,331)	(2,975)
Prepaid expenses and other current assets	906	317
Accounts payable	(36)	185
Accrued personnel-related expenses and other accrued liabilities	(709)	(15)
Net cash provided by operating activities	168,721	153,275
Cash flows from investing activities
Maturities of marketable securities	0	82,000
Purchases of marketable securities	0	(12,943)
Purchases of equity and long term investments	(46,373)	(60,000)
Distributions of equity and long-term investments	110,000	0
Purchases of property and equipment	0	(13)
Net cash provided by (used in) investing activities	63,627	9,044
Cash flows from financing activities
Repurchase of common stock	(394,149)	0
Distributions to noncontrolling interest	(41,446)	(27,962)
Repurchase of shares to satisfy tax withholding	(35)	(72)
Proceeds from issuances of common stock, net	60	422
Net proceeds from the issuance of variable interest entity's equity	0	344
Net cash used in financing activities	(435,570)	(27,268)
Net increase (decrease) in cash and cash equivalents	(203,222)	135,051
Cash and cash equivalents at beginning of period	246,487	278,096
Cash and cash equivalents at end of period	43,265	413,147
Supplemental disclosure of cash flow information
Cash paid for interest	$ 4,967	$ 4,967

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Description of Operations and Summary of Significant Accounting Policies

6 Months Ended

Jun. 30, 2021

Description of Operations and Summary of Significant Accounting Policies

Description of Operations and Summary of Significant Accounting Policies

1. Description of Operations and Summary of Significant Accounting Policies

Description of Operations

Innoviva Inc. (referred to as “Innoviva”, the “Company”, or “we” and other similar pronouns) is a company with a portfolio of royalties and other healthcare assets. Our royalty portfolio contains respiratory assets partnered with Glaxo Group Limited (“GSK”), including RELVAR^®/BREO^® ELLIPTA^® (fluticasone furoate/ vilanterol, “FF/VI”), ANORO^® ELLIPTA^® (umeclidinium bromide/ vilanterol, “UMEC/VI”) and TRELEGY^® ELLIPTA^® (the combination FF/UMEC/VI). Under the Long-Acting Beta2 Agonist (“LABA”) Collaboration Agreement, Innoviva is entitled to receive royalties from GSK on sales of RELVAR^®/BREO^® ELLIPTA^® as follows: 15% on the first $3.0 billion of annual global net sales and 5% for all annual global net sales above $3.0 billion; and royalties from the sales of ANORO^® ELLIPTA^®, which tier upward at a range from 6.5% to 10%. Innoviva is also entitled to 15% of royalty payments made by GSK under its agreements originally entered into with us, and since assigned to Theravance Respiratory Company, LLC (“TRC”), including TRELEGY^® ELLIPTA^® and any other product or combination of products that may be discovered or developed in the future under the LABA Collaboration Agreement and the Strategic Alliance Agreement with GSK (referred to herein as the “GSK Agreements”), which have been assigned to TRC other than RELVAR^®/BREO^® ELLIPTA^® and ANORO^® ELLIPTA^®.

Basis of Presentation

The accompanying unaudited consolidated financial statements have been prepared in accordance with accounting principles generally accepted in the United States of America (“US GAAP”) for interim financial information. Accordingly, they do not include all of the information and notes required by US GAAP for complete financial statements. In our opinion, the unaudited consolidated financial statements have been prepared on the same basis as audited consolidated financial statements and include all adjustments, consisting of only normal recurring adjustments, necessary for the fair presentation of our financial position, results of operations, comprehensive income and cash flows. The interim results are not necessarily indicative of the results of operations to be expected for the year ending December 31, 2021 or any other period.

The accompanying unaudited consolidated financial statements include the accounts of Innoviva, our wholly-owned subsidiaries and certain variable interest entities for which we are the primary beneficiary. All intercompany balances and transactions have been eliminated in consolidation. For consolidated entities where we own or are exposed to less than 100% of the economics, we record net income (loss) attributable to noncontrolling interest in our unaudited consolidated statements of income equal to the percentage of the economic or ownership interest retained in such entities by the respective noncontrolling parties. The accompanying unaudited consolidated financial statements should be read in conjunction with the audited consolidated financial statements and notes thereto included in our Annual Report on Form 10-K for the year ended December 31, 2020 filed with the Securities and Exchange Commission (“SEC”) on February 25, 2021 (“2020 Form 10-K”).

Variable Interest Entities

We evaluate our ownership, contractual and other interest in entities to determine if they are variable interest entities (“VIE”). We evaluate whether we have a variable interest in those entities and the nature and extent of those interests. Based on our evaluation, if we determine we are the primary beneficiary of a VIE, we consolidate the entity in our financial statements.

Equity Investments

We invest from time to time in equity securities of private or public companies. If we determine that we have control over these companies under either voting or VIE models, we include them in our consolidated financial statements. If we determine that we do not have control over these companies under either voting or VIE models, we then determine if we have an ability to exercise significant influence via voting interests, board representation or other business relationships.

We may account for the equity investments where we exercise significant influence using either an equity method of accounting or at fair value by electing the fair value option under Accounting Standards Codification (“ASC”) Topic 825, Financial Instruments. If the fair value option is applied to an investment that would otherwise be accounted for under the equity method, we apply it to all our financial interests in the same entity (equity and debt, including guarantees) that are eligible items. All gains and losses from fair value changes, unrealized and realized, are presented as changes in fair values of equity and long-term investments, net on the consolidated statements of income.

If we conclude that we do not have an ability to exercise significant influence over an investee, we may elect to account for an equity security without a readily determinable fair value using the measurement alternative described in ASC Topic 825. This measurement alternative allows us to measure the equity investment at its cost minus impairment, if any, plus or minus changes resulting from observable price changes in orderly transactions for the identical or a similar investment of the same issuer.

Accounting Pronouncement Adopted by the Company

In December 2019, the Financial Accounting Standards Board (“FASB”) issued Accounting Standards Update (“ASU”) No. 2019-12, “Income Taxes (Topic 740): Simplifying the Accounting for Income Taxes”, which is intended to simplify various aspects related to accounting for income taxes by removing certain exceptions to the general principles in Topic 740. The pronouncement is effective for fiscal years, and for interim periods within those fiscal years, beginning after December 15, 2020, with early adoption permitted. We adopted ASU 2019-12 effective January 1, 2021. The adoption did not have a material impact on our consolidated financial statements.

In October 2020, the FASB issued ASU 2020-10, Codification Improvements. This ASU improves the codification by ensuring that all guidance that requires or provides an option for an entity to provide information in the notes to financial statements is codified in the disclosure section of the codification. The ASU also clarifies various topics in the codification so that entities can apply guidance more consistently. The ASU is effective for fiscal years beginning after December 15, 2020. We adopted ASU 2020-10 effective January 1, 2021. The adoption did not have a material impact on our consolidated financial statements.

Recently Issued Accounting Standards or Updates Not Yet Adopted

In August 2020, the FASB issued ASU 2020-06, Debt-Debt with Conversion and Other Options (Subtopic 470-20) and Derivatives and Hedging-Contracts in Entity’s Own Equity (Subtopic 815-40): Accounting for Convertible Instruments and Contracts in an Entity’s Own Equity, which is intended to simplify the accounting for convertible instruments by removing certain separation models in Subtopic 470-20 for convertible instruments. The ASU is effective for fiscal years beginning after December 15, 2021, and for interim periods within those fiscal years with early adoption permitted. We are currently in the process of evaluating the effects of the provisions of ASU 2020-06 on our consolidated financial statements.

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Net Income Per Share

6 Months Ended

Jun. 30, 2021

Net Income Per Share

Net Income Per Share

2. Net Income Per Share

Basic net income per share attributable to Innoviva stockholders is computed by dividing net income attributable to Innoviva stockholders by the weighted-average number of shares of common stock outstanding. Diluted net income per share attributable to Innoviva stockholders is computed by dividing net income attributable to Innoviva stockholders by the weighted-average number of shares of common stock and dilutive potential common stock equivalents then outstanding. Dilutive potential common stock equivalents include the assumed exercise, vesting and issuance of employee stock awards using the treasury stock method, as well as common stock issuable upon assumed conversion of our convertible subordinated notes due 2023 (the “2023 Notes”) using the if converted method.

Our convertible senior notes due 2025 (the “2025 Notes”) are convertible, based on the applicable conversion rate, into cash, shares of our common stock or a combination thereof, at our election. Our current intent is to settle the principal amount of the 2025 Notes in cash upon conversion. The impact of the assumed conversion premium to diluted net income per share is computed using the treasury stock method. As the average market price per share of our common stock as reported on The Nasdaq Global Select Market was lower than the initial conversion price of $17.26 per share, there was no dilutive effect of the assumed conversion premium for the three and six months ended June 30, 2021 and 2020, respectively.

The following table shows the computation of basic and diluted net income per share for the three and six months ended June 30, 2021 and 2020:

	Three Months Ended June 30,				Six Months Ended June 30,
(In thousands except per share data)	2021		2020		2021		2020
Numerator:
Net income attributable to Innoviva stockholders, basic	$	88,948	$	76,844	$	183,071	$	142,281
Add: interest expense on 2023 Notes		1,163		1,184		2,367		2,364
Net income attributable to Innoviva stockholders, diluted	$	90,111	$	78,028	$	185,438	$	144,645
Denominator:
Weighted-average shares used to compute basic net income per share attributable to Innoviva stockholders		88,423		101,324		94,858		101,280
Dilutive effect of 2023 Notes		12,189		12,189		12,189		12,189
Dilutive effect of options and awards granted under equity incentive plan and employee stock purchase plan		27		32		49		58
Weighted-average shares used to compute diluted net income per share attributable to Innoviva stockholders		100,639		113,545		107,096		113,527
Net income per share attributable to Innoviva stockholders
Basic	$	1.01	$	0.76	$	1.93	$	1.40
Diluted	$	0.90	$	0.69	$	1.73	$	1.27

Anti-Dilutive Securities

The following common stock equivalents were not included in the computation of diluted net income per share because their effect was anti-dilutive:

	Three Months Ended June 30,				Six Months Ended June 30,
(In thousands)	2021		2020		2021		2020
Outstanding options and awards granted under equity incentive plan and employee stock purchase plan		1,093		1,154		1,126		1,124

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Revenue Recognition and Collaborative Arrangements

6 Months Ended

Jun. 30, 2021

Revenue Recognition and Collaborative Arrangements

Revenue Recognition and Collaborative Arrangements

3. Revenue Recognition and Collaborative Arrangements

We recognize royalty revenue on net sales of products with respect to which we have contractual royalty rights in the period in which the royalties are earned and reported to us. Royalties, which may include adjustments of estimates of net sales in prior periods, are recognized net of amortization of capitalized fees associated with any approval and launch milestone payments made to GSK.

Net Revenue from Collaborative Arrangements

Net revenue recognized under our GSK Agreements was as follows:

	Three Months Ended June 30,				Six Months Ended June 30,
(In thousands)	2021		2020		2021		2020
Royalties from a related party - RELVAR/BREO	$	65,916	$	45,570	$	122,306	$	101,719
Royalties from a related party - ANORO		11,960		11,199		22,460		21,049
Royalties from a related party - TRELEGY		26,386		15,633		48,470		31,768
Total royalties from a related party		104,262		72,402		193,236		154,536
Less: amortization of capitalized fees paid to a related party		(3,456)		(3,456)		(6,912)		(6,912)
Royalty revenue		100,806		68,946		186,324		147,624
Strategic alliance  - MABA program		—		10,000		—		10,000
Total net revenue from GSK	$	100,806	$	78,946	$	186,324	$	157,624

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Consolidated Entities

6 Months Ended

Jun. 30, 2021

Consolidated Entities

Consolidated Entities

4. Consolidated Entities

We consolidate the financial results of TRC and Pulmoquine Therapeutics, Inc. (“Pulmoquine”), which we have determined to be VIEs. As we have the power to direct the economically significant activities of these entities and the obligation to absorb losses of, or the right to receive benefits from them, we are the primary beneficiary of the entities. We also consolidate the financial results of ISP Fund LP (the “Partnership”), our partnership with Sarissa Capital Management LP (“Sarissa Capital”), as we have determined that the Partnership is a VIE and we are its primary beneficiary.

Theravance Respiratory Company, LLC

The primary source of revenue for TRC is the royalties generated from the net sales of TRELEGY^® ELLIPTA^® by GSK. As of June 30, 2021, TRC held equity investments in InCarda Therapeutics, Inc. (“InCarda”) and ImaginAb, Inc. (“ImaginAb”). Refer to Note 5, “Financial Instruments and Fair Value Measurements,” for more information.

The summarized financial information for TRC is presented as follows:

Balance sheets

	June 30,		December 31,
(In thousands)	2021		2020
Assets
Cash and cash equivalents	$	26,128	$	38,081
Receivables from collaborative arrangements		26,386		24,946
Prepaid expenses and other current assets		1		—
Equity and long-term investments		22,594		16,959
Total assets		75,109		79,986
Liabilities and LLC Members’ Equity
Current liabilities		274		508
LLC members’ equity		74,835		79,478
Total liabilities and LLC members’ equity	$	75,109	$	79,986

Income statements

	Three Months Ended June 30,				Six Months Ended June 30,
(In thousands)	2021		2020		2021		2020
Royalty revenue from a related party	$	26,386	$	15,633	$	48,470	$	31,768
Strategic alliance - MABA program		—		10,000		—		10,000
Total net revenue		26,386		25,633		48,470		41,768
Operating expenses		336		480		3,617		751
Income from operations		26,050		25,153		44,853		41,017
Other income, net		—		1		—		37
Changes in fair values of equity and long-term investments		(254)		—		(737)		—
Net income	$	25,796	$	25,154	$	44,116	$	41,054

Pulmoquine Therapeutics, Inc.

In April 2020, we purchased 5,808,550 shares of Series A preferred stock of Pulmoquine for $5.0 million in cash and held a majority voting interest. Pulmoquine is a biotechnology company focused on the research and development of an aerosolized formulation of hydroxychloroquine to treat respiratory infections. As of June 30, 2021 and December 31, 2020, Pulmoquine’s total assets, mainly attributable to cash and cash equivalents, were $3.2 million and $3.5 million, respectively. Pulmoquine does not currently generate revenue. Total operating expense was de minimis and $0.2 million for the three months and six months ended June 30, 2021, respectively. Total operating expense was $0.6 million for the three and six months ended June 30, 2020.

ISP Fund LP

In December 2020, Innoviva Strategic Partners LLC, our wholly owned subsidiary (“Strategic Partners”), contributed $300.0 million to ISP Fund LP (the “Partnership”) for investing in “long” positions in the healthcare, pharmaceutical and biotechnology sectors and became a limited partner. The general partner of the Partnership (“General Partner”) is an affiliate of Sarissa Capital.

In May 2021, Strategic Partners received a distribution of $110.0 million from the Partnership to provide funding to Innoviva for a strategic repurchase of shares held by GSK. Pursuant to the letter agreement entered into between Strategic Partners, the Partnership and Sarissa Capital Fund GP LP on May 20, 2021, Strategic Partners is obligated to make additional capital contributions to the Partnership in an aggregate amount equal to the amount of the distribution ($110.0 million) prior to March 31, 2022. The capital contributions will then be subject to a 36-month lock up period from the contribution date.

As of June 30, 2021, we continued to hold 100% of the economic interest of the Partnership. As of June 30, 2021 and December 31, 2020, total assets of the Partnership were $219.0 million and $299.3 million, respectively, of which all were attributable to equity and long-term investments. During the three and six months ended June 30, 2021, the Partnership incurred $0.9 million and $1.3 million, respectively, of investment-related expenses, net of investment-related income. During the three and six months ended June 30, 2021, the Partnership recorded net unrealized and realized gains of $25.2 million and $31.0 million, respectively, as changes in fair values of equity and long-term investments, net on the consolidated statements of income.

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Financial Instruments and Fair Value Measurements

6 Months Ended

Jun. 30, 2021

Financial Instruments and Fair Value Measurements

Financial Instruments and Fair Value Measurements

5. Financial Instruments and Fair Value Measurements

Equity Investment in Armata

During the first quarter of 2020, Innoviva acquired 8,710,800 shares of common stock and an equal number of warrants of Armata Pharmaceuticals, Inc. (“Armata”) for $25.0 million in cash. Armata is a clinical stage biotechnology company focused on precisely targeted bacteriophage therapeutics for antibiotic-resistant infections.

On January 26, 2021, Innoviva Strategic Opportunities LLC (“ISO”), our wholly owned subsidiary, entered into a securities purchase agreement with Armata to acquire 6,153,847 shares of Armata common stock and warrants to purchase 6,153,847 additional shares of Armata common stock for approximately $20.0 million. The investment was closed in two tranches on January 26, 2021 and March 17, 2021. The investments support Armata’s ongoing advancement of its bacteriophage development programs. The additional investment in the first quarter of 2021 increased Innoviva and ISO’s combined ownership to 59.6% as of March 31, 2021. Armata entered into a voting agreement with the Company and ISO, pursuant to which the Company and ISO agreed not to vote or take any action by written consent with respect to any common shares held by the Company and ISO that represent, in the aggregate, more than

49.5% of the total number of shares of Armata’s common stock issued and outstanding as of the record date for voting on the matters related to election or removal of Armata’s board members. Currently, three of the seven members of Armata’s board of directors are also members of the board of directors of Innoviva. As of June 30, 2021 and December 31, 2020, we owned approximately 59.5% and 46.6%, respectively, of Armata’s common stock.

The investment in Armata provides Innoviva and ISO the ability to have significant influence, but not control over Armata’s operations. Based on our evaluation, we determined that Armata is a VIE, but Innoviva and ISO are not the primary beneficiary of the VIE. We continue to elect the fair value option to account for both Armata’s common stock and warrants. The fair value of Armata’s common stock is measured based on its closing market price. The warrants purchased in 2020 and 2021 have an exercise price of $2.87 and $3.25 per share, respectively, are exercisable immediately within five years from the issuance date of the warrants and include a cashless exercise option. We use the Black-Scholes-Merton pricing model to estimate the fair value of these warrants with the following input assumptions: Armata’s closing market price on the valuation date, the risk-free interest rate computed based on the U.S. Treasury yield, the remaining contractual term as the expected term, and the expected stock price volatility calculated based on the historical volatility of the common stock of Armata and its peer companies.

As of June 30, 2021, the fair values of Armata’s common stock and warrants were estimated at $59.0 million and $41.9 million, respectively. As of December 31, 2020, the fair values of Armata’s common stock and warrants were estimated at $26.0 million and $18.0 million, respectively. The total fair value of both financial instruments in the amount of $100.9 million and $44.0 million was recorded as equity and long-term investments on the consolidated balance sheets as of June 30, 2021 and December 31, 2020, respectively. During the three and six months ended June 30, 2021, we recorded $24.3 million unrealized loss and $36.9 million unrealized gains, respectively, as changes in fair values of equity and long-term investments, net on the consolidated statements of income. We recorded $13.4 million and $35.3 million of unrealized gains for the three and six months ended June 30, 2020, respectively.

Equity Investment in Entasis

During the second quarter of 2020, we purchased 14,000,000 shares of common stock as well as warrants to purchase 14,000,000 additional shares of common stock of Entasis Therapeutics, Inc. (“Entasis”) for approximately $35.0 million in cash. Entasis is a clinical-stage biotechnology company focused on the discovery and development of novel antibacterial products.

During the third quarter of 2020, we purchased 4,672,897 shares of Entasis common stock as well as warrants to purchase 4,672,897 additional shares of its common stock for approximately $12.5 million in cash. Innoviva has a right to designate two members to Entasis’ board. As of June 30, 2021 and the date hereof, no Innoviva designees are serving on Entasis’ six-member board.

On May 3, 2021, ISO entered into a securities purchase agreement with Entasis to acquire 10,000,000 shares of Entasis common stock and warrants to purchase 10,000,000 additional shares of Entasis common stock for approximately $20.0 million. The investment was closed in two tranches on May 3, 2021 and June 11, 2021. This investment supports the continued development of Entasis’ novel pipeline of pathogen-targeted antibacterial product candidates. The additional investment increased Innoviva and ISO’s combined ownership, such that as of June 30,2021, we owned approximately 60.6% of Entasis’ common stock. As of December 31, 2020, we owned approximately 51.0% of Entasis’ common stock.

The investment in Entasis provides Innoviva the ability to have significant influence, but not control over Entasis’ operations. Based on our evaluation, we determined that Entasis is a VIE, but Innoviva is not the primary beneficiary of the VIE. We elected the fair value option to account for both Entasis’s common stock and warrants at fair value. The fair value of Entasis’ common stock is measured based on its closing market price at each balance sheet date. The warrants have an exercise price of $2.50 per share and $2.675 per share for those warrants acquired in the second and third quarter of 2020, respectively. The warrants acquired in the second quarter of 2021 have an exercise price of $2.00 per share. All of the warrants are exercisable immediately within five years from the issuance date of the warrants and include a cashless exercise option. We use the Black-Scholes-Merton pricing model to estimate the fair value of these warrants.

As of June 30, 2021, the fair values of Entasis’s common stock and warrants were estimated at $76.6 million and $54.7 million, respectively. As of December 31, 2020, the fair values of Entasis’s common stock and warrants were estimated at $46.1 million and $31.9 million, respectively. The total fair value of both financial instruments in the amount of $131.3 million and $78.0 million was recorded as equity and long-term investments on the consolidated balance sheets as of June 30, 2021 and December 31, 2020, respectively. We recorded $44.7 million and $33.2 million unrealized gains as changes in fair values of equity and long-term

investments, net on the consolidated statements of income, for the three and six months ended June 30, 2021, respectively. We recorded $33.3 million of unrealized gains for the three and six months ended June 30, 2020.

Equity Investment in InCarda

In October, 2020, TRC purchased 20,469,432 shares of Series C preferred stock and warrants to purchase 5,117,358 additional shares of Series C preferred stock of InCarda Therapeutics, Inc. (“InCarda”) for $15.0 million. $0.8 million was incurred for investment due diligence costs and recorded as part of the equity investment on the consolidated balance sheets. InCarda is a privately held biopharmaceutical company focused on developing inhaled therapies for cardiovascular diseases. As of June 30, 2021 and as of the date hereof, one of InCarda’s eight board members is designated by TRC. As of June 30, 2021 and December 31, 2020, TRC held 13.0% and 13.4%, respectively, of InCarda’s outstanding equity.

The investment in InCarda does not provide TRC the ability to control or have significant influence over InCarda’s operations. Based on our evaluation, we determined that InCarda is a VIE, but TRC is not the primary beneficiary of the VIE. We account for our investment in the Series C preferred shares in InCarda using the measurement alternative. Under the measurement alternative, the equity investment is initially recorded at its allocated cost, but the carrying value may be adjusted through earnings upon an impairment or when there is an observable price change involving the same or a similar investment with the same issuer. As of June 30, 2021 and December 31, 2020, we recorded $15.8 million from our investment in InCarda’s Series C preferred stock as equity and long-term investments on the consolidated balance sheets. There was no impairment or other change to the value of InCarda’s Series C preferred stock as of June 30, 2021 and December 31, 2020.

The warrants are recorded at fair value and subject to remeasurement at each balance sheet date. The warrants are exercisable immediately with an exercise price of $0.7328 per share and expire on October 6, 2021, one year from the issuance date. We use the Black-Scholes-Merton pricing model to estimate the fair value of the warrants with the following input assumptions: the exercise price of the warrants, the risk-free interest rate computed based on the U.S. Treasury yield, the remaining contractual term as the expected term, and the expected stock price volatility calculated based on the historical volatility of the common stock of its peer companies. As of June 30, 2021 and December 31, 2020, the fair value of InCarda’s warrants was estimated at $0.4 million and $1.1 million, respectively, and recorded as equity and long-term investments on the consolidated balance sheets. During the three and six months ended June 30, 2021, we recorded $0.3 million and $0.7 million, respectively, of unrealized loss from fair value changes in our investment in InCarda’s warrants as changes in fair values of equity and long-term investments, net on the consolidated statements of income.

Equity Investment in ImaginAb

On March 18, 2021, TRC entered into a securities purchase agreement with ImaginAb, Inc. to purchase 4,051,724 shares of ImaginAb Series C preferred stock for $4.7 million. On the same day, TRC also entered into a securities purchase agreement with one of ImaginAb’s common stockholders to purchase 4,097,157 shares of ImaginAb common stock for $1.3 million. ImaginAb is a privately held biotechnology company focused on clinically managing cancer and autoimmune diseases via molecular imaging. $0.4 million was incurred for investment due diligence costs and execution and recorded as part of the equity investment on the consolidated balance sheets. As of the date hereof, one of ImaginAb’s five board members is designated by TRC. As of June 30, 2021, TRC held 12.5% of ImaginAb equity ownership.

The investment in ImaginAb does not provide TRC the ability to control or have significant influence over ImaginAb’s operations. Based on our evaluation, we determined that ImaginAb is a VIE, but TRC is not the primary beneficiary of the VIE. Because ImaginAb’s equity securities are not publicly traded and do not have a readily determinable fair value, we have accounted for our investment in ImaginAb’s Series C preferred stock and common stock using the measurement alternative. Under the measurement alternative, the equity investment is initially recorded at its allocated cost, but the carrying value may be adjusted through earnings upon an impairment or when there is an observable price change involving the same or a similar investment with the same issuer. As of June 30, 2021, $6.4 million was recorded as equity and long-term investments on the consolidated balance sheets. There was no change to the value of our investment in ImaginAB’s equity securities as of June 30, 2021.

Available-for-Sale Securities

The estimated fair value of available-for-sale securities is based on quoted market prices for these or similar investments that were based on prices obtained from a commercial pricing service. Available-for-sale securities are summarized below:

	June 30, 2021
			Gross		Gross
			Unrealized		Unrealized		Estimated
(In thousands)	Amortized Cost		Gains		Losses		Fair Value
Money market funds(1)	$	2,843	$	—	$	—	$	2,843
Total	$	2,843	$	—	$	—	$	2,843

(1) Money market funds were included in cash and cash equivalents on the consolidated balance sheets.

	December 31, 2020
			Gross		Gross
			Unrealized		Unrealized		Estimated
(In thousands)	Amortized Cost		Gains		Losses		Fair Value
Money market funds (1)	$	204,808	$	—	$	—	$	204,808
Total	$	204,808	$	—	$	—	$	204,808

(1) Money market funds were included in cash and cash equivalents on the consolidated balance sheets.

There was no credit loss to our available-for-sale securities as of June 30, 2021 and December 31, 2020.

Fair Value Measurements

Our available-for-sale securities and equity investments are measured at fair value on a recurring basis and our debt is carried at amortized cost basis. The estimated fair values were as follows:

	Estimated Fair Value Measurements as of June 30, 2021 Using:
	Quoted Price in Active		Significant Other		Significant
	Markets for		Observable		Unobservable
Types of Instruments	Identical Assets		Inputs		Inputs
(In thousands)	Level 1		Level 2		Level 3		Total
Assets
Money market funds	$	2,843	$	—	$	—	$	2,843
Investments held by ISP Fund LP (1)		218,978		—		—		218,978
Equity investment - Armata Common Stock		59,013		—		—		59,013
Equity investment - Armata Warrants		—		41,874		—		41,874
Equity investment - Entasis Common Stock		76,557		—		—		76,557
Equity investment - Entasis Warrants		—		54,660		—		54,660
Equity investment - InCarda Warrants		—		—		410		410
Total assets measured at estimated fair value	$	357,391	$	96,534	$	410	$	454,335
Debt
2023 Notes	$	—	$	246,298	$	—	$	246,298
2025 Notes		—		210,185		—		210,185
Total fair value of debt	$	—	$	456,483	$	—	$	456,483

(1) The investments held by ISP Fund LP consisted of equity investments and money market funds are subject to a 36-month lock-up period from our initial contribution date, December 11, 2020.

	Estimated Fair Value Measurements as of December 31, 2020 Using:
	Quoted Price
	in Active		Significant
	Markets for		Other		Significant
	Identical		Observable		Unobservable
Types of Instruments	Assets		Inputs		Inputs
(In thousands)	Level 1		Level 2		Level 3		Total
Assets
Money market funds	$	204,808	$	—	$	—	$	204,808
Investments held by ISP Fund LP (1)		299,288		—		—		299,288
Equity investment - Armata Common Stock		25,958		—		—		25,958
Equity investment - Armata Warrants		—		18,049		—		18,049
Equity investment - Entasis Common Stock		46,122		—		—		46,122
Equity investment - Entasis Warrants		—		31,882		—		31,882
Equity investment - InCarda Warrants		—		—		1,147		1,147
Total assets measured at estimated fair value	$	576,176	$	49,931	$	1,147	$	627,254
Debt
2023 Notes	$	—	$	239,779	$	—	$	239,779
2025 Notes		—		206,135		—		206,135
Total fair value of debt	$	—	$	445,914	$	—	$	445,914

(1) The investments held by ISP Fund LP consisted of equity investments and money market funds are subject to a 36-month lock-up period from our initial contribution date, December 11, 2020.

The fair values of our equity investments in Armata and Entasis’s common stock and those investments held by ISP Fund LP are based on the quoted prices in active markets and are classified as Level 1 financial instruments. The fair values of the warrants of Armata and Entasis classified within Level 2 are based upon observable inputs that may include benchmark yields, reported trades, broker/dealer quotes, issuer spreads, two-sided markets, benchmark securities, bids, offers, and reference data including market research publications.

InCarda’s warrants are classified as Level 3 financial instruments as InCarda’s securities are not publicly traded and the assumptions used in the valuation model for valuing the warrants are based on significant unobservable and observable inputs including those of publicly traded peer companies.

The fair values of our 2023 Notes and our 2025 Notes are based on recent trading prices of the respective instruments.

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Stock-Based Compensation

6 Months Ended

Jun. 30, 2021

Stock-Based Compensation

Stock-Based Compensation

6. Stock-Based Compensation

Stock- Based Compensation Expense

Stock-based compensation expense was included in the consolidated statements of income as follows:

	Three Months Ended June 30,				Six Months Ended June 30,
(In thousands)	2021		2020		2021		2020
General and administrative	$	470	$	375	$	921	$	810

Valuation Assumptions

Black-Scholes-Merton assumptions used in calculating the estimated value of our stock options on the date of grant were as follows:

	Three Months Ended			Six Months Ended
	June 30, 2021			June 30, 2021
Risk-free interest rate		1.07	%		1.07% - 1.13	%
Expected term (in years)		6			6
Volatility		45	%		45	%
Dividend yield		—	%		—	%
Weighted-average estimated fair value of stock options granted	$	5.80		$	5.61

There were no grants of stock options during the three and six months ended June 30, 2020.

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Debt

6 Months Ended

Jun. 30, 2021

Debt

Debt

7. Debt

Our debt consists of:

	June 30,		December 31,
(In thousands)	2021		2020
2023 Notes	$	240,984	$	240,984
2025 Notes		192,500		192,500
Total debt		433,484		433,484
Unamortized debt discount and issuance costs		(43,495)		(47,967)
Net long-term debt	$	389,989	$	385,517

Convertible Senior Notes Due 2025

In accordance with accounting guidance for debt with conversion and other options, we separately account for the liability and equity components of the 2025 Notes by allocating the proceeds between the liability component and the embedded conversion option (“equity component”) due to our ability to settle the conversion obligation of the 2025 Notes in cash, common stock or a combination of cash and common stock, at our option. The carrying amount of the liability component was calculated by measuring the fair value of a similar liability that does not have an associated convertible feature using the income approach. The allocation was performed in a manner that reflected our non-convertible debt borrowing rate for similar debt. The equity component of the 2025 Notes was recognized as a debt discount and represents the difference between the proceeds from the issuance of the 2025 Notes and the fair value of the liability of the 2025 Notes on the date of issuance. The excess of the principal amount of the liability component over its carrying amount (“debt discount”) is amortized to interest expense using the effective interest method over the term of the 2025 Notes. The equity component is not remeasured as long as it continues to meet the conditions for equity classification.

Our outstanding 2025 Notes balances consisted of the following:

	June 30,		December 31,
(In thousands)	2021		2020
Liability component
Principal	$	192,500	$	192,500
Debt discount and issuance costs, net		(42,583)		(46,766)
Net carrying amount	$	149,917	$	145,734
Equity component, net	$	65,361	$	65,361

The following table sets forth total interest expense recognized related to the 2025 Notes for the three and six months ended June 30, 2021 and 2020:

	Three Months Ended June 30,				Six Months Ended June 30,
(In thousands)	2021		2020		2021		2020
Contractual interest expense	$	1,203	$	1,203	$	2,406	$	2,406
Amortization of debt issuance costs		162		149		321		294
Amortization of debt discount		1,951		1,786		3,862		3,535
Total interest and amortization expense	$	3,316	$	3,138	$	6,589	$	6,235

Debt Maturities

The aggregate scheduled maturities of our long-term debt as of June 30, 2021 were as follows:

(In thousands)
Years ending December 31:
Remainder of 2021	$	—
2022		—
2023		240,984
2024		—
2025		192,500
Total	$	433,484

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Commitments and Contingencies

6 Months Ended

Jun. 30, 2021

Commitments and Contingencies

Commitments and Contingencies

8. Commitments and Contingencies

Operating Lease

Future minimum operating lease payments on our corporate headquarters as of June 30, 2021 were as follows:

(In thousands)
Years ending December 31:
Remainder of 2021	$	62
2022		109
Thereafter		—
Total	$	171

Legal Proceedings

From time to time, the Company is involved in legal proceedings in the ordinary course of its business. Currently, we believe that no litigation or arbitration, either individually or in the aggregate, to which we are presently a party is likely to have a material adverse effect on our operating results or financial position.

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Shareholders' Equity

6 Months Ended

Jun. 30, 2021

Shareholders' Equity

Shareholders' Equity

9. Shareholders’ Equity

On May 20, 2021, the Company entered into a share repurchase agreement with GSK to buy back 32,005,260 shares of its common stock at $12.25 per share from GSK, representing all of the shares of common stock or other capital interests of Innoviva owned by GSK or its affiliates. The total consideration including related transaction fees was $394.1 million. The share repurchase closed on May 25, 2021, and the shares were transferred to the Company. These shares are recorded as treasury stock on the consolidated balance sheets.

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Income Taxes

6 Months Ended

Jun. 30, 2021

Income Taxes

Income Taxes

10. Income Taxes

Provisional income tax expense for the three and six months ended June 30, 2021 was $25.3 million and $45.1 million, respectively, compared to $19.9 million and $35.8 million for the same periods in 2020 respectively. The Company’s effective income tax rate for the six months ended June 30, 2021 was 18.6%, compared to 17.0% for the same period in 2020. The income tax expense for the six months ended June 30, 2021 and 2020 was determined based upon estimates of the Company’s effective income tax rates in various jurisdictions. Our effective income tax rate for the six months ended June 30, 2021 was lower than the U.S. federal statutory income tax rate of 21% due primarily to non-deductible expenses and noncontrolling interest.

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Description of Operations and Summary of Significant Accounting Policies (Policies)

6 Months Ended

Jun. 30, 2021

Description of Operations and Summary of Significant Accounting Policies

Basis of Presentation

Basis of Presentation

The accompanying unaudited consolidated financial statements have been prepared in accordance with accounting principles generally accepted in the United States of America (“US GAAP”) for interim financial information. Accordingly, they do not include all of the information and notes required by US GAAP for complete financial statements. In our opinion, the unaudited consolidated financial statements have been prepared on the same basis as audited consolidated financial statements and include all adjustments, consisting of only normal recurring adjustments, necessary for the fair presentation of our financial position, results of operations, comprehensive income and cash flows. The interim results are not necessarily indicative of the results of operations to be expected for the year ending December 31, 2021 or any other period.

The accompanying unaudited consolidated financial statements include the accounts of Innoviva, our wholly-owned subsidiaries and certain variable interest entities for which we are the primary beneficiary. All intercompany balances and transactions have been eliminated in consolidation. For consolidated entities where we own or are exposed to less than 100% of the economics, we record net income (loss) attributable to noncontrolling interest in our unaudited consolidated statements of income equal to the percentage of the economic or ownership interest retained in such entities by the respective noncontrolling parties. The accompanying unaudited consolidated financial statements should be read in conjunction with the audited consolidated financial statements and notes thereto included in our Annual Report on Form 10-K for the year ended December 31, 2020 filed with the Securities and Exchange Commission (“SEC”) on February 25, 2021 (“2020 Form 10-K”).

Variable Interest Entities

Variable Interest Entities

We evaluate our ownership, contractual and other interest in entities to determine if they are variable interest entities (“VIE”). We evaluate whether we have a variable interest in those entities and the nature and extent of those interests. Based on our evaluation, if we determine we are the primary beneficiary of a VIE, we consolidate the entity in our financial statements.

Equity Investments

Equity Investments

We invest from time to time in equity securities of private or public companies. If we determine that we have control over these companies under either voting or VIE models, we include them in our consolidated financial statements. If we determine that we do not have control over these companies under either voting or VIE models, we then determine if we have an ability to exercise significant influence via voting interests, board representation or other business relationships.

We may account for the equity investments where we exercise significant influence using either an equity method of accounting or at fair value by electing the fair value option under Accounting Standards Codification (“ASC”) Topic 825, Financial Instruments. If the fair value option is applied to an investment that would otherwise be accounted for under the equity method, we apply it to all our financial interests in the same entity (equity and debt, including guarantees) that are eligible items. All gains and losses from fair value changes, unrealized and realized, are presented as changes in fair values of equity and long-term investments, net on the consolidated statements of income.

If we conclude that we do not have an ability to exercise significant influence over an investee, we may elect to account for an equity security without a readily determinable fair value using the measurement alternative described in ASC Topic 825. This measurement alternative allows us to measure the equity investment at its cost minus impairment, if any, plus or minus changes resulting from observable price changes in orderly transactions for the identical or a similar investment of the same issuer.

Accounting Pronouncement Adopted by the Company

Accounting Pronouncement Adopted by the Company

In December 2019, the Financial Accounting Standards Board (“FASB”) issued Accounting Standards Update (“ASU”) No. 2019-12, “Income Taxes (Topic 740): Simplifying the Accounting for Income Taxes”, which is intended to simplify various aspects related to accounting for income taxes by removing certain exceptions to the general principles in Topic 740. The pronouncement is effective for fiscal years, and for interim periods within those fiscal years, beginning after December 15, 2020, with early adoption permitted. We adopted ASU 2019-12 effective January 1, 2021. The adoption did not have a material impact on our consolidated financial statements.

In October 2020, the FASB issued ASU 2020-10, Codification Improvements. This ASU improves the codification by ensuring that all guidance that requires or provides an option for an entity to provide information in the notes to financial statements is codified in the disclosure section of the codification. The ASU also clarifies various topics in the codification so that entities can apply guidance more consistently. The ASU is effective for fiscal years beginning after December 15, 2020. We adopted ASU 2020-10 effective January 1, 2021. The adoption did not have a material impact on our consolidated financial statements.

Recently Issued Accounting Standards or Updates Not Yet Adopted

Recently Issued Accounting Standards or Updates Not Yet Adopted

In August 2020, the FASB issued ASU 2020-06, Debt-Debt with Conversion and Other Options (Subtopic 470-20) and Derivatives and Hedging-Contracts in Entity’s Own Equity (Subtopic 815-40): Accounting for Convertible Instruments and Contracts in an Entity’s Own Equity, which is intended to simplify the accounting for convertible instruments by removing certain separation models in Subtopic 470-20 for convertible instruments. The ASU is effective for fiscal years beginning after December 15, 2021, and for interim periods within those fiscal years with early adoption permitted. We are currently in the process of evaluating the effects of the provisions of ASU 2020-06 on our consolidated financial statements.

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Net Income Per Share (Tables)

6 Months Ended

Jun. 30, 2021

Net Income Per Share

Schedule of computation of basic and diluted net income per share

The following table shows the computation of basic and diluted net income per share for the three and six months ended June 30, 2021 and 2020:

	Three Months Ended June 30,				Six Months Ended June 30,
(In thousands except per share data)	2021		2020		2021		2020
Numerator:
Net income attributable to Innoviva stockholders, basic	$	88,948	$	76,844	$	183,071	$	142,281
Add: interest expense on 2023 Notes		1,163		1,184		2,367		2,364
Net income attributable to Innoviva stockholders, diluted	$	90,111	$	78,028	$	185,438	$	144,645
Denominator:
Weighted-average shares used to compute basic net income per share attributable to Innoviva stockholders		88,423		101,324		94,858		101,280
Dilutive effect of 2023 Notes		12,189		12,189		12,189		12,189
Dilutive effect of options and awards granted under equity incentive plan and employee stock purchase plan		27		32		49		58
Weighted-average shares used to compute diluted net income per share attributable to Innoviva stockholders		100,639		113,545		107,096		113,527
Net income per share attributable to Innoviva stockholders
Basic	$	1.01	$	0.76	$	1.93	$	1.40
Diluted	$	0.90	$	0.69	$	1.73	$	1.27

Schedule of anti-dilutive securities

The following common stock equivalents were not included in the computation of diluted net income per share because their effect was anti-dilutive:

	Three Months Ended June 30,				Six Months Ended June 30,
(In thousands)	2021		2020		2021		2020
Outstanding options and awards granted under equity incentive plan and employee stock purchase plan		1,093		1,154		1,126		1,124

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Revenue Recognition and Collaborative Arrangements (Tables)

6 Months Ended

Jun. 30, 2021

Revenue Recognition and Collaborative Arrangements

Schedule of net revenue from collaborative arrangements

Net revenue recognized under our GSK Agreements was as follows:

	Three Months Ended June 30,				Six Months Ended June 30,
(In thousands)	2021		2020		2021		2020
Royalties from a related party - RELVAR/BREO	$	65,916	$	45,570	$	122,306	$	101,719
Royalties from a related party - ANORO		11,960		11,199		22,460		21,049
Royalties from a related party - TRELEGY		26,386		15,633		48,470		31,768
Total royalties from a related party		104,262		72,402		193,236		154,536
Less: amortization of capitalized fees paid to a related party		(3,456)		(3,456)		(6,912)		(6,912)
Royalty revenue		100,806		68,946		186,324		147,624
Strategic alliance  - MABA program		—		10,000		—		10,000
Total net revenue from GSK	$	100,806	$	78,946	$	186,324	$	157,624

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Consolidated Entities (Tables)

6 Months Ended

Jun. 30, 2021

Consolidated Entities

Schedule of balance sheets and income statements of VIE

The summarized financial information for TRC is presented as follows:

Balance sheets

	June 30,		December 31,
(In thousands)	2021		2020
Assets
Cash and cash equivalents	$	26,128	$	38,081
Receivables from collaborative arrangements		26,386		24,946
Prepaid expenses and other current assets		1		—
Equity and long-term investments		22,594		16,959
Total assets		75,109		79,986
Liabilities and LLC Members’ Equity
Current liabilities		274		508
LLC members’ equity		74,835		79,478
Total liabilities and LLC members’ equity	$	75,109	$	79,986

Income statements

	Three Months Ended June 30,				Six Months Ended June 30,
(In thousands)	2021		2020		2021		2020
Royalty revenue from a related party	$	26,386	$	15,633	$	48,470	$	31,768
Strategic alliance - MABA program		—		10,000		—		10,000
Total net revenue		26,386		25,633		48,470		41,768
Operating expenses		336		480		3,617		751
Income from operations		26,050		25,153		44,853		41,017
Other income, net		—		1		—		37
Changes in fair values of equity and long-term investments		(254)		—		(737)		—
Net income	$	25,796	$	25,154	$	44,116	$	41,054

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Financial Instruments and Fair Value Measurements (Tables)

6 Months Ended

Jun. 30, 2021

Financial Instruments and Fair Value Measurements

Schedule of amortized cost and estimated fair values for available-for-sale securities

Available-for-sale securities are summarized below:

	June 30, 2021
			Gross		Gross
			Unrealized		Unrealized		Estimated
(In thousands)	Amortized Cost		Gains		Losses		Fair Value
Money market funds(1)	$	2,843	$	—	$	—	$	2,843
Total	$	2,843	$	—	$	—	$	2,843

(1) Money market funds were included in cash and cash equivalents on the consolidated balance sheets.

	December 31, 2020
			Gross		Gross
			Unrealized		Unrealized		Estimated
(In thousands)	Amortized Cost		Gains		Losses		Fair Value
Money market funds (1)	$	204,808	$	—	$	—	$	204,808
Total	$	204,808	$	—	$	—	$	204,808

(1) Money market funds were included in cash and cash equivalents on the consolidated balance sheets.

Schedule of available-for-sale securities measured at fair value on a recurring basis

The estimated fair values were as follows:

	Estimated Fair Value Measurements as of June 30, 2021 Using:
	Quoted Price in Active		Significant Other		Significant
	Markets for		Observable		Unobservable
Types of Instruments	Identical Assets		Inputs		Inputs
(In thousands)	Level 1		Level 2		Level 3		Total
Assets
Money market funds	$	2,843	$	—	$	—	$	2,843
Investments held by ISP Fund LP (1)		218,978		—		—		218,978
Equity investment - Armata Common Stock		59,013		—		—		59,013
Equity investment - Armata Warrants		—		41,874		—		41,874
Equity investment - Entasis Common Stock		76,557		—		—		76,557
Equity investment - Entasis Warrants		—		54,660		—		54,660
Equity investment - InCarda Warrants		—		—		410		410
Total assets measured at estimated fair value	$	357,391	$	96,534	$	410	$	454,335
Debt
2023 Notes	$	—	$	246,298	$	—	$	246,298
2025 Notes		—		210,185		—		210,185
Total fair value of debt	$	—	$	456,483	$	—	$	456,483

(1) The investments held by ISP Fund LP consisted of equity investments and money market funds are subject to a 36-month lock-up period from our initial contribution date, December 11, 2020.

	Estimated Fair Value Measurements as of December 31, 2020 Using:
	Quoted Price
	in Active		Significant
	Markets for		Other		Significant
	Identical		Observable		Unobservable
Types of Instruments	Assets		Inputs		Inputs
(In thousands)	Level 1		Level 2		Level 3		Total
Assets
Money market funds	$	204,808	$	—	$	—	$	204,808
Investments held by ISP Fund LP (1)		299,288		—		—		299,288
Equity investment - Armata Common Stock		25,958		—		—		25,958
Equity investment - Armata Warrants		—		18,049		—		18,049
Equity investment - Entasis Common Stock		46,122		—		—		46,122
Equity investment - Entasis Warrants		—		31,882		—		31,882
Equity investment - InCarda Warrants		—		—		1,147		1,147
Total assets measured at estimated fair value	$	576,176	$	49,931	$	1,147	$	627,254
Debt
2023 Notes	$	—	$	239,779	$	—	$	239,779
2025 Notes		—		206,135		—		206,135
Total fair value of debt	$	—	$	445,914	$	—	$	445,914

(1) The investments held by ISP Fund LP consisted of equity investments and money market funds are subject to a 36-month lock-up period from our initial contribution date, December 11, 2020.

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Stock-Based Compensation (Tables)

6 Months Ended

Jun. 30, 2021

Stock-Based Compensation

Schedule of stock-based compensation expense

Stock-based compensation expense was included in the consolidated statements of income as follows:

	Three Months Ended June 30,				Six Months Ended June 30,
(In thousands)	2021		2020		2021		2020
General and administrative	$	470	$	375	$	921	$	810

Summary of weighted-average assumptions used to calculate estimated value of stock options

Black-Scholes-Merton assumptions used in calculating the estimated value of our stock options on the date of grant were as follows:

	Three Months Ended			Six Months Ended
	June 30, 2021			June 30, 2021
Risk-free interest rate		1.07	%		1.07% - 1.13	%
Expected term (in years)		6			6
Volatility		45	%		45	%
Dividend yield		—	%		—	%
Weighted-average estimated fair value of stock options granted	$	5.80		$	5.61

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Debt (Tables)

6 Months Ended

Jun. 30, 2021

Debt

Schedule of debt

Our debt consists of:

	June 30,		December 31,
(In thousands)	2021		2020
2023 Notes	$	240,984	$	240,984
2025 Notes		192,500		192,500
Total debt		433,484		433,484
Unamortized debt discount and issuance costs		(43,495)		(47,967)
Net long-term debt	$	389,989	$	385,517

Aggregate scheduled maturities of long-term debt

The aggregate scheduled maturities of our long-term debt as of June 30, 2021 were as follows:

(In thousands)
Years ending December 31:
Remainder of 2021	$	—
2022		—
2023		240,984
2024		—
2025		192,500
Total	$	433,484

2025 Notes

Debt

Summary of liability and equity components of convertible notes

Our outstanding 2025 Notes balances consisted of the following:

	June 30,		December 31,
(In thousands)	2021		2020
Liability component
Principal	$	192,500	$	192,500
Debt discount and issuance costs, net		(42,583)		(46,766)
Net carrying amount	$	149,917	$	145,734
Equity component, net	$	65,361	$	65,361

Schedule of components of interest expense

The following table sets forth total interest expense recognized related to the 2025 Notes for the three and six months ended June 30, 2021 and 2020:

	Three Months Ended June 30,				Six Months Ended June 30,
(In thousands)	2021		2020		2021		2020
Contractual interest expense	$	1,203	$	1,203	$	2,406	$	2,406
Amortization of debt issuance costs		162		149		321		294
Amortization of debt discount		1,951		1,786		3,862		3,535
Total interest and amortization expense	$	3,316	$	3,138	$	6,589	$	6,235

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Commitments and Contingencies (Tables)

6 Months Ended

Jun. 30, 2021

Commitments and Contingencies

Schedule of future minimum lease payments

Future minimum operating lease payments on our corporate headquarters as of June 30, 2021 were as follows:

(In thousands)
Years ending December 31:
Remainder of 2021	$	62
2022		109
Thereafter		—
Total	$	171

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Description of Operations and Summary of Significant Accounting Policies (Details) - Long-Acting Beta2 Agonist (LABA) Collaboration - GSK $ in Billions	6 Months Ended
	Jun. 30, 2021 USD ($)
Description of Operations and Summary of Significant Accounting Policies
Percentage of economic interest in any future payments made under the agreements	15.00%
RELVAR/BREO
Description of Operations and Summary of Significant Accounting Policies
Royalty rate for first level of annual global net sales (as a percent)	15.00%
Annual global sales level used to determine royalty rate	$ 3.0
Royalty rate for sales above first level of annual global net sales (as a percent)	5.00%
ANORO | Minimum
Description of Operations and Summary of Significant Accounting Policies
Royalty rate for combination products (as a percent)	6.50%
ANORO | Maximum
Description of Operations and Summary of Significant Accounting Policies
Royalty rate for combination products (as a percent)	10.00%

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Net Income Per Share - Basic and Diluted EPS (Details) - USD ($) $ / shares in Units, shares in Thousands, $ in Thousands	3 Months Ended		6 Months Ended
	Jun. 30, 2021	Jun. 30, 2020	Jun. 30, 2021	Jun. 30, 2020
Numerator:
Net income attributable to Innoviva stockholders, basic	$ 88,948	$ 76,844	$ 183,071	$ 142,281
Add: interest expense on 2023 Notes	1,163	1,184	2,367	2,364
Net income attributable to Innoviva stockholders, diluted	$ 90,111	$ 78,028	$ 185,438	$ 144,645
Denominator:
Weighted-average shares used to compute basic net income per share attributable to Innoviva stockholders	88,423	101,324	94,858	101,280
Dilutive effect of 2023 Notes	12,189	12,189	12,189	12,189
Dilutive effect of options and awards granted under equity incentive plan and employee stock purchase plan	27	32	49	58
Weighted-average shares used to compute diluted net income per share attributable to Innoviva stockholders	100,639	113,545	107,096	113,527
Net income per share attributable to Innoviva stockholders
Basic net income per share	$ 1.01	$ 0.76	$ 1.93	$ 1.40
Diluted net income per share	$ 0.90	$ 0.69	$ 1.73	$ 1.27
Convertible senior notes | 2025 Notes
Net Income Per Share
Dilutive effect of the assumed conversion premium	0	0	0	0
Convertible senior notes | 2025 Notes | Common stock
Net Income Per Share
Conversion price of convertible notes into common stock (in dollars per share)	$ 17.26	$ 17.26	$ 17.26	$ 17.26

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Net Income Per Share - Anti-Dilutive Securities (Details) - shares shares in Thousands	3 Months Ended		6 Months Ended
	Jun. 30, 2021	Jun. 30, 2020	Jun. 30, 2021	Jun. 30, 2020
Equity incentive plans and ESPP
Anti-Dilutive Securities
Anti-dilutive securities (in shares)	1,093	1,154	1,126	1,124

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Revenue Recognition and Collaborative Arrangements (Details) - USD ($) $ in Thousands	3 Months Ended		6 Months Ended
	Jun. 30, 2021	Jun. 30, 2020	Jun. 30, 2021	Jun. 30, 2020
Revenue Recognition and Collaborative Arrangements
Total net revenue	$ 100,806	$ 78,946	$ 186,324	$ 157,624
Royalty revenue from a related party
Revenue Recognition and Collaborative Arrangements
Total net revenue	100,806	68,946	186,324	147,624
Revenue from collaborative arrangements with a related party
Revenue Recognition and Collaborative Arrangements
Total net revenue	0	10,000	0	10,000
GSK
Revenue Recognition and Collaborative Arrangements
Total net revenue	100,806	78,946	186,324	157,624
GSK | Royalty revenue from a related party
Revenue Recognition and Collaborative Arrangements
Royalties from a related party	104,262	72,402	193,236	154,536
Less: amortization of capitalized fees paid to a related party	(3,456)	(3,456)	(6,912)	(6,912)
Total net revenue	100,806	68,946	186,324	147,624
GSK | RELVAR/BREO
Revenue Recognition and Collaborative Arrangements
Royalties from a related party	65,916	45,570	122,306	101,719
GSK | ANORO
Revenue Recognition and Collaborative Arrangements
Royalties from a related party	11,960	11,199	22,460	21,049
GSK | TRELEGY
Revenue Recognition and Collaborative Arrangements
Royalties from a related party	26,386	15,633	48,470	31,768
GSK | Revenue from collaborative arrangements with a related party | Strategic alliance - MABA program
Revenue Recognition and Collaborative Arrangements
Total net revenue	$ 0	$ 10,000	$ 0	$ 10,000

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Consolidated Entities - Theravance Respiratory Company, LLC (Details) - USD ($) $ in Thousands	3 Months Ended				6 Months Ended
	Jun. 30, 2021	Mar. 31, 2021	Jun. 30, 2020	Mar. 31, 2020	Jun. 30, 2021	Jun. 30, 2020	Dec. 31, 2020
Assets
Cash and cash equivalents	$ 43,265				$ 43,265		$ 246,487	[1]
Receivables from collaborative arrangements	104,262				104,262		93,931	[1]
Prepaid expenses and other current assets	734				734		1,640	[1]
Equity and long-term investments	473,677				473,677		438,258	[1]
Total assets	789,150				789,150		999,570	[1]
Liabilities and LLC Members' Equity
Current liabilities	5,371				5,371		6,110	[1]
Total liabilities and stockholders' equity	789,150				789,150		999,570	[1]
Income statements
Total net revenue	100,806		$ 78,946		186,324	$ 157,624
Operating expenses	4,266		3,155		10,301	5,718
Income from operations	96,540		75,791		176,023	151,906
Other income, net	(951)		30		(1,384)	98
Changes in fair values of equity and long-term investments	45,315		46,698		100,360	68,613
Net income	110,846	$ 109,695	98,225	$ 78,952	220,541	177,177
Royalty revenue from a related party
Income statements
Total net revenue	100,806		68,946		186,324	147,624
Revenue from collaborative arrangements with a related party
Income statements
Total net revenue	0		10,000		0	10,000
Theravance Respiratory Company, LLC
Assets
Cash and cash equivalents	26,128				26,128		38,081
Receivables from collaborative arrangements	26,386				26,386		24,946
Prepaid expenses and other current assets	1				1		0
Equity and long-term investments	22,594				22,594		16,959
Total assets	75,109				75,109		79,986
Liabilities and LLC Members' Equity
Current liabilities	274				274		508
LLC members' equity	74,835				74,835		79,478
Total liabilities and stockholders' equity	75,109				75,109		$ 79,986
Income statements
Total net revenue	26,386		25,633		48,470	41,768
Operating expenses	336		480		3,617	751
Income from operations	26,050		25,153		44,853	41,017
Other income, net	0		1		0	37
Changes in fair values of equity and long-term investments	(254)		0		(737)	0
Net income	25,796		25,154		44,116	41,054
Theravance Respiratory Company, LLC | Royalty revenue from a related party
Income statements
Total net revenue	26,386		15,633		48,470	31,768
Strategic alliance - MABA program | Theravance Respiratory Company, LLC
Income statements
Total net revenue	$ 0		$ 10,000		$ 0	$ 10,000

[1] Consolidated balance sheet as of December 31, 2020 has been derived from audited consolidated financial statements.

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Consolidated Entities - Pulmoquine Therapeutics, Inc. (Details) - USD ($) $ in Thousands	1 Months Ended	3 Months Ended		6 Months Ended
	Apr. 30, 2020	Jun. 30, 2021	Jun. 30, 2020	Jun. 30, 2021	Jun. 30, 2020	Dec. 31, 2020
Consolidated Entities
Total assets		$ 789,150		$ 789,150		$ 999,570	[1]
Operating Expenses		4,266	$ 3,155	10,301	$ 5,718
Pulmoquine Therapeutics, Inc.
Consolidated Entities
Total assets		3,200		3,200		$ 3,500
Operating Expenses			$ 600	$ 200	$ 600
Pulmoquine Therapeutics, Inc. | Series A preferred stock
Consolidated Entities
Number of shares purchased under the securities purchase agreement	5,808,550
Payments to acquire equity securities	$ 5,000

[1] Consolidated balance sheet as of December 31, 2020 has been derived from audited consolidated financial statements.

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Consolidated Entities - ISP Fund LP (Details) - USD ($) $ in Thousands	3 Months Ended		6 Months Ended
	Jun. 30, 2021	Jun. 30, 2020	Jun. 30, 2021	Jun. 30, 2020	May 31, 2021	May 20, 2021	Dec. 31, 2020
CONSOLIDATED ENTITIES
Total assets	$ 789,150		$ 789,150				$ 999,570	[1]
Changes in fair values of equity and long-term investments	45,315	$ 46,698	100,360	$ 68,613
Unrealized gain on equity investments			$ 99,046	$ 68,613
ISP Fund LP
CONSOLIDATED ENTITIES
Contributed to partnership for investing							300,000
Distribution from partnership					$ 110,000
Economic interest of the Partnership (in percent)			100.00%
Total assets	219,000		$ 219,000				$ 299,300
Investment-related expenses, net of investment-related income	900		1,300
Changes in fair values of equity and long-term investments	$ 25,200		$ 31,000
Commitment for future contribution						$ 110,000
Lock-up period			36 months

[1] Consolidated balance sheet as of December 31, 2020 has been derived from audited consolidated financial statements.

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Financial Instruments and Fair Value Measurements - Equity Investment in Armata (Details) - Armata $ / shares in Units, $ in Millions		3 Months Ended				6 Months Ended
	Jan. 26, 2021 USD ($) $ / shares shares	Jun. 30, 2021 USD ($) director	Mar. 31, 2021 tranche	Jun. 30, 2020 USD ($)	Mar. 31, 2020 USD ($) $ / shares shares	Jun. 30, 2021 USD ($) director	Jun. 30, 2020 USD ($)	Dec. 31, 2020 USD ($)
Equity investment
Equity investment ownership percentage		59.50%	59.60%			59.50%		46.60%
Percentage of maximum voting rights						49.50%
Number of Investee's Board members currently representing the Company | director		3				3
Number of the Investee's Board members | director		7				7
Unrealized gain from fair value changes in equity investments				$ 13.4		$ 36.9	$ 35.3
Unrealized loss from fair value changes in equity investments		$ 24.3
Common stock and warrants
Equity investment
Payments to acquire equity securities					$ 25.0
Fair value of equity securities		100.9				100.9		$ 44.0
Common stock
Equity investment
Number of shares purchased under the securities purchase agreement | shares					8,710,800
Fair value of equity securities		59.0				59.0		26.0
Warrants
Equity investment
Number of warrants purchased under the securities purchase agreement | shares					8,710,800
Fair value of equity securities		$ 41.9				$ 41.9		$ 18.0
Warrants purchased in 2020
Equity investment
Exercise price of warrants | $ / shares					$ 2.87
Term of warrants					5 years
Warrants purchased in 2021
Equity investment
Exercise price of warrants | $ / shares	$ 3.25
Term of warrants	5 years
Innoviva Strategic Opportunities, LLC
Equity investment
Number of tranches | tranche			2
Innoviva Strategic Opportunities, LLC | Common stock and warrants
Equity investment
Amount of securities purchase agreement	$ 20.0
Innoviva Strategic Opportunities, LLC | Common stock
Equity investment
Number of shares to be purchased under the securities purchase agreement | shares	6,153,847
Innoviva Strategic Opportunities, LLC | Warrants
Equity investment
Number of warrants to be purchased under the securities purchase agreement | shares	6,153,847

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Financial Instruments and Fair Value Measurements - Equity Investment in Entasis (Details) - Entasis $ / shares in Units, $ in Millions	3 Months Ended			6 Months Ended
	Jun. 30, 2021 USD ($) director $ / shares shares	Sep. 30, 2020 USD ($) $ / shares shares	Jun. 30, 2020 USD ($) $ / shares shares	Jun. 30, 2021 USD ($) director $ / shares	Jun. 30, 2020 USD ($) $ / shares	Dec. 31, 2020 USD ($)
Equity Investment
Number of investee's board members which may be designated by the Company | director				2
Number of Investee's Board members currently representing the Company | director	0			0
Number of the Investee's Board members | director	6			6
Number of tranches	2
Equity investment ownership percentage	60.60%			60.60%		51.00%
Unrealized gain from fair value changes in equity investments	$ 44.7		$ 33.3	$ 33.2	$ 33.3
Common stock and warrants
Equity Investment
Payments to acquire equity securities	20.0	$ 12.5	$ 35.0
Fair value of equity securities	$ 131.3			131.3		$ 78.0
Common stock
Equity Investment
Number of shares purchased under the securities purchase agreement | shares	10,000,000	4,672,897	14,000,000
Fair value of equity securities	$ 76.6			76.6		46.1
Warrants
Equity Investment
Number of warrants purchased under the securities purchase agreement | shares	10,000,000	4,672,897	14,000,000
Fair value of equity securities	$ 54.7			$ 54.7		$ 31.9
Warrants acquired in second quarter of 2020
Equity Investment
Exercise price of warrants | $ / shares			$ 2.50		$ 2.50
Term of warrants			5 years		5 years
Warrants acquired in third quarter of 2020
Equity Investment
Exercise price of warrants | $ / shares		$ 2.675
Term of warrants		5 years
Warrants acquired in second quarter of 2021
Equity Investment
Exercise price of warrants | $ / shares	$ 2.00			$ 2.00
Term of warrants	5 years			5 years

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Financial Instruments and Fair Value Measurements - Equity Investment in InCarda (Details) - InCarda $ / shares in Units, $ in Millions	1 Months Ended	3 Months Ended	6 Months Ended	12 Months Ended
	Oct. 31, 2020 USD ($) $ / shares shares	Jun. 30, 2021 USD ($) director	Jun. 30, 2021 USD ($) director	Dec. 31, 2020 USD ($)
Equity Investment
Number of Investee's Board members currently representing the Company | director		1	1
Number of the Investee's Board members | director		8	8
Equity investment ownership percentage		13.00%	13.00%	13.40%
Series C preferred stock and warrants
Equity Investment
Payments to acquire equity securities	$ 15.0
Transaction costs to acquire equity securities	$ 0.8
Unrealized loss from fair value changes in equity investments		$ 0.3	$ 0.7
Series C preferred stock
Equity Investment
Number of shares purchased under the securities purchase agreement | shares	20,469,432
Equity and long-term investments at fair value		15.8	15.8	$ 15.8
Impairment of equity investments			0.0	0.0
Warrants
Equity Investment
Number of warrants purchased under the securities purchase agreement | shares	5,117,358
Equity and long-term investments at fair value		$ 0.4	$ 0.4	$ 1.1
Exercise price of warrants | $ / shares	$ 0.7328
Term of warrants	1 year

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Financial Instruments and Fair Value Measurements - Equity Investment in ImaginAb (Details) - ImaginAb $ in Millions	Mar. 18, 2021 USD ($) shares	Jun. 30, 2021 USD ($)	Apr. 28, 2021 director
Equity Investment
Transaction costs to acquire equity securities	$ 0.4
Equity investment ownership percentage		12.50%
Number of Investee's Board members currently representing the Company | director			1
Number of the Investee's Board members | director			5
Equity and long-term investments at fair value		$ 6.4
Series C preferred stock
Equity Investment
Number of shares to be purchased under the securities purchase agreement | shares	4,051,724
Amount of securities purchase agreement	$ 4.7
One of ImaginAb's Common Stockholders | Common stock
Equity Investment
Number of shares to be purchased under the securities purchase agreement | shares	4,097,157
Amount of securities purchase agreement	$ 1.3

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Financial Instruments and Fair Value Measurements - Available-for-Sale Securities (Details) - USD ($) $ in Thousands	Jun. 30, 2021	Dec. 31, 2020
Available-for-Sale Securities
Amortized Cost	$ 2,843	$ 204,808
Gross Unrealized Gains	0	0
Gross Unrealized Losses	0	0
Estimated Fair Value	2,843	204,808
Credit loss	0	0
Money market funds
Available-for-Sale Securities
Amortized Cost	2,843	204,808
Gross Unrealized Gains	0	0
Gross Unrealized Losses	0	0
Estimated Fair Value	$ 2,843	$ 204,808

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Financial Instruments and Fair Value Measurements - Fair Value Measurements (Details) - USD ($) $ in Thousands	Dec. 11, 2020	Jun. 30, 2021	Dec. 31, 2020
ISP Fund LP
Debt
Lock-up period	36 months
Recurring basis
Assets
Total assets measured at estimated fair value		$ 454,335	$ 627,254
Recurring basis | Money market funds
Assets
Total assets measured at estimated fair value		2,843	204,808
Recurring basis | Equity investments and money market funds | ISP Fund LP
Assets
Total assets measured at estimated fair value		218,978	299,288
Recurring basis | Quoted Price in Active Markets for Identical Assets, Level 1
Assets
Total assets measured at estimated fair value		357,391	576,176
Recurring basis | Quoted Price in Active Markets for Identical Assets, Level 1 | Money market funds
Assets
Total assets measured at estimated fair value		2,843	204,808
Recurring basis | Quoted Price in Active Markets for Identical Assets, Level 1 | Equity investments and money market funds | ISP Fund LP
Assets
Total assets measured at estimated fair value		218,978	299,288
Recurring basis | Significant Other Observable Inputs, Level 2
Assets
Total assets measured at estimated fair value		96,534	49,931
Recurring basis | Significant Other Observable Inputs, Level 2 | Money market funds
Assets
Total assets measured at estimated fair value		0	0
Recurring basis | Significant Other Observable Inputs, Level 2 | Equity investments and money market funds | ISP Fund LP
Assets
Total assets measured at estimated fair value		0	0
Recurring basis | Significant Unobservable Inputs, Level 3
Assets
Total assets measured at estimated fair value		410	1,147
Recurring basis | Significant Unobservable Inputs, Level 3 | Money market funds
Assets
Total assets measured at estimated fair value		0	0
Recurring basis | Significant Unobservable Inputs, Level 3 | Equity investments and money market funds | ISP Fund LP
Assets
Total assets measured at estimated fair value		0	0
Nonrecurring basis | Debt
Debt
2023 Notes		246,298	239,779
2025 Notes		210,185	206,135
Total fair value of debt		456,483	445,914
Nonrecurring basis | Quoted Price in Active Markets for Identical Assets, Level 1 | Debt
Debt
2023 Notes		0	0
2025 Notes		0	0
Total fair value of debt		0	0
Nonrecurring basis | Significant Other Observable Inputs, Level 2 | Debt
Debt
2023 Notes		246,298	239,779
2025 Notes		210,185	206,135
Total fair value of debt		456,483	445,914
Nonrecurring basis | Significant Unobservable Inputs, Level 3 | Debt
Debt
2023 Notes		0	0
2025 Notes		0	0
Total fair value of debt		0	0
Armata | Recurring basis | Equity investment | Common stock
Assets
Total assets measured at estimated fair value		59,013	25,958
Armata | Recurring basis | Equity investment | Warrants
Assets
Total assets measured at estimated fair value		41,874	18,049
Armata | Recurring basis | Quoted Price in Active Markets for Identical Assets, Level 1 | Equity investment | Common stock
Assets
Total assets measured at estimated fair value		59,013	25,958
Armata | Recurring basis | Quoted Price in Active Markets for Identical Assets, Level 1 | Equity investment | Warrants
Assets
Total assets measured at estimated fair value		0	0
Armata | Recurring basis | Significant Other Observable Inputs, Level 2 | Equity investment | Common stock
Assets
Total assets measured at estimated fair value		0	0
Armata | Recurring basis | Significant Other Observable Inputs, Level 2 | Equity investment | Warrants
Assets
Total assets measured at estimated fair value		41,874	18,049
Armata | Recurring basis | Significant Unobservable Inputs, Level 3 | Equity investment | Common stock
Assets
Total assets measured at estimated fair value		0	0
Armata | Recurring basis | Significant Unobservable Inputs, Level 3 | Equity investment | Warrants
Assets
Total assets measured at estimated fair value		0	0
Entasis | Recurring basis | Equity investment | Common stock
Assets
Total assets measured at estimated fair value		76,557	46,122
Entasis | Recurring basis | Equity investment | Warrants
Assets
Total assets measured at estimated fair value		54,660	31,882
Entasis | Recurring basis | Quoted Price in Active Markets for Identical Assets, Level 1 | Equity investment | Common stock
Assets
Total assets measured at estimated fair value		76,557	46,122
Entasis | Recurring basis | Quoted Price in Active Markets for Identical Assets, Level 1 | Equity investment | Warrants
Assets
Total assets measured at estimated fair value		0	0
Entasis | Recurring basis | Significant Other Observable Inputs, Level 2 | Equity investment | Common stock
Assets
Total assets measured at estimated fair value		0	0
Entasis | Recurring basis | Significant Other Observable Inputs, Level 2 | Equity investment | Warrants
Assets
Total assets measured at estimated fair value		54,660	31,882
Entasis | Recurring basis | Significant Unobservable Inputs, Level 3 | Equity investment | Common stock
Assets
Total assets measured at estimated fair value		0	0
Entasis | Recurring basis | Significant Unobservable Inputs, Level 3 | Equity investment | Warrants
Assets
Total assets measured at estimated fair value		0	0
InCarda | Recurring basis | Equity investment | Warrants
Assets
Total assets measured at estimated fair value		410	1,147
InCarda | Recurring basis | Quoted Price in Active Markets for Identical Assets, Level 1 | Equity investment | Warrants
Assets
Total assets measured at estimated fair value		0	0
InCarda | Recurring basis | Significant Other Observable Inputs, Level 2 | Equity investment | Warrants
Assets
Total assets measured at estimated fair value		0	0
InCarda | Recurring basis | Significant Unobservable Inputs, Level 3 | Equity investment | Warrants
Assets
Total assets measured at estimated fair value		$ 410	$ 1,147

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Stock-Based Compensation - Stock-Based Compensation Expense (Details) - USD ($) $ in Thousands	3 Months Ended		6 Months Ended
	Jun. 30, 2021	Jun. 30, 2020	Jun. 30, 2021	Jun. 30, 2020
General and administrative
Stock-based compensation
Total stock-based compensation expense	$ 470	$ 375	$ 921	$ 810

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Stock-Based Compensation - Valuation Assumptions (Details) - Stock options - $ / shares shares in Thousands	3 Months Ended		6 Months Ended
	Jun. 30, 2021	Jun. 30, 2020	Jun. 30, 2021	Jun. 30, 2020
Valuation Assumptions
Risk-free interest rate	1.07%
Expected term (in years)	6 years		6 years
Volatility	45.00%		45.00%
Dividend yield	0.00%		0.00%
Granted (in shares)		0		0
Weighted-average
Valuation Assumptions
Weighted-average estimated fair value of shares granted (in dollars per share)	$ 5.80		$ 5.61
Minimum
Valuation Assumptions
Risk-free interest rate			1.07%
Maximum
Valuation Assumptions
Risk-free interest rate			1.13%

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Debt - Summary (Details) - USD ($) $ in Thousands	Jun. 30, 2021	Dec. 31, 2020
Debt
Total debt	$ 433,484	$ 433,484
Unamortized debt discount and issuance costs	(43,495)	(47,967)
Net long-term debt	389,989	385,517	[1]
2023 Notes | Convertible subordinated notes
Debt
Total debt	240,984	240,984
2025 Notes | Convertible senior notes
Debt
Total debt	192,500	192,500
Unamortized debt discount and issuance costs	$ (42,583)	$ (46,766)

[1] Consolidated balance sheet as of December 31, 2020 has been derived from audited consolidated financial statements.

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Debt - Convertible Senior Notes - Liability and Equity Components (Details) - USD ($) $ in Thousands	Jun. 30, 2021	Dec. 31, 2020
Liability component
Principal	$ 433,484	$ 433,484
Debt discount and issuance costs, net	(43,495)	(47,967)
Convertible senior notes | 2025 Notes
Liability component
Principal	192,500	192,500
Debt discount and issuance costs, net	(42,583)	(46,766)
Net carrying amount	149,917	145,734
Equity component, net	$ 65,361	$ 65,361

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Debt - Convertible Senior Notes - Interest and Amortization Expense (Details) - Convertible senior notes - 2025 Notes - USD ($) $ in Thousands	3 Months Ended		6 Months Ended
	Jun. 30, 2021	Jun. 30, 2020	Jun. 30, 2021	Jun. 30, 2020
Interest expense recognized
Contractual interest expense	$ 1,203	$ 1,203	$ 2,406	$ 2,406
Amortization of debt issuance costs	162	149	321	294
Amortization of debt discount	1,951	1,786	3,862	3,535
Total interest and amortization expense	$ 3,316	$ 3,138	$ 6,589	$ 6,235

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Debt - Debt Maturities (Details) - USD ($) $ in Thousands	Jun. 30, 2021	Dec. 31, 2020
Long-term debt maturities for years ending December 31:
Remainder of 2021	$ 0
2022	0
2023	240,984
2024	0
2025	192,500
Total	$ 433,484	$ 433,484

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Commitments and Contingencies (Details) $ in Thousands	Jun. 30, 2021 USD ($)
Future minimum lease payments for years ending December 31:
Remainder of 2021	$ 62
2022	109
Thereafter	0
Total	$ 171

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Shareholders' Equity (Details) - USD ($) $ / shares in Units, $ in Thousands		3 Months Ended
	May 25, 2021	Jun. 30, 2021
Shareholders' Equity
Total consideration for repurchase of shares, including related transaction fees		$ 394,149
Share repurchase agreement with GSK
Shareholders' Equity
Number of shares repurchased	32,005,260
Repurchase price per share	$ 12.25
Total consideration for repurchase of shares, including related transaction fees	$ 394,100

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Income Taxes (Details) - USD ($) $ in Thousands	3 Months Ended		6 Months Ended
	Jun. 30, 2021	Jun. 30, 2020	Jun. 30, 2021	Jun. 30, 2020
Income Taxes
Provisional income tax expense	$ 25,333	$ 19,891	$ 45,069	$ 35,823
Effective tax rate (as a percent)			18.60%	17.00%
Federal statutory tax rate (as a percent)			21.00%