• 2018
  Nevers A, Doyen A, Malabat C, Néron B, Kergrohen T, Jacquier A, Badis G, Antisense transcriptional interference mediates condition-specific gene repression in budding yeast, Nucleic Acids Res. 2018 May;.
• 2015
  Peña-Castillo L and Badis G., Systematic Determination of Transcription Factor DNA-Binding Specificities in Yeast, Methods Molecular Biology, Vol. 1361, Frédéric Devaux (Eds): Yeast Functional Genomics, 978-1-4939-3078-4, 318712_1_En, (12).
• 2013
  Babiano R, Badis G, Saveanu C, Namane A, Doyen A, Díaz-Quintana A, Jacquier A, Fromont-Racine M, de la Cruz J, Yeast ribosomal protein L7 and its homologue Rlp7 are simultaneously present at distinct sites on pre-60S ribosomal particles, Nucleic Acids Res. 2013 Nov;41(20):9461-70.
• 2010
  Santos MA, Turinsky AL, Ong S, Tsai J, Berger MF, Badis G, Talukder S, Gehrke AR, Bulyk ML, Hughes TR, Wodak SJ., Objective sequence-based subfamily classifications of mouse homeodomains reflect their in vitro DNA-binding preferences, 2010 Dec;38(22):7927-42..
• 2010
  Wei GH, Badis G, Berger MF, Kivioja T, Palin K, Enge M, Bonke M, Jolma A, Varjosalo M, Gehrke AR, Yan J, Talukder S, Turunen M, Taipale M, Stunnenberg HG, Ukkonen E, Hughes TR, Bulyk ML, Taipale J., Genome-wide analysis of ETS-family DNA-binding in vitro and in vivo, EMBO J. 2010 Jul 7;29(13):2147-60.
• 2009
  Badis G, Berger MF, Philippakis AA, Talukder S, Gehrke AR, Jaeger SA, Chan ET, Metzler G, Vedenko A, Chen X, Kuznetsov H, Wang CF, Coburn D, Newburger DE, Morris Q, Hughes TR, Bulyk ML., Diversity and complexity in DNA recognition by transcription factors, Science. 2009 Jun 26;324(5935):1720-3..
• 2009
  Fulton DL, Sundararajan S, Badis G, Hughes TR, Wasserman WW, Roach JC, Sladek R., TFCat: the curated catalog of mouse and human transcription factors, Genome Biol. 2009;10(3):R29.
• 2008
  Badis G, Chan ET, van Bakel H, Pena-Castillo L, Tillo D, Tsui K, Carlson CD, Gossett AJ, Hasinoff MJ, Warren CL, Gebbia M, Talukder S, Yang A, Mnaimneh S, Terterov D, Coburn D, Li Yeo A, Yeo ZX, Clarke ND, Lieb JD, Ansari AZ, Nislow C, Hughes TR., A library of yeast transcription factor motifs reveals a widespread function for Rsc3 in targeting nucleosome exclusion at promoters, Mol Cell. 2008 Dec 26;32(6):878-87..
• 2008
  Alleyne TM, Peña-Castillo L, Badis G, Talukder S, Berger MF, Gehrke AR, Philippakis AA, Bulyk ML, Morris QD, Hughes TR, Predicting the binding preference of transcription factors to individual DNA k-mers, Bioinformatics 2009 Apr;25(8):1012-8.
• 2008
  Berger MF, Badis G, Gehrke AR, Talukder S, Philippakis AA, Peña-Castillo L, Alleyne TM, Mnaimneh S, Botvinnik OB, Chan ET, Khalid F, Zhang W, Newburger D, Jaeger SA, Morris QD, Bulyk ML, Hughes TR., Variation in homeodomain DNA binding revealed by high-resolution analysis of sequence preferences, Cell. 2008 Jun 27;133(7):1266-76..
• 2008
  Sandhu C, Hewel JA, Badis G, Talukder S, Liu J, Hughes TR, Emili A., Evaluation of data-dependent versus targeted shotgun proteomic approaches for monitoring transcription factor expression in breast cancer, J Proteome Res. 2008 Apr;7(4):1529-41..
• 2007
  Berger AB, Decourty L, Badis G, Nehrbass U, Jacquier A, Gadal O, Hmo1 is required for TOR-dependent regulation of ribosomal protein gene transcription, Mol. Cell. Biol. 2007 Nov;27(22):8015-26.
• 2005
  Wyers F, Rougemaille M, Badis G, Rousselle JC, Dufour ME, Boulay J, Régnault B, Devaux F, Namane A, Séraphin B, Libri D, Jacquier A, Cryptic pol II transcripts are degraded by a nuclear quality control pathway involving a new poly(A) polymerase, Cell 2005 Jun;121(5):725-37.
• 2005
  Torchet C, Badis G, Devaux F, Costanzo G, Werner M, Jacquier A, The complete set of H/ACA snoRNAs that guide rRNA pseudouridylations in Saccharomyces cerevisiae, RNA 2005 Jun;11(6):928-38.
• 2004
  Badis G, Saveanu C, Fromont-Racine M, Jacquier A, Targeted mRNA degradation by deadenylation-independent decapping, Mol. Cell 2004 Jul;15(1):5-15.
• 2003
  Badis G, Fromont-Racine M, Jacquier A, A snoRNA that guides the two most conserved pseudouridine modifications within rRNA confers a growth advantage in yeast, RNA 2003 Jul;9(7):771-9.