Gavin Sherlock

Publications

• Analysis of the Saccharomyces cerevisiae pan-genome reveals a pool of copy number variants distributed in diverse yeast strains from differing industrial environments. Dunn B, Richter C, Kvitek DJ, Pugh T, Sherlock G. Genome Res. 2012; 22 (5): 908-24
• DNA methylation profiling reveals novel biomarkers and important roles for DNA methyltransferases in prostate cancer. Kobayashi Y, Absher DM, Gulzar ZG, Young SR, McKenney JK, Peehl DM, Brooks JD, Myers RM, Sherlock G. Genome Res. 2011; 21 (7): 1017-27
• Hunger artists: yeast adapted to carbon limitation show trade-offs under carbon sufficiency. Wenger JW, Piotrowski J, Nagarajan S, Chiotti K, Sherlock G, Rosenzweig F. PLoS Genet. 2011; 7 (8): e1002202
• Reciprocal sign epistasis between frequently experimentally evolved adaptive mutations causes a rugged fitness landscape. Kvitek DJ, Sherlock G. PLoS Genet. 2011; 7 (4): e1002056
• A genome-wide analysis reveals no nuclear dobzhansky-muller pairs of determinants of speciation between S. cerevisiae and S. paradoxus, but suggests more complex incompatibilities. Kao KC, Schwartz K, Sherlock G. PLoS Genet. 2010; 6 (7): e1001038
• Bulk segregant analysis by high-throughput sequencing reveals a novel xylose utilization gene from Saccharomyces cerevisiae. Wenger JW, Schwartz K, Sherlock G. PLoS Genet. 2010; 6 (5): e1000942
• Molecular characterization of clonal interference during adaptive evolution in asexual populations of Saccharomyces cerevisiae. Kao KC, Sherlock G. Nat Genet. 2008; 40 (12): 1499-504
• Reconstruction of the genome origins and evolution of the hybrid lager yeast Saccharomyces pastorianus. Dunn B, Sherlock G. Genome Res. 2008; 18 (10): 1610-23
• GO::TermFinder--open source software for accessing Gene Ontology information and finding significantly enriched Gene Ontology terms associated with a list of genes. Boyle EI, Weng S, Gollub J, Jin H, Botstein D, Cherry JM, Sherlock G. Bioinformatics. 2004; 20 (18): 3710-5
• Comparative metabolic footprinting of a large number of commercial wine yeast strains in Chardonnay fermentations. Richter CL, Dunn B, Sherlock G, Pugh T. FEMS Yeast Res. 2013; 13 (4): 394-410
• Comprehensive annotation of secondary metabolite biosynthetic genes and gene clusters of Aspergillus nidulans, A. fumigatus, A. niger and A. oryzae. Inglis DO, Binkley J, Skrzypek MS, Arnaud MB, Cerqueira GC, Shah P, Wymore F, Wortman JR, Sherlock G. BMC Microbiol. 2013; 13 (1): 91
• Improved gene ontology annotation for biofilm formation, filamentous growth, and phenotypic switching in Candida albicans. Inglis DO, Skrzypek MS, Arnaud MB, Binkley J, Shah P, Wymore F, Sherlock G. Eukaryot Cell. 2013; 12 (1): 101-8
• Recurrent rearrangement during adaptive evolution in an interspecific yeast hybrid suggests a model for rapid introgression. Dunn B, Paulish T, Stanbery A, Piotrowski J, Koniges G, Kroll E, Louis EJ, Liti G, Sherlock G, Rosenzweig F. PLoS Genet. 2013; 9 (3): e1003366
• APJ1 and GRE3 homologs work in concert to allow growth in xylose in a natural Saccharomyces sensu stricto hybrid yeast. Schwartz K, Wenger JW, Dunn B, Sherlock G. Genetics. 2012; 191 (2): 621-32
• Different selective pressures lead to different genomic outcomes as newly-formed hybrid yeasts evolve. Piotrowski JS, Nagarajan S, Kroll E, Stanbery A, Chiotti KE, Kruckeberg AL, Dunn B, Sherlock G, Rosenzweig F. BMC Evol Biol. 2012: 12 46
• The Aspergillus Genome Database (AspGD): recent developments in comprehensive multispecies curation, comparative genomics and community resources. Arnaud MB, Cerqueira GC, Inglis DO, Skrzypek MS, Binkley J, Chibucos MC, Crabtree J, Howarth C, Orvis J, Shah P, Wymore F, Binkley G, Miyasato SR, Simison M, Sherlock G, Wortman JR. Nucleic Acids Res. 2012; 40 (Database issue): D653-9
• The Candida genome database incorporates multiple Candida species: multispecies search and analysis tools with curated gene and protein information for Candida albicans and Candida glabrata. Inglis DO, Arnaud MB, Binkley J, Shah P, Skrzypek MS, Wymore F, Binkley G, Miyasato SR, Simison M, Sherlock G. Nucleic Acids Res. 2012; 40 (Database issue): D667-74
• Turbidostat culture of Saccharomyces cerevisiae W303-1A under selective pressure elicited by ethanol selects for mutations in SSD1 and UTH1. Avrahami-Moyal L, Engelberg D, Wenger JW, Sherlock G, Braun S. FEMS Yeast Res. 2012; 12 (5): 521-33
• GC-content normalization for RNA-Seq data. Risso D, Schwartz K, Sherlock G, Dudoit S. BMC Bioinformatics. 2011: 12 480
• Integrated genomic analyses of ovarian carcinoma. Nature. 2011; 474 (7353): 609-15
• Annotare--a tool for annotating high-throughput biomedical investigations and resulting data. Shankar R, Parkinson H, Burdett T, Hastings E, Liu J, Miller M, Srinivasa R, White J, Brazma A, Sherlock G, Stoeckert CJ, Ball CA. Bioinformatics. 2010; 26 (19): 2470-1
• Comprehensive annotation of the transcriptome of the human fungal pathogen Candida albicans using RNA-seq. Bruno VM, Wang Z, Marjani SL, Euskirchen GM, Martin J, Sherlock G, Snyder M. Genome Res. 2010; 20 (10): 1451-8
• Microarray karyotyping of maltose-fermenting Saccharomyces yeasts with differing maltotriose utilization profiles reveals copy number variation in genes involved in maltose and maltotriose utilization. Duval EH, Alves SL, Dunn B, Sherlock G, Stambuk BU. J Appl Microbiol. 2010; 109 (1): 248-59
• New tools at the Candida Genome Database: biochemical pathways and full-text literature search. Skrzypek MS, Arnaud MB, Costanzo MC, Inglis DO, Shah P, Binkley G, Miyasato SR, Sherlock G. Nucleic Acids Res. 2010; 38 (Database issue): D428-32
• Rnnotator: an automated de novo transcriptome assembly pipeline from stranded RNA-Seq reads. Martin J, Bruno VM, Fang Z, Meng X, Blow M, Zhang T, Sherlock G, Snyder M, Wang Z. BMC Genomics. 2010: 11 663
• TB database 2010: overview and update. Galagan JE, Sisk P, Stolte C, Weiner B, Koehrsen M, Wymore F, Reddy TB, Zucker JD, Engels R, Gellesch M, Hubble J, Jin H, Larson L, Mao M, Nitzberg M, White J, Zachariah ZK, Sherlock G, Ball CA, Schoolnik GK. Tuberculosis (Edinb). 2010; 90 (4): 225-35
• The Aspergillus Genome Database, a curated comparative genomics resource for gene, protein and sequence information for the Aspergillus research community. Arnaud MB, Chibucos MC, Costanzo MC, Crabtree J, Inglis DO, Lotia A, Orvis J, Shah P, Skrzypek MS, Binkley G, Miyasato SR, Wortman JR, Sherlock G. Nucleic Acids Res. 2010; 38 (Database issue): D420-7
• Evolution of pathogenicity and sexual reproduction in eight Candida genomes. Butler G, Rasmussen MD, Lin MF, Santos MA, Sakthikumar S, Munro CA, Rheinbay E, Grabherr M, Forche A, Reedy JL, Agrafioti I, Arnaud MB, Bates S, Brown AJ, Brunke S, Costanzo MC, Fitzpatrick DA, de Groot PW, Harris D, Hoyer LL, Hube B, Klis FM, Kodira C, Lennard N, Logue ME, Martin R, Neiman AM, Nikolaou E, Quail MA, Quinn J, Santos MC, Schmitzberger FF, Sherlock G, Shah P, Silverstein KA, Skrzypek MS, Soll D, Staggs R, Stansfield I, Stumpf MP, Sudbery PE, Srikantha T, Zeng Q, Berman J, Berriman M, Heitman J, Gow NA, Lorenz MC, Birren BW, Kellis M, Cuomo CA. Nature. 2009; 459 (7247): 657-62
• Gene Ontology and the annotation of pathogen genomes: the case of Candida albicans. Arnaud MB, Costanzo MC, Shah P, Skrzypek MS, Sherlock G. Trends Microbiol. 2009; 17 (7): 295-303
• Implementation of GenePattern within the Stanford Microarray Database. Hubble J, Demeter J, Jin H, Mao M, Nitzberg M, Reddy TB, Wymore F, Zachariah ZK, Sherlock G, Ball CA. Nucleic Acids Res. 2009; 37 (Database issue): D898-901
• Industrial fuel ethanol yeasts contain adaptive copy number changes in genes involved in vitamin B1 and B6 biosynthesis. Stambuk BU, Dunn B, Alves SL, Duval EH, Sherlock G. Genome Res. 2009; 19 (12): 2271-8
• TB database: an integrated platform for tuberculosis research. Reddy TB, Riley R, Wymore F, Montgomery P, DeCaprio D, Engels R, Gellesch M, Hubble J, Jen D, Jin H, Koehrsen M, Larson L, Mao M, Nitzberg M, Sisk P, Stolte C, Weiner B, White J, Zachariah ZK, Sherlock G, Galagan JE, Ball CA, Schoolnik GK. Nucleic Acids Res. 2009; 37 (Database issue): D499-508
• Changes to NIH grant system may backfire. Karp PD, Sherlock G, Gerlt JA, Sim I, Paulsen I, Babbitt PC, Laderoute K, Hunter L, Sternberg P, Wooley J, Bourne PE. Science. 2008; 322 (5905): 1187-8
• Comprehensive genomic characterization defines human glioblastoma genes and core pathways. Nature. 2008; 455 (7216): 1061-8
• Isolation and molecular characterization of cancer stem cells in MMTV-Wnt-1 murine breast tumors. Cho RW, Wang X, Diehn M, Shedden K, Chen GY, Sherlock G, Gurney A, Lewicki J, Clarke MF. Stem Cells. 2008; 26 (2): 364-71
• Minimum information specification for in situ hybridization and immunohistochemistry experiments (MISFISHIE). 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, Swedlow J, Taylor RC, Walashek L, Warford A, Wilkinson DG, Zhou Y, Zon LI, Liu AY, True LD. Nat Biotechnol. 2008; 26 (3): 305-12
• Novel low abundance and transient RNAs in yeast revealed by tiling microarrays and ultra high-throughput sequencing are not conserved across closely related yeast species. Lee A, Hansen KD, Bullard J, Dudoit S, Sherlock G. PLoS Genet. 2008; 4 (12): e1000299
• The Stanford Tissue Microarray Database. Marinelli RJ, Montgomery K, Liu CL, Shah NH, Prapong W, Nitzberg M, Zachariah ZK, Sherlock GJ, Natkunam Y, West RB, van de Rijn M, Brown PO, Ball CA. Nucleic Acids Res. 2008; 36 (Database issue): D871-7
• The XBabelPhish MAGE-ML and XML translator. Maier D, Wymore F, Sherlock G, Ball CA. BMC Bioinformatics. 2008: 9 28
• OntologyWidget - a reusable, embeddable widget for easily locating ontology terms. Beauheim CC, Wymore F, Nitzberg M, Zachariah ZK, Jin H, Skene JH, Ball CA, Sherlock G. BMC Bioinformatics. 2007: 8 338
• Sequence resources at the Candida Genome Database. Arnaud MB, Costanzo MC, Skrzypek MS, Shah P, Binkley G, Lane C, Miyasato SR, Sherlock G. Nucleic Acids Res. 2007; 35 (Database issue): D452-6
• The Stanford Microarray Database: implementation of new analysis tools and open source release of software. Demeter J, Beauheim C, Gollub J, Hernandez-Boussard T, Jin H, Maier D, Matese JC, Nitzberg M, Wymore F, Zachariah ZK, Brown PO, Sherlock G, Ball CA. Nucleic Acids Res. 2007; 35 (Database issue): D766-70
• The prognostic role of a gene signature from tumorigenic breast-cancer cells. Liu R, Wang X, Chen GY, Dalerba P, Gurney A, Hoey T, Sherlock G, Lewicki J, Shedden K, Clarke MF. N Engl J Med. 2007; 356 (3): 217-26
• A simple spreadsheet-based, MIAME-supportive format for microarray data: MAGE-TAB. 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, White J, Whetzel PL, Wymore F, Parkinson H, Sarkans U, Ball CA, Brazma A. BMC Bioinformatics. 2006: 7 489
• Cell cycle: complex evolution. Sherlock G, Nature. 2006; 443 (7111): 513-5
• Clustering microarray data. Gollub J, Sherlock G. Methods Enzymol. 2006: 411 194-213
• Development of the Minimum Information Specification for In Situ Hybridization and Immunohistochemistry Experiments (MISFISHIE). 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, Swedlow J, Taylor RC, Walashek L, Zhou Y, Liu AY, True LD. OMICS. 2006; 10 (2): 205-8
• Global analysis of gene function in yeast by quantitative phenotypic profiling. Brown JA, Sherlock G, Myers CL, Burrows NM, Deng C, Wu HI, McCann KE, Troyanskaya OG, Brown JM. Mol Syst Biol. 2006: 2 2006.0001
• Radiation-induced effects on gene expression: an in vivo study on breast cancer. Helland A, Johnsen H, Frøyland C, Landmark HB, Saetersdal AB, Holmen MM, Gjertsen T, Nesland JM, Ottestad W, Jeffrey SS, Ottestad LO, Rodningen OK, Sherlock G, Børresen-Dale AL. Radiother Oncol. 2006; 80 (2): 230-5
• The Candida Genome Database: facilitating research on Candida albicans molecular biology. Costanzo MC, Arnaud MB, Skrzypek MS, Binkley G, Lane C, Miyasato SR, Sherlock G. FEMS Yeast Res. 2006; 6 (5): 671-84
• The Stanford Microarray Database: a user's guide. Gollub J, Ball CA, Sherlock G. Methods Mol Biol. 2006: 338 191-208
• Top-down standards will not serve systems biology. Quackenbush J, Stoeckert C, Ball C, Brazma A, Gentleman R, Huber W, Irizarry R, Salit M, Sherlock G, Spellman P, Winegarden N. Nature. 2006; 440 (7080): 24
• Wrestling with SUMO and bio-ontologies. Stoeckert C, Ball C, Brazma A, Brinkman R, Causton H, Fan L, Fostel J, Fragoso G, Heiskanen M, Holstege F, Morrison N, Parkinson H, Quackenbush J, Rocca-Serra P, Sansone SA, Sarkans U, Sherlock G, Stevens R, Taylor C, Taylor R, Whetzel P, White J. Nat Biotechnol. 2006; 24 (1): 21-2; author reply 23
• A human-curated annotation of the Candida albicans genome. Braun BR, van Het Hoog M, d'Enfert C, Martchenko M, Dungan J, Kuo A, Inglis DO, Uhl MA, Hogues H, Berriman M, Lorenz M, Levitin A, Oberholzer U, Bachewich C, Harcus D, Marcil A, Dignard D, Iouk T, Zito R, Frangeul L, Tekaia F, Rutherford K, Wang E, Munro CA, Bates S, Gow NA, Hoyer LL, Köhler G, Morschhäuser J, Newport G, Znaidi S, Raymond M, Turcotte B, Sherlock G, Costanzo M, Ihmels J, Berman J, Sanglard D, Agabian N, Mitchell AP, Johnson AD, Whiteway M, Nantel A. PLoS Genet. 2005; 1 (1): 36-57
• Microarray karyotyping of commercial wine yeast strains reveals shared, as well as unique, genomic signatures. Dunn B, Levine RP, Sherlock G. BMC Genomics. 2005: 6 53
• Of fish and chips. Sherlock G, Nat Methods. 2005; 2 (5): 329-30
• Storage and retrieval of microarray data and open source microarray database software. Sherlock G, Ball CA. Mol Biotechnol. 2005; 30 (3): 239-51
• The Candida Genome Database (CGD), a community resource for Candida albicans gene and protein information. Arnaud MB, Costanzo MC, Skrzypek MS, Binkley G, Lane C, Miyasato SR, Sherlock G. Nucleic Acids Res. 2005; 33 (Database issue): D358-63
• The Stanford Microarray Database accommodates additional microarray platforms and data formats. Ball CA, Awad IA, Demeter J, Gollub J, Hebert JM, Hernandez-Boussard T, Jin H, Matese JC, Nitzberg M, Wymore F, Zachariah ZK, Brown PO, Sherlock G. Nucleic Acids Res. 2005; 33 (Database issue): D580-2
• An open letter on microarray data from the MGED Society. Ball C, Brazma A, Causton H, Chervitz S, Edgar R, Hingamp P, Matese JC, Icahn C, Parkinson H, Quackenbush J, Ringwald M, Sansone SA, Sherlock G, Spellman P, Stoeckert C, Tateno Y, Taylor R, White J, Winegarden N. Microbiology. 2004; 150 (Pt 11): 3522-4
• Caryoscope: an Open Source Java application for viewing microarray data in a genomic context. Awad IA, Rees CA, Hernandez-Boussard T, Ball CA, Sherlock G. BMC Bioinformatics. 2004: 5 151
• Final words: cell age and cell cycle are unlinked. Spellman PT, Sherlock G. Trends Biotechnol. 2004; 22 (6): 277-8
• Funding high-throughput data sharing. Ball CA, Sherlock G, Brazma A. Nat Biotechnol. 2004; 22 (9): 1179-83
• GeneXplorer: an interactive web application for microarray data visualization and analysis. Rees CA, Demeter J, Matese JC, Botstein D, Sherlock G. BMC Bioinformatics. 2004: 5 141
• Reply: whole-culture synchronization - effective tools for cell cycle studies. Spellman PT, Sherlock G. Trends Biotechnol. 2004; 22 (6): 270-3
• STARTing to recycle. Sherlock G, Nat Genet. 2004; 36 (8): 795-6
• Standards for microarray data: an open letter. Ball C, Brazma A, Causton H, Chervitz S, Edgar R, Hingamp P, Matese JC, Parkinson H, Quackenbush J, Ringwald M, Sansone SA, Sherlock G, Spellman P, Stoeckert C, Tateno Y, Taylor R, White J, Winegarden N. Environ Health Perspect. 2004; 112 (12): A666-7
• Submission of microarray data to public repositories. Ball CA, Brazma A, Causton H, Chervitz S, Edgar R, Hingamp P, Matese JC, Parkinson H, Quackenbush J, Ringwald M, Sansone SA, Sherlock G, Spellman P, Stoeckert C, Tateno Y, Taylor R, White J, Winegarden N. PLoS Biol. 2004; 2 (9): E317
• Microarray databases: storage and retrieval of microarray data. Sherlock G, Ball CA. Methods Mol Biol. 2003: 224 235-48
• SOURCE: a unified genomic resource of functional annotations, ontologies, and gene expression data. Diehn M, Sherlock G, Binkley G, Jin H, Matese JC, Hernandez-Boussard T, Rees CA, Cherry JM, Botstein D, Brown PO, Alizadeh AA. Nucleic Acids Res. 2003; 31 (1): 219-23
• The Longhorn Array Database (LAD): an open-source, MIAME compliant implementation of the Stanford Microarray Database (SMD). Killion PJ, Sherlock G, Iyer VR. BMC Bioinformatics. 2003: 4 32
• The Stanford Microarray Database: data access and quality assessment tools. Gollub J, Ball CA, Binkley G, Demeter J, Finkelstein DB, Hebert JM, Hernandez-Boussard T, Jin H, Kaloper M, Matese JC, Schroeder M, Brown PO, Botstein D, Sherlock G. Nucleic Acids Res. 2003; 31 (1): 94-6
• Design and implementation of microarray gene expression markup language (MAGE-ML). Spellman PT, Miller M, Stewart J, Troup C, Sarkans U, Chervitz S, Bernhart D, Sherlock G, Ball C, Lepage M, Swiatek M, Marks WL, Goncalves J, Markel S, Iordan D, Shojatalab M, Pizarro A, White J, Hubley R, Deutsch E, Senger M, Aronow BJ, Robinson A, Bassett D, Stoeckert CJ, Brazma A. Genome Biol. 2002; 3 (9): RESEARCH0046
• Identification of genes periodically expressed in the human cell cycle and their expression in tumors. Whitfield ML, Sherlock G, Saldanha AJ, Murray JI, Ball CA, Alexander KE, Matese JC, Perou CM, Hurt MM, Brown PO, Botstein D. Mol Biol Cell. 2002; 13 (6): 1977-2000
• Molecular characterisation of soft tissue tumours: a gene expression study. Nielsen TO, West RB, Linn SC, Alter O, Knowling MA, O'Connell JX, Zhu S, Fero M, Sherlock G, Pollack JR, Brown PO, Botstein D, van de Rijn M. Lancet. 2002; 359 (9314): 1301-7
• Saccharomyces Genome Database (SGD) provides secondary gene annotation using the Gene Ontology (GO). Dwight SS, Harris MA, Dolinski K, Ball CA, Binkley G, Christie KR, Fisk DG, Issel-Tarver L, Schroeder M, Sherlock G, Sethuraman A, Weng S, Botstein D, Cherry JM. Nucleic Acids Res. 2002; 30 (1): 69-72
• Standards for microarray data. 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, Stewart JE, Taylor R, Brazma A, Quackenbush J. Science. 2002; 298 (5593): 539
• The underlying principles of scientific publication. 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, Stewart JE, Taylor R, Brazma A, Quackenbush J. Bioinformatics. 2002; 18 (11): 1409
• Analysis of large-scale gene expression data. Sherlock G, Brief Bioinform. 2001; 2 (4): 350-62
• Creating the gene ontology resource: design and implementation. Genome Res. 2001; 11 (8): 1425-33
• Minimum information about a microarray experiment (MIAME)-toward standards for microarray data. 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. Nat Genet. 2001; 29 (4): 365-71
• Missing value estimation methods for DNA microarrays. Troyanskaya O, Cantor M, Sherlock G, Brown P, Hastie T, Tibshirani R, Botstein D, Altman RB. Bioinformatics. 2001; 17 (6): 520-5
• Saccharomyces Genome Database provides tools to survey gene expression and functional analysis data. Ball CA, Jin H, Sherlock G, Weng S, Matese JC, Andrada R, Binkley G, Dolinski K, Dwight SS, Harris MA, Issel-Tarver L, Schroeder M, Botstein D, Cherry JM. Nucleic Acids Res. 2001; 29 (1): 80-1
• The Stanford Microarray Database. Sherlock G, Hernandez-Boussard T, Kasarskis A, Binkley G, Matese JC, Dwight SS, Kaloper M, Weng S, Jin H, Ball CA, Eisen MB, Spellman PT, Brown PO, Botstein D, Cherry JM. Nucleic Acids Res. 2001; 29 (1): 152-5
• A whole-genome microarray reveals genetic diversity among Helicobacter pylori strains. Salama N, Guillemin K, McDaniel TK, Sherlock G, Tompkins L, Falkow S. Proc Natl Acad Sci U S A. 2000; 97 (26): 14668-73
• Analysis of large-scale gene expression data. Sherlock G, Curr Opin Immunol. 2000; 12 (2): 201-5
• Distinct types of diffuse large B-cell lymphoma identified by gene expression profiling. Alizadeh AA, Eisen MB, Davis RE, Ma C, Lossos IS, Rosenwald A, Boldrick JC, Sabet H, Tran T, Yu X, Powell JI, Yang L, Marti GE, Moore T, Hudson J, Lu L, Lewis DB, Tibshirani R, Sherlock G, Chan WC, Greiner TC, Weisenburger DD, Armitage JO, Warnke R, Levy R, Wilson W, Grever MR, Byrd JC, Botstein D, Brown PO, Staudt LM. Nature. 2000; 403 (6769): 503-11
• Gene ontology: tool for the unification of biology. The Gene Ontology Consortium. Ashburner M, Ball CA, Blake JA, Botstein D, Butler H, Cherry JM, Davis AP, Dolinski K, Dwight SS, Eppig JT, Harris MA, Hill DP, Issel-Tarver L, Kasarskis A, Lewis S, Matese JC, Richardson JE, Ringwald M, Rubin GM, Sherlock G. Nat Genet. 2000; 25 (1): 25-9
• Integrating functional genomic information into the Saccharomyces genome database. Ball CA, Dolinski K, Dwight SS, Harris MA, Issel-Tarver L, Kasarskis A, Scafe CR, Sherlock G, Binkley G, Jin H, Kaloper M, Orr SD, Schroeder M, Weng S, Zhu Y, Botstein D, Cherry JM. Nucleic Acids Res. 2000; 28 (1): 77-80
• Using the Saccharomyces Genome Database (SGD) for analysis of protein similarities and structure. Chervitz SA, Hester ET, Ball CA, Dolinski K, Dwight SS, Harris MA, Juvik G, Malekian A, Roberts S, Roe T, Scafe C, Schroeder M, Sherlock G, Weng S, Zhu Y, Cherry JM, Botstein D. Nucleic Acids Res. 1999; 27 (1): 74-8
• Comparison of the complete protein sets of worm and yeast: orthology and divergence. Chervitz SA, Aravind L, Sherlock G, Ball CA, Koonin EV, Dwight SS, Harris MA, Dolinski K, Mohr S, Smith T, Weng S, Cherry JM, Botstein D. Science. 1998; 282 (5396): 2022-8
• Comprehensive identification of cell cycle-regulated genes of the yeast Saccharomyces cerevisiae by microarray hybridization. Spellman PT, Sherlock G, Zhang MQ, Iyer VR, Anders K, Eisen MB, Brown PO, Botstein D, Futcher B. Mol Biol Cell. 1998; 9 (12): 3273-97
• Molecular cloning and analysis of CDC28 and cyclin homologues from the human fungal pathogen Candida albicans. Sherlock G, Bahman AM, Mahal A, Shieh JC, Ferreira M, Rosamond J. Mol Gen Genet. 1994; 245 (6): 716-23
• Starting to cycle: G1 controls regulating cell division in budding yeast. Sherlock G, Rosamond J. J Gen Microbiol. 1993; 139 (11): 2531-41