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Consolidated Statements of Cash Flows (USD $)
 12 Months Ended 113 Months Ended
Sep. 30, 2012
Sep. 30, 2011
Sep. 30, 2012
CASH FLOWS FROM OPERATING ACTIVITIES:      
Net income (loss) $ (22,110,723) $ (3,492,399) $ (153,653,005)
Net (income) loss attributable to nonconrolling interests 984,795 363,514 18,819,285
Net income (loss) attributable to Arrowhead (21,125,928) (3,128,885) (134,833,720)
(Income) loss from discontinued operations 80 (5,292,609) 42,838,054
Realized and unrealized (gain) loss on investments 58,091 261,218 (762,954)
Charge for bad debt allowance 2,497,300   2,497,300
(Gain) loss from sale of subsidiary     (306,344)
(Gain) loss on purchase of Roche Madison (1,576,107)   (1,576,107)
Loss on disposal of fixed assets 1,079,377   1,206,465
Stock issued for professional services   193,885 741,632
Change in value of derivatives (386,892) (1,133,127) (3,281,404)
Purchased in-process research and development     15,851,555
Stock-based compensation 1,241,404 1,376,921 13,581,468
Depreciation and amortization 1,748,975 267,978 7,409,286
Amortization (accretion) of note discounts, net 9,390 (7,938) 1,452
Gain on sale of stock in subsidiary     (2,292,800)
Non-cash impairment expense 1,642,775   1,642,775
Equity in (income)loss of unconsolidated affiliates 240,154 163,180 963,407
Noncontrolling interest (984,795) (363,514) (18,819,285)
Changes in operating assets and liabilities:      
Receivables 162,855   100,040
Other receivables (938,179) (736,253) (2,543,142)
Prepaid expenses (338,531) 99,005 (481,099)
Other current assets (6,853) 18,473 (103,213)
Deposits (23,747)   (60,542)
Accounts payable 291,876 157,079 498,310
Accrued expenses 186,369 452,843 720,909
Other liabilities 882,296 15,751 1,130,161
NET CASH USED IN OPERATING ACTIVITIES OF CONTINUING OPERATIONS (15,340,090) (7,655,993) (75,877,796)
CASH FLOWS FROM INVESTING ACTIVITIES OF CONTINUING OPERATIONS:      
Purchase of property and equipment (479,710) (9,674) (4,045,309)
Proceeds from sale of investments 509,009 1,534,687 3,313,609
Proceeds from sale of fixed assets 290,312   432,687
Cash transferred in acquisition/divestitures 121,033 (1,700,398) (1,579,365)
Purchase of marketable securities-US Treasury Bills     (18,575,915)
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 marketable securities-US Treasury Bills     18,888,265
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 440,644 (175,385) (3,329,726)
CASH FLOWS FROM FINANCING ACTIVITIES OF CONTINUING OPERATIONS:      
Principal payments on capital leases (196,606)   (196,606)
Proceeds from issuance of Calando debt     2,516,467
Proceeds from issuance of stock in subsidiary 8,000 1,718,932 20,902,100
Proceeds from issuance of common stock and warrants, net 10,958,231 4,507,389 106,253,011
NET CASH PROVIDED BY FINANCING ACTIVITIES OF CONTINUING OPERATIONS 10,769,625 6,226,321 129,474,972
Cash flows from discontinued operations:      
Operating cash flows (280) 2,265,284 (46,003,787)
Investing cash flows     790,625
Financing cash flows     (1,677,000)
Net cash provided by (used in) discontinued operations: (280) 2,265,284 (46,890,162)
NET INCREASE(DECREASE) IN CASH (4,130,101) 660,227 3,377,288
CASH AT BEGINNING OF PERIOD 7,507,389 6,847,162  
CASH AT END OF PERIOD 3,377,288 7,507,389 3,377,288
Supplementary disclosures:      
Interest paid 46,269 105,000 280,688
Taxes paid   $ 742,500 $ 742,500