RECOMB/ISCB Conference on Regulatory and Systems Genomics, with DREAM Challenges


updated November 13, 2013

November 12, 2013 - Top Ten Paper Awards

>>Click here<< to download PDF

The winners of the Top Ten Paper Awards in the field of Regulatory and Systems Genomics for our Top Ten paper awards announced at RECOMB/ISCB Regulatory and Systems Genomics meeting in Toronto are (in no particular order):

  • DNaseI sensitivity QTLs are a major determinant of human expression variation
    Jacob F Degner, AthmaA Pai, Roger Pique-Regi, Jean-Baptiste Veyrieras, Daniel J Gaffney, Joseph K Pickrell, Sherryl De Leon, Katelyn Michelini, Noah Lewellen, Gregory E Crawford, Matthew Stephens, Yoav Gilad, Jonathan K Pritchard
    Nature, 482(7385), 390-394, 2012 - February 4, 2012
  • Guilt by association is the exception rather than the rule in gene networks
    Gillis J, Pavlidis P.
    PLoS Comput Biol. 2012;8(3):e1002444 - March 29, 2012
  • An expansive human regulatory lexicon encoded in transcription factor footprints
    Neph S, Vierstra J, StergachisAB, Reynolds AP, Haugen E, Vernot B, Thurman RE, John S, Sandstrom R, Johnson AK, Maurano MT, Humbert R, Rynes E, Wang H, Vong S, Lee K, Bates D, Diegel M, Roach V, Dunn D, Neri J, Schafer A, Hansen RS, Kutyavin T, Giste E, Weaver M, Canfield T, Sabo P, Zhang M, Balasundaram G, Byron R, MacCoss MJ, Akey JM, Bender MA, Groudine M, Kaul R, Stamatoyannopoulos JA.
    Nature, 489(7414), 83-90, Sep 2012. – September 6, 2012
  • Linking the signaling cascades and dynamic regulatory networks controlling stress responses
    Gitter A, Carmi M, Barkai N, Bar-Joseph Z
    Genome Research, 23(2), 365-376, Feb 2013. - October 11, 2012
  • Systematic dissection of regulatory motifs in 2000 predicted human enhancers using a massively parallel reporter assay
    Kheradpour P, Ernst J, Melnikov A, Rogov P, Wang L, Zhang X, Alston J,
    Mikkelsen TS, Kellis M.
    Genome Research. 2013 May;23(5):800-11. – May 1, 2013
  • Genomic regions flanking E-box binding sites influence DNA binding specificity of bHLH transcription factors through DNA shape
    Gordân R, Shen N, Dror I, Zhou T, Horton J, Rohs R, Bulyk ML.
    Cell Rep. 2013 Apr 25;3(4):1093-104 - April 1, 2013
  • Promoter Sequence Determines the Relationship between Expression Level and Noise
    Carey LB, van Dijk D, Sloot PM, Kaandorp JA, Segal E.
    PLoS Biol. 2013;11(4):e1001528. – April 1, 2013
  • Probing DNA shape and methylation state on a genomic scale with DNase I
    Lazarovici A, Zhou T, Shafer A, Dantas Machado A, Riley T, Sandstrom R, Sabo P, Lu Y, Rohs R, Stamatoyannopoulos J, Bussemaker H
    Proc Natl Acad Sci U S A. 2013 Apr 16;110(16):6376-81 - April 1, 2013
  • A statistical framework for joint eQTL analysis in multiple tissues
    Timothée Flutre, Xiaoquan Wen, Jonathan Pritchard, Matthew Stephens
    PLoS Genetics, 9, 5, e1003486, 2013 - May 9, 2013
  • Computational identification of diverse mechanisms underlying transcription factor-DNA occupancy
    Q. Cheng, M. Kazemian, H. Pham, C. Blatti, S. E. Celniker, S. A. Wolfe,
    M. H. Brodsky, S. Sinha
    PLoS Genetics. 2013 Aug;9(8):e1003571. – August 1, 2013

Dear Colleagues,

Please help nominate papers in the field of Regulatory and Systems Genomics for our Top Ten paper awards at the upcoming RECOMB/ISCB Regulatory and Systems Genomics meeting.

Our goal is to identify seminal papers that will have a lasting impact in the field of Regulatory and Systems Genomics. Some papers may have introduced new biological insights, others key computational methodologies for interpreting biological datasets, and ideally both. These papers will be honored at an awards ceremony in the 2013 RECOMB/ISCB Meeting on Regulatory and Systems Genomics in Toronto on November 8-12, 2013.

Relevant areas include Motifs, Grammars, Networks, Systems, Variation, Disease, Personal Genomics, GWAS interpretation, Regulatory Evolution, Comparative genomics, Epigenomics, Physical modeling, Dataset Integration, Splicing regulation, transcriptional regulation, and all areas of gene and genome regulation at the systems level.

The nomination process will close on October 31st, at which point voting will begin until November 8th, when the conference will begin in Toronto. Papers must have appeared between January 1st, 2012 and August 31st, 2013. You can nominate a paper from your own group, but we ask that if you are doing so, to also take the time to nominate at least one paper that was not co-authored by you.

You can find the nomination form here:

Thank you for your help and for being part of our community,

Manolis Kellis and Saurabh Sinha
Co-organizers, RegSysGen Top 10 Papers Annual Awards
ISCB Special Interest Group On Regulatory & Systems Genomics (RegSys SIG)