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Fair Value Measurements
3 Months Ended
Mar. 31, 2014
Fair Value Measurements [Abstract]  
Fair Value Measurements
4.Fair Value Measurements

We use a three-tier fair value hierarchy to prioritize the inputs used in our fair value measurements.  These tiers include: Level 1, defined as observable inputs such as quoted prices in active markets for identical assets, which includes our money market funds and treasury securities classified as available-for-sale securities and our investment in equity securities in publicly-held biotechnology companies; Level 2, defined as inputs other than quoted prices in active markets that are either directly or indirectly observable, which includes our fixed income securities and commercial paper classified as available-for-sale securities; and Level 3, defined as unobservable inputs in which little or no market data exists, therefore requiring an entity to develop its own assumptions.  Our Level 3 investments include investments in the equity securities of publicly-held biotechnology companies for which we calculated a lack of marketability discount because there were restrictions on when we could trade the securities.  The majority of our securities have been classified as Level 2. We obtain the fair value of our Level 2 investments from our custodian bank or from a professional pricing service.  We validate the fair value of our Level 2 investments by understanding the pricing model used by the custodian banks or professional pricing service provider and comparing that fair value to the fair value based on observable market prices. During the three months ended March 31, 2014 and 2013 there were no transfers between our Level 1 and Level 2 investments. We use the end of reporting period method for determining transfers between levels.

We measure the following major security types at fair value on a recurring basis. We break down the inputs used to measure fair value for these assets at March 31, 2014 and December 31, 2013 as follows (in thousands):

 
 
At March 31,
2014
  
Quoted Prices in
Active Markets
(Level 1)
  
Significant Other
Observable
Inputs
(Level 2)
  
Significant
Unobservable
Inputs
(Level 3)
 
Cash equivalents (1)
 
$
149,945
  
$
141,013
  
$
8,932
  
$
 
Corporate debt securities (2)
  
344,930
   
   
344,930
   
 
Debt securities issued by U.S. government agencies (2)
  
67,598
   
   
67,598
   
 
Debt securities issued by the U.S. Treasury (2)
  
15,298
   
15,298
   
   
 
Debt securities issued by states of the United States and political subdivisions of the states (2)
  
41,689
   
   
41,689
   
 
Investment in Regulus Therapeutics Inc.
  
63,586
   
63,586
   
   
 
Equity securities (3)
  
2,903
   
985
   
   
1,918
 
Total
 
$
685,949
  
$
220,882
  
$
463,149
  
$
1,918
 

 
 
 
At December 31,
2013
  
Quoted Prices in
Active Markets
(Level 1)
  
Significant Other
Observable
Inputs
(Level 2)
  
Significant
Unobservable
Inputs
(Level 3)
 
Cash equivalents (1)
 
$
146,357
  
$
133,233
  
$
13,124
  
$
 
Corporate debt securities (2)
  
394,773
   
   
394,773
   
 
Debt securities issued by U.S. government agencies (2)
  
64,432
   
   
64,432
   
 
Debt securities issued by the U.S. Treasury (2)
  
15,328
   
15,328
   
   
 
Debt securities issued by states of the United States and political subdivisions of the states (2)
  
22,255
   
   
22,255
   
 
Investment in Regulus Therapeutics Inc.
  
52,096
   
52,096
   
   
 
Equity securities (3)
  
1,276
   
1,276
   
   
 
Total
 
$
696,517
  
$
201,933
  
$
494,584
  
$
 
 

(1)Included in cash and cash equivalents on our condensed consolidated balance sheet.

(2)Included in short-term investments on our condensed consolidated balance sheet.

(3)Included in other current assets on our condensed consolidated balance sheet.

We classified as Level 3 the fair value of our investments in the equity securities of publicly-held biotechnology companies that are subject to trading restrictions for which we calculate a lack of marketability discount on the fair value of the investments. We consider the inputs we used to calculate the lack of marketability discount Level 3 inputs and, as a result, we categorized these investments as Level 3.  We determined the lack of marketability discount by using a Black-Scholes model to value a hypothetical put option to approximate the cost of hedging the stock until the restriction ended.

As of January 1, 2013, we classified the fair value measurements of our investments in the equity securities of Regulus and Sarepta Therapeutics, Inc. as Level 3.  In the first quarter of 2013, we sold all of the common stock of Sarepta that we owned resulting in a realized gain of $1.1 million. As of March 31, 2013, our Level 3 investments consisted of our investment in Regulus, with a gross fair value of $54.6 million and a lack of marketability discount of $9.7 million.  In the fourth quarter of 2013, we re-classified our investment in Regulus to a Level 1 investment because the contractual trading restrictions on the Regulus shares we own ended. We recognize transfers between levels of the fair value hierarchy on the date of the event or change in circumstances that caused the transfer.  In the first quarter of 2014, Achaogen completed an initial public offering. As a result, we stopped using the cost method of accounting for our equity investment in Achaogen and instead we began accounting for it at fair value, which includes a lack of marketability discount because there are restrictions on when we can trade the securities.  As of March 31, 2014, we classified our investment in the equity securities of Achaogen as Level 3 with a gross fair value of $2.3 million and a lack of marketability discount of $365,000.

The following is a summary of our investments measured at fair value on a recurring basis using significant unobservable inputs (Level 3) for the three months ended March 31, 2014 and 2013 (in thousands):

 
 
Three Months Ended
March 31,
 
 
 
2014
  
2013
 
 
 
  
 
Beginning balance of Level 3 investments
 
$
  
$
34,350
 
Total gains and losses:
        
Included in gain on investments
  
   
(1,163
)
Included in accumulated other comprehensive income (loss)
  
1,918
   
11,716
 
Cost basis of shares sold
  
   
(40
)
Ending balance of Level 3 investments
 
$
1,918
  
$
44,863
 

Other Fair Value Disclosures

Our 2¾ percent convertible notes had a fair value of $505.2 million at March 31, 2014.  We determine the fair value of our 2¾ percent convertible notes based on quoted market prices for these notes, which is a Level 2 measurement.