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Consolidated Statements of Operations (USD $)
 3 Months Ended 6 Months Ended 119 Months Ended
Mar. 31, 2013
Mar. 31, 2012
Mar. 31, 2013
Mar. 31, 2012
Mar. 31, 2013
Income Statement [Abstract]          
REVENUE $ 43,750 $ 31,250 $ 202,766 $ 55,208 $ 4,341,600
OPERATING EXPENSES          
Salaries and payroll-related costs 1,725,176 2,017,064 3,354,599 3,337,757 29,746,729
General and administrative expenses 779,970 930,914 1,697,646 2,197,824 33,050,861
Research and development 2,125,019 1,358,691 3,701,685 2,127,765 46,320,433
Stock-based compensation 355,108 169,390 750,782 421,268 14,332,250
Depreciation and amortization 448,765 423,948 898,362 878,391 8,307,648
TOTAL OPERATING EXPENSES 5,434,038 4,900,007 10,403,074 8,963,005 131,757,921
OPERATING LOSS (5,390,288) (4,868,757) (10,200,308) (8,907,797) (127,416,321)
OTHER INCOME (EXPENSE)          
Equity in income (loss) of unconsolidated affiliates (157,612) (64,261) (221,169) (170,788) (1,184,576)
Impairment of investment in unconsolidated affiliates         (1,642,775)
Gain on purchase of Roche Madison       1,576,107 1,576,107
Gain (loss) on sale of fixed assets, net (54,932) (33,484) (36,440) (33,484) (1,242,905)
Realized and unrealized gain (loss) in marketable securities       (58,091) 62,954
Interest income (expense), net (27,567) 5,015 (20,151) 12,890 2,730,293
Change in value of derivatives (29,403) (622,145) 14,873 (689,048) 3,296,277
Gain on sale of stock in subsidiary         2,292,800
Other income (expense) (1,279,881)   (1,257,196)   (1,007,196)
TOTAL OTHER INCOME (EXPENSE) (1,549,395) (714,875) (1,520,083) 637,586 4,880,979
LOSS FROM CONTINUING OPERATIONS BEFORE INCOME TAXES (6,939,683) (5,583,632) (11,720,391) (8,270,211) (122,535,342)
Provision for income taxes               
LOSS FROM CONTINUING OPERATIONS (6,939,683) (5,583,632) (11,720,391) (8,270,211) (122,535,342)
Income (loss) from discontinued operations (336) (483) (354) (702) (47,546,996)
Gain on disposal of discontinued operations         4,708,588
NET INCOME (LOSS) FROM DISCONTINUED OPERATIONS (336) (483) (354) (702) (42,838,408)
NET LOSS (6,940,019) (5,584,115) (11,720,745) (8,270,913) (165,373,750)
Net (income) loss attributable to noncontrolling interests 182,082 248,882 348,650 450,176 19,167,935
NET LOSS ATTRIBUTABLE TO ARROWHEAD $ (6,757,937) $ (5,335,233) $ (11,372,095) $ (7,820,737) $ (146,205,815)
Earnings per share - basic and diluted:          
Loss from continuing operations attributable to Arrowhead common shareholders $ (0.41) $ (0.50) $ (0.74) $ (0.75)  
Income from discontinued operations attributable to Arrowhead common shareholders               
Net loss attributable to Arrowhead shareholders $ (0.41) $ (0.50) $ (0.74) $ (0.75)  
Weighted average shares outstanding - basic and diluted 16,461,693 10,663,869 15,272,703 10,390,986