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CONDENSED CONSOLIDATED STATEMENTS OF OPERATIONS - USD ($)
shares in Thousands, $ in Thousands
 3 Months Ended 6 Months Ended
Jun. 30, 2018
Jun. 30, 2017
Jun. 30, 2018
Jun. 30, 2017
Revenue:        
Royalties $ 30,049 $ 69,990 $ 51,423 $ 138,946
Product revenue 8,087 8,401 15,400 19,305
Contract and other revenue 18,322 16,329 36,061 33,820
Total revenue 56,458 94,720 102,884 192,071
Operating costs and expenses:        
Cost of product revenue [1] 4,199 7,480 8,556 12,730
Cost of contract and other revenue 11,089 14,337 23,211 28,818
Research and development [1] 37,696 37,522 77,813 73,522
Sales, general and administrative [1] 24,483 27,137 54,681 55,323
Restructuring charges (recoveries) (1,022) 0 2,223 0
Total operating costs and expenses 76,445 86,476 166,484 170,393
Operating income (loss) (19,987) 8,244 (63,600) 21,678
Interest income and other income (expense), net 8,249 129 17,365 283
Interest expense (4,634) (3,261) (9,055) (6,467)
Interest and other income (expense), net 3,615 (3,132) 8,310 (6,184)
Income (loss) before income taxes (16,372) 5,112 (55,290) 15,494
Provision for (benefit from) income taxes (1,015) 2,507 (4,244) 9,883
Net Income (Loss) $ (15,357) $ 2,605 $ (51,046) $ 5,611
Net income (loss) per share:        
Earnings Per Share, Basic $ (0.14) $ 0.02 $ (0.47) $ 0.05
Earnings Per Share, Diluted $ (0.14) $ 0.02 $ (0.47) $ 0.05
Weighted average shares used in per share calculation:        
Basic (in shares) 107,737 110,060 108,542 110,758
Diluted (in shares) 107,737 112,565 108,542 114,091
[1] Includes stock-based compensation