Fazlollahi M, Muroff I, Lee E, Causton HC, Bussemaker HJ. Identifying genetic modulators of the connectivity between transcription factors and their transcriptional targets. Proc Natl Acad Sci U S A. 2016 Mar 10.

Causton HC, Feeney KA, Ziegler CA, O'Neill JS. Metabolic cycles in yeast share features conserved among circadian rhythms. Curr Biol. 2015 Apr 20;25(8):1056-62.

Fazlollahi M, Lee E, Muroff I, Lu XJ, Gomez-Alcala P, Causton HC, Bussemaker HJ. Harnessing natural sequence variation to dissect posttranscriptional regulatory networks in yeast. G3 (Bethesda). 2014 Jun 17;4(8):1539-53.

Akavia UD, Litvin O, Kim J, Sanchez-Garcia F, Kotliar D, Causton HC, Pochanard P, Mozes E, Garraway LA, Pe'er D. An integrated approach to uncover drivers of cancer. Cell. 2010 Dec 10;143(6):1005-17.

Lippa KA, Duewer DL, Salit ML, Game L, Causton HC. Exploring the use of internal and externalcontrols for assessing microarray technical performance. BMC Res Notes. 2010 Dec 28;3:349. 

Chen BJ, Causton HC, Mancenido D, Goddard NL, Perlstein EO, Pe'er D. Harnessing gene expression to identify the genetic basis of drug resistance. Mol Syst Biol. 2009;5:310.

Litvin O, Causton HC, Chen BJ, Pe'er D. Modularity and interactions in the genetics of gene expression. Proc Natl Acad Sci U S A. 2009 Apr 21;106(16):6441-6.

Deutsch EW, Ball CA, Berman JJ, Bova GS, Brazma A, Bumgarner RE, Campbell D,Causton HC, Christiansen JH, Daian F, Dauga D, Davidson DR, Gimenez G, Goo YA, Grimmond S, Henrich T, Herrmann BG, Johnson MH, Korb M, Mills JC, Oudes AJ, Parkinson HE, Pascal LE, Pollet N, Quackenbush J, Ramialison M, Ringwald M, Salgado D, Sansone SA, Sherlock G, Stoeckert CJ Jr, Swedlow J, Taylor RC, Walashek L, Warford A, Wilkinson DG, Zhou Y, Zon LI, Liu AY, True LD. Minimum information specification for in situ hybridization and immunohistochemistry experiments (MISFISHIE). Nat Biotechnol. 2008 Mar;26(3):305-12.

Rayner TF, Rocca-Serra P, Spellman PT, Causton HC, Farne A, Holloway E, Irizarry RA, Liu J, Maier DS, Miller M, Petersen K, Quackenbush J, Sherlock G, Stoeckert CJ Jr, White J, Whetzel PL, Wymore F, Parkinson H, Sarkans U, Ball CA, Brazma A. A simple spreadsheet-based, MIAME-supportive format for microarray data: MAGE-TAB. BMC Bioinformatics. 2006 Nov 6;7:489.

Deutsch EW, Ball CA, Bova GS, Brazma A, Bumgarner RE, Campbell D, Causton HC, Christiansen J, Davidson D, Eichner LJ, Goo YA, Grimmond S, Henrich T, Johnson MH, Korb M, Mills JC, Oudes A, Parkinson HE, Pascal LE, Quackenbush J, Ramialison M, Ringwald M, Sansone SA, Sherlock G, Stoeckert CJ Jr, Swedlow J, Taylor RC, Walashek L, Zhou Y, Liu AY, True LD. Development of the Minimum Information Specification for In Situ Hybridization and Immunohistochemistry Experiments (MISFISHIE). OMICS. 2006 Summer;10(2):205-8. Review.

Whetzel PL, Brinkman RR, Causton HC, Fan L, Field D, Fostel J, Fragoso G, Gray T, Heiskanen M, Hernandez-Boussard T, Morrison N, Parkinson H, Rocca-Serra P, Sansone SA, Schober D, Smith B, Stevens R, Stoeckert CJ Jr, Taylor C, White J, Wood A; FuGO Working Group. Development of FuGO: an ontology for functional genomics investigations. OMICS. 2006 Summer;10(2):199-204. Review.

Whetzel PL, Parkinson H, Causton HC, Fan L, Fostel J, Fragoso G, Game L, Heiskanen M, Morrison N, Rocca-Serra P, Sansone SA, Taylor C, White J, Stoeckert CJ Jr. The MGED Ontology: a resource for semantics-based description of microarray experiments. Bioinformatics. 2006 Apr 1;22(7):866-73.

Navarange M, Game L, Fowler D, Wadekar V, Banks H, Cooley N, Rahman F, Hinshelwood J, Broderick P, Causton HC. MiMiR: a comprehensive solution for storage, annotation and exchange of microarray data. BMC Bioinformatics. 2005 Nov 9;6:268.

Hein AM, Richardson S, Causton HC, Ambler GK, Green PJ. BGX: a fully Bayesian integrated approach to the analysis of Affymetrix GeneChip data. Biostatistics. 2005 Jul;6(3):349-73.

Causton HC, Game L. MGED comes of age. Genome Biol. 2003;4(12):351. 

Kemp TJ, Causton HC, Clerk A. Changes in gene expression induced by H(2)O(2) in cardiac myocytes. Biochem Biophys Res Commun. 2003 Jul 25;307(2):416-21.

Shen WC, Bhaumik SR, Causton HC, Simon I, Zhu X, Jennings EG, Wang TH, Young RA, Green MR. Systematic analysis of essential yeast TAFs in genome-wide transcription and preinitiation complex assembly. EMBO J. 2003 Jul 1;22(13):3395-402.

Stoeckert CJ Jr, Causton HC, Ball CA. Microarray databases: standards and ontologies. Nat Genet. 2002 Dec;32 Suppl:469-73. Review.

Ball CA, Sherlock G, Parkinson H, Rocca-Sera P, Brooksbank C, Causton HC, Cavalieri D, Gaasterland T, Hingamp P, Holstege F, Ringwald M, Spellman P, Stoeckert CJ Jr, Stewart JE, Taylor R, Brazma A, Quackenbush J; Microarray Gene Expression Data. The underlying principles of scientific publication. Bioinformatics. 2002 Nov;18(11):1409. Review.

Ball CA, Sherlock G, Parkinson H, Rocca-Sera P, Brooksbank C, Causton HC, Cavalieri D, Gaasterland T, Hingamp P, Holstege F, Ringwald M, Spellman P, Stoeckert CJ Jr, Stewart JE, Taylor R, Brazma A, Quackenbush J; Microarray Gene Expression Data (MGED) Society. Standards for microarray data. Science. 2002 Oct 18;298(5593):539.

Brazma A, Hingamp P, Quackenbush J, Sherlock G, Spellman P, Stoeckert C, Aach J, Ansorge W, Ball CA, Causton HC, Gaasterland T, Glenisson P, Holstege FC, Kim IF, Markowitz V, Matese JC, Parkinson H, Robinson A, Sarkans U, Schulze-Kremer S, Stewart J, Taylor R, Vilo J, Vingron M. Minimum information about a microarray experiment (MIAME)-toward standards for microarray data. Nat Genet. 2001 Dec;29(4):365-71.

Causton HC, Ren B, Koh SS, Harbison CT, Kanin E, Jennings EG, Lee TI, True HL, Lander ES, Young RA. Remodeling of yeast genome expression in response to environmental changes. Mol Biol Cell. 2001 Feb;12(2):323-37.

Lee TI, Causton HC, Holstege FC, Shen WC, Hannett N, Jennings EG, Winston F, Green MR, Young RA. Redundant roles for the TFIID and SAGA complexes in global transcription. Nature. 2000 Jun 8;405(6787):701-4.

Robertson LS, Causton HC, Young RA, Fink GR. The yeast A kinases differentially regulate iron uptake and respiratory function. Proc Natl Acad Sci U S A. 2000 May 23;97(11):5984-8.

Wyrick JJ, Holstege FC, Jennings EG, Causton HC, Shore D, Grunstein M, Lander ES, Young RA. Chromosomal landscape of nucleosome-dependent gene expression and silencing in yeast. Nature. 1999 Nov 25;402(6760):418-21.

McLaren RS, Newbury SF, Dance GS, Causton HC, Higgins CF. mRNA degradation by processive 3'-5' exoribonucleases in vitro and the implications for prokaryotic mRNA decay in vivo. J Mol Biol. 1991 Sep 5;221(1):81-95.