Consolidated Statements of Cash Flows (USD $)	6 Months Ended		131 Months Ended
	Mar. 31, 2014	Mar. 31, 2013	Mar. 31, 2014
CASH FLOWS FROM OPERATING ACTIVITIES OF CONTINUING OPERATIONS:
Net loss	$ (24,668,431)	$ (11,720,745)	$ (210,024,869)
Net loss attributable to noncontrolling interests	97,600	348,650	19,477,029
NET LOSS ATTRIBUTABLE TO ARROWHEAD	(24,570,831)	(11,372,095)	(190,547,840)
(Income) loss from discontinued operations		354	42,838,408
Realized and unrealized (gain) loss on investments			(762,954)
Charge for bad debt allowance			2,497,300
(Gain) loss from sale of subsidiary			(306,344)
(Gain) loss on purchase of Roche Madison			(1,576,107)
(Gain) loss on disposal of fixed assets	58,878	36,440	1,341,731
Stock issued for professional services			741,632
Change in value of derivatives	6,470,803	(14,873)	8,489,788
Contingent consideration - fair value adjustments			1,421,652
Purchased in-process research and development			15,851,555
Stock-based compensation	1,719,582	750,782	16,837,321
Depreciation and amortization	799,184	898,362	9,959,882
Amortization (accretion) of note discounts, net	269,313	36,931	399,171
Gain on sale of stock in subsidiary			(2,292,800)
Noncash impairment expense		1,279,882	3,958,496
Equity in income (loss) of unconsolidated affiliates		221,169	963,407
Noncontrolling interest	(97,600)	(348,650)	(19,477,029)
Changes in operating assets and liabilities:
Receivables	75,000	9,375	109,415
Other receivables	(611,360)	1,080	(3,153,422)
Prepaid expenses	(69,608)	191,732	(505,994)
Other current assets	(136,403)	(214,318)	(301,969)
Accounts payable	1,311,947	(6,279)	2,131,904
Accrued expenses	275,370	199,242	1,024,199
Other liabilities	(214,329)	26,516	727,922
NET CASH USED IN OPERATING ACTIVITIES OF CONTINUING OPERATIONS	(14,720,054)	(8,304,350)	(109,630,676)
CASH FLOWS FROM INVESTING ACTIVITIES OF CONTINUING OPERATIONS:
Purchases of property and equipment	(607,772)	(31,468)	(4,949,961)
Proceeds from sale of investments		1,160,181	4,732,688
Proceeds from sale of fixed assets		129,454	522,192
Purchase of marketable securities	(46,365,528)		(75,674,014)
Proceeds from sale of marketable securities	5,010,238		23,898,503
Cash transferred in acquisitions/divestitures			(1,579,365)
Purchase of MASA Energy, LLC			(250,000)
Minority equity investment			(2,000,000)
Cash paid for interest in Insert			(10,150,000)
Cash obtained from interest in Insert			10,529,594
Proceeds from sale of subsidiaries			359,375
Payment for patents			(303,440)
Restricted cash			50,773
NET CASH PROVIDED BY (USED IN) INVESTING ACTIVITIES OF CONTINUING OPERATIONS	(41,963,062)	1,258,167	(54,813,655)
CASH FLOWS FROM FINANCING ACTIVITIES OF CONTINUING OPERATIONS:
Principal payments on capital leases	(204,448)	(106,595)	(615,855)
Proceeds from issuance of common stock, preferred stock and warrants, net	180,620,980	7,089,327	331,379,995
Proceeds from issuance of Calando debt			2,516,467
Proceeds from sale of stock in subsidiary			20,902,100
NET CASH PROVIDED BY FINANCING ACTIVITIES OF CONTINUING OPERATIONS	180,416,532	6,982,732	354,182,707
Cash flows from discontinued operations:
Operating cash flows		(354)	(46,004,141)
Investing cash flows			790,625
Financing cash flows			(1,677,000)
Net cash provided by (used in) discontinued operations:		(354)	(46,890,516)
NET INCREASE (DECREASE) IN CASH	123,733,416	(63,805)	142,847,860
CASH AT BEGINNING OF PERIOD	19,114,444	3,377,288
CASH AT END OF PERIOD	142,847,860	3,313,483	142,847,860
Supplementary disclosures:
Interest paid	17,105	21,828	339,837
Taxes paid			$ 742,500