[med-svn] [SCM] cufflinks branch, master, updated. debian/1.3.0-1-8-g36e7d88

[Charles Plessy]

The following commit has been merged in the master branch:
commit a97b1e25089c77add90e90729d9685fcf59d9faa
Author: Charles Plessy <plessy at debian.org>
Date:   Wed May 9 08:34:32 2012 +0900

    Added a new bibliographic reference.

diff --git a/debian/upstream b/debian/upstream
index 137a90c..5e82e05 100644
--- a/debian/upstream
+++ b/debian/upstream
@@ -2,9 +2,25 @@ Contact: Cole Trapnell <cole at cs.umd.edu>
 Homepage: http://cufflinks.cbcb.umd.edu/
 Name: Cufflinks
 Reference:
-  Author: Trapnell C, Williams BA, Pertea G, Mortazavi AM, Kwan G, van Baren MJ, Salzberg SL, Wold B, Pachter L.
+- Author: Cole Trapnell and Brian A Williams and Geo Pertea and Ali Mortazavi and Gordon Kwan and Marijke J van Baren and Steven L Salzberg and Barbara J Wold and Lior Pachter
   Title: Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation
   Journal: Nature Biotechnology
   DOI: doi:10.1038/nbt.1621
   URL: http://www.nature.com/nbt/journal/v28/n5/full/nbt.1621.html
   Year: 2010
+  PubMed: 20436464
+  Pages: 511-515
+  Volume: 28
+  Issue: 5
+  Type: article
+- Author: "Cole Trapnell and Adam Roberts and Loyal Goff and Geo Pertea and Daehwan Kim and David R Kelley and Harold Pimentel and Steven L Salzberg and John L Rinn and Lior Pachter"
+  Title: Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks.
+  Journal: Nat. Protocols
+  Year: 2012
+  DOI: 10.1038/nprot.2012.016
+  URL: http://www.nature.com/nprot/journal/v7/n3/full/nprot.2012.016.html
+  Pages: 562-578
+  Volume: 7
+  Issue: 8
+  PubMed: 22383036
+  Type: article

-- 
Transcript assembly, differential expression, and differential regulation for RNA-Seq.