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Segment Information and Concentration of Business Risk, Segment Information (Details)
$ in Thousands
3 Months Ended 12 Months Ended
Dec. 31, 2016
USD ($)
Sep. 30, 2016
USD ($)
Jun. 30, 2016
USD ($)
Mar. 31, 2016
USD ($)
Dec. 31, 2015
USD ($)
Sep. 30, 2015
USD ($)
Jun. 30, 2015
USD ($)
Mar. 31, 2015
USD ($)
Dec. 31, 2016
USD ($)
Segment
Dec. 31, 2015
USD ($)
Dec. 31, 2014
USD ($)
Segment Information and Concentration of Business Risk [Abstract]                      
Number of reportable segments | Segment                 2    
Revenue [Abstract]                      
Research and development                 $ 325,898 $ 281,360 $ 202,514
Licensing and royalty                 20,722 2,343 11,647
Total revenue $ 160,349 $ 110,927 $ 38,470 $ 36,874 $ 51,571 $ 49,121 $ 120,428 $ 62,583 346,620 283,703 214,161
Income (loss) from operations 41,155 $ 16,108 $ (48,927) $ (54,652) (62,940) $ (48,138) $ 44,646 $ (9,330) (46,316) (75,762) (47,730)
Total assets 912,467       947,900       912,467 947,900  
Operating Segments [Member] | Ionis Core [Member]                      
Revenue [Abstract]                      
Research and development                 338,546 284,135 202,514
Licensing and royalty                 20,722 2,343 11,647
Total revenue                 359,268 286,478 214,161
Income (loss) from operations                 37,196 (23,014) (26,033)
Total assets 1,067,770       994,191       1,067,770 994,191  
Operating Segments [Member] | Akcea Therapeutics [Member]                      
Revenue [Abstract]                      
Research and development                 0 0 0
Licensing and royalty                 0 0 0
Total revenue                 0 0 0
Income (loss) from operations                 (83,512) (52,748) $ (21,697)
Total assets 10,684       66,068       10,684 66,068  
Elimination of Intercompany Activity [Member]                      
Revenue [Abstract]                      
Research and development                 (12,648) (2,775)  
Licensing and royalty                 0 0  
Total revenue                 (12,648) (2,775)  
Income (loss) from operations                 0 0  
Total assets $ (165,987)       $ (112,359)       $ (165,987) $ (112,359)