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CONDENSED CONSOLIDATED STATEMENTS OF CASH FLOWS - USD ($)
$ in Thousands
6 Months Ended
Jun. 30, 2017
Jun. 30, 2016
Cash flows from operating activities:    
Net income (loss) $ (199,567) $ 58,472
Adjustments to reconcile net income (loss) to net cash provided by (used in) operating activities:    
Depreciation and amortization 27,379 23,908
Stock-based compensation 64,358 42,071
Expense related to senior note conversions 54,881  
Other, net 146 251
Unrealized loss on long term investment 25,388 3,804
Change in fair value of acquisition-related contingent consideration 14,429 2,271
Changes in operating assets and liabilities:    
Accounts receivable (20,758) (2,818)
Prepaid expenses and other assets (33,492) (7,460)
Inventory 4,462 1,682
Accounts payable (6,506) 8,883
Accrued and other liabilities 12,436 (9,528)
Deferred revenue-collaborative agreements   (6,429)
Net cash provided by (used in) operating activities (56,844) 115,107
Cash flows from investing activities:    
Acquisition of business, net of cash acquired   (144,845)
Purchase of long term investments (123,891)  
Capital expenditures (51,466) (87,776)
Purchases of marketable securities (115,254) (17,795)
Sale and maturities of marketable securities 114,474 63,892
Net cash used in investing activities (176,137) (186,524)
Cash flows from financing activities:    
Restricted investments, net (57) 13,987
Proceeds from issuance of common stock under stock plans 49,461 24,105
Cash paid in connection with senior note conversions (8,934)  
Direct financing arrangements repayments   (445)
Payment of contingent consideration (8,035)  
Net cash provided by financing activities 32,435 37,647
Effect of exchange rates on cash and cash equivalents (43) (15)
Net decrease in cash and cash equivalents (200,589) (33,785)
Cash and cash equivalents at beginning of period 652,343 [1] 521,439
Cash and cash equivalents at end of period 451,754 487,654
Supplemental Schedule of Cash Flow Information    
Interest paid 180 3,892
Income taxes paid 5,561 229
Unpaid purchases of property and equipment 10,866 6,570
0.375% Convertible Senior Notes due 2018    
Adjustments to reconcile net income (loss) to net cash provided by (used in) operating activities:    
Expense related to senior note conversions 1,400  
Supplemental Schedule of Cash Flow Information    
Reclassification to common stock and additional paid in capital in connection with conversions or exchange of convertible senior notes 351,034  
1.25% Convertible Senior Notes due 2020    
Adjustments to reconcile net income (loss) to net cash provided by (used in) operating activities:    
Expense related to senior note conversions 5,100  
Supplemental Schedule of Cash Flow Information    
Reclassification to common stock and additional paid in capital in connection with conversions or exchange of convertible senior notes $ 330,010 $ 4
[1] The condensed consolidated balance sheet at December 31, 2016 has been derived from the audited financial statements at that date.