What is the first published paper that used RNA-Seq to study transcriptome? Take any recent (almost?) RNA-Seq paper, the two papers that get cited for RNA-Seq technology are
- Mapping and quantifying mammalian transcriptomes by RNA-Seq by Ali Mortazavi, Brian A Williams Kenneth McCue, Lorian Schaeffer & Barbara Wold. Nat Methods. 2008 Jul;5(7):621-8
- The Transcriptional Landscape of the Yeast Genome Defined by RNA Sequencing, by Nagalakshmi U, Wang Z, Waern K, Shou C, Raha D, Gerstein M, Snyder M. Science. 2008 Jun 6;320(5881):1344-9.
No doubt, they are great papers, but just found from a comment by Joe Ecker from Salk Institute at Lior Pachter’s blog that Joe Ecker’s group was the first to publish a paper using RNA-Seq technology. The paper was published in Cell and beats the above mentioned publications by a month.
- Highly integrated single-base resolution maps of the epigenome in Arabidopsis by Lister R, O’Malley RC, Tonti-Filippini J, Gregory BD, Berry CC, Millar AH, Ecker JR. Cell. 2008 May 2;133(3):523-36.
The paper by Lister et. al. not just did RNA-Seq, but also small RNA-seq and methylC-seq in Arabidopsis.
It is bit embarrassing to miss like this on a new technology at this age of internet. Here is the list of dates for the three publications. Also check the comments for an earlier paper that used “EST related terminology” instead of RNA-seq.
Lister et. al. Cell
- Received: 19 February 2008,
- Revised: 20 March 2008,
- Accepted 27 March 2008,
- Available online: 17 April 2008
- Published online: 17 April 2008
- Published in Print: 2 May 2008
Nagalakshmi et. al. Science
- Received: 31 March 2008;
- Accepted: 22 April 2008
- Published online: 1 May 2008;
- Published in Print: 6 June 2008
Mortazavi et. al. Nature Methods:
- Received: 2 May 2008
- Accepted: 27 May
- Published Online: 30 May 2008
- Published in Print: July 2008