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Isis Reports Financial Results and Highlights for 2012
Date:2/28/2013

debt--(4,770)-Loss before income tax benefit (expense) (11,042)(20,036)(74,587)(84,790)Income tax benefit (expense)8,405-9,109(11)Net loss $(2,637)$(20,036)$(65,478)$(84,801)Basic and diluted net loss per share$(0.03)$(0.20)$(0.65)$(0.85)Shares used in computing basic and diluted net loss per share101,24699,763100,57699,656 Isis Pharmaceuticals, Inc.Reconciliation of GAAP to Pro Forma Basis: Condensed Consolidated Operating Expenses and Loss From Operations (In Thousands)Three months ended,

December 31,Years ended,

December 31, 2012201120122011(unaudited)(unaudited)As reported operating expenses according to GAAP$45,992$51,019$170,973$170,186Excluding compensation expense related to equity awards (1,811)(2,249)(8,571)(9,845)Pro forma operating expenses$44,181$48,770$162,402$160,341As reported loss from operations according to GAAP$(26,119)$(18,616)$(68,924)$(71,100)Excluding compensation expense related to equity awards (1,811)(2,249)(8,571)(9,845)Pro forma loss from operations$(24,308)$(16,367)$(60,353)$(61,255) 

Reconciliation of GAAP to Pro Forma Basis
As illustrated in the Selected Financial Information in this press release, pro forma operating expenses and pro forma loss from operations were adjusted from GAAP to exclude compensation expense related to equity awards, which are non-cash.  Isis has regularly reported non-GAAP measures for operating expenses and loss from operations as pro forma results.  These measures are provided as supplementary information and are not a substitute for financial measures calculated in accordance with GAAP.  Isis reports these pro forma results to better enable financial statement users to assess and compare its historical performance and project its future operating results and cash flows.  Further, the presentation of Isis' pro forma results is consistent with how Isis' management internally evaluates the performance of its operations.

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