Publications (1995-2001):
(updated 01/20/04)

Publications (2002-Recent)

Protchenko O, Ferea T, Rashford J, Tiedeman J, Brown PO, Botstein D, Philpott CC.
Three cell wall mannoproteins facilitate the uptake of iron in Saccharomyces cerevisiae.
J Biol Chem. 2001 Dec 28; 276(52): 49244-50.
Pubmed JBC
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Rutherford JC, Jaron S, Ray E, Brown PO, Winge DR.
A second iron-regulatory system in yeast independent of Aft1p.
Proc Natl Acad Sci U S A. 2001 Dec 4; 98(25): 14322-7.
Pubmed PNAS
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Rosenwald A, Alizadeh AA, Widhopf G, Simon R, Davis RE, Yu X, Yang L, Pickeral OK, Rassenti LZ, Powell J, Botstein D, Byrd JC, Grever MR, Cheson BD, Chiorazzi N, Wilson WH, Kipps TJ, Brown PO, Staudt LM.
Relation of gene expression phenotype to immunoglobulin mutation genotype in B cell chronic lymphocytic leukemia.
J Exp Med. 2001 Dec 3; 194(11): 1639-47.
Pubmed JEM Web Supplement PDF

Rothenberg SM, Olsen MN, Laurent LC, Crowley RA, Brown PO.
Comprehensive mutational analysis of the Moloney murine leukemia virus envelope protein.
J Virol. 2001 Dec; 75(23): 11851-62.
Pubmed JVirol Web Supplement PDF

Garber ME, Troyanskaya OG, Schluens K, Petersen S, Thaesler Z, Pacyna-Gengelbach M, van de Rijn M, Rosen GD, Perou CM, Whyte RI, Altman RB, Brown PO, Botstein D, Petersen I.
Diversity of gene expression in adenocarcinoma of the lung.
Proc Natl Acad Sci U S A. 2001 Nov 20; 98(24): 13784-9.
Pubmed PNAS Web Supplement PDF

Finlin BS, Gau CL, Murphy GA, Shao H, Kimel T, Seitz RS, Chiu YF, Botstein D, Brown PO, Der CJ, Tamanoi F, Andres DA, Perou CM.
RERG is a novel ras-related, estrogen-regulated and growth-inhibitory gene in breast cancer.
J Biol Chem. 2001 Nov 9; 276(45): 42259-42267.
Pubmed JBC
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Gasch AP, Huang M, Metzner S, Botstein D, Elledge SJ, Brown PO.
Genomic expression responses to DNA-damaging agents and the regulatory role of the yeast ATR homolog Mec1p.
Mol Biol Cell. 2001 Oct; 12(10): 2987-3003.
Pubmed MBC Web Supplement PDF

Keller G, Ray E, Brown PO, Winge DR.
Haa1, a protein homologous to the copper-regulated transcription factor ace1, is a novel transcriptional activator.
J Biol Chem. 2001 Oct 19; 276(42): 38697-702.
Pubmed JBC
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Lonning PE, Sorlie T, Perou CM, Brown PO, Botstein D, Borresen-Dale AL.
Microarrays in primary breast cancer - lessons from chemotherapy studies.
Endocr Relat Cancer. 2001 Sep; 8(3): 259-63.
Pubmed ERC
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Sorlie T, Perou CM, Tibshirani R, Aas T, Geisler S, Johnsen H, Hastie T, Eisen MB, van de Rijn M, Jeffrey SS, Thorsen T, Quist H, Matese JC, Brown PO, Botstein D, Eystein Lonning P, Borresen-Dale AL.
Gene expression patterns of breast carcinomas distinguish tumor subclasses with clinical implications.
Proc Natl Acad Sci U S A. 2001 Sep 11; 98(19): 10869-74.
Pubmed PNAS Web Supplement PDF

Liu R, Liu H, Chen X, Kirby M, Brown PO, Zhao K.
Regulation of CSF1 promoter by the SWI/SNF-like BAF complex.
Cell. 2001 Aug 10; 106(3): 309-18.
Pubmed Cell
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Backhus LE, DeRisi J, Brown PO, Bisson LF.
Functional genomic analysis of a commercial wine strain of Saccharomyces cerevisiae under differing nitrogen conditions.
FEMS Yeast Res. 2001 Jul; 1(2): 111-25.
Pubmed

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Frueh FW, Hayashibara KC, Brown PO, Whitlock JP Jr.
Use of cDNA microarrays to analyze dioxin-induced changes in human liver gene expression.
Toxicol Lett. 2001 Jul 6; 122(3): 189-203.
Pubmed Toxicol Lett
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Lieb JD, Liu X, Botstein D, Brown PO.
Promoter-specific binding of Rap1 revealed by genome-wide maps of protein-DNA association.
Nat Genet. 2001 Aug; 28(4): 327-334.
Pubmed Nature Genetics Web Supplement PDF

Chiang DY, Brown PO, Eisen MB.
Visualizing associations between genome sequences and gene expression data using genome-mean expression profiles.
Bioinformatics. 2001 Jun; 17(Suppl 1): S49-S55.
Pubmed Bioinformatics Web Supplement PDF

Courcelle J, Khodursky A, Peter B, Brown PO, Hanawalt PC.
Comparative gene expression profiles following UV exposure in wild-type and SOS-deficient Escherichia coli.
Genetics. 2001 May; 158(1): 41-64.
Pubmed Genetics Web Supplement PDF

Li S, Ross DT, Kadin ME, Brown PO, Wasik MA.
Comparative genome-scale analysis of gene expression profiles in T cell lymphoma cells during malignant progression using a complementary DNA microarray.
Am J Pathol. 2001 Apr; 158(4): 1231-7.
Pubmed Am J Pathol
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Roberts RJ, Varmus HE, Ashburner M, Brown PO, Eisen MB, Khosla C, Kirschner M, Nusse R, Scott M, Wold B.
Information access. Building a "GenBank" of the published literature.
Science. 2001 Mar 23; 291(5512): 2318-9.
Pubmed Science
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Miki R, Kadota K, Bono H, Mizuno Y, Tomaru Y, Carninci P, Itoh M, Shibata K, Kawai J, Konno H, Watanabe S, Sato K, Tokusumi Y, Kikuchi N, Ishii Y, Hamaguchi Y, Nishizuka I, Goto H, Nitanda H, Satomi S, Yoshiki A, Kusakabe M, DeRisi JL, Eisen MB, Iyer VR, Brown PO, Muramatsu M, Shimada H, Okazaki Y, Hayashizaki Y.
Delineating developmental and metabolic pathways in vivo by expression profiling using the RIKEN set of 18,816 full-length enriched mouse cDNA arrays.
Proc Natl Acad Sci U S A. 2001 Feb 27; 98(5): 2199-2204.
Pubmed PNAS
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Carmel-Harel O, Stearman R, Gasch AP, Botstein D, Brown PO, Storz G.
Role of thioredoxin reductase in the Yap1p-dependent response to oxidative stress in Saccharomyces cerevisiae.
Mol Microbiol. 2001 Feb; 39(3): 595-605.
Pubmed Mol Microbiol Web Supplement PDF

Kuhn KM, DeRisi JL, Brown PO, Sarnow P.
Global and specific translational regulation in the genomic response of Saccharomyces cerevisiae to a rapid transfer from a fermentable to a nonfermentable carbon source.
Mol Cell Biol. 2001 Feb 1; 21(3): 916-927.
Pubmed MCB
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Iyer VR, Horak CE, Scafe CS, Botstein D, Snyder M, Brown PO.
Genomic binding sites of the yeast cell-cycle transcription factors SBF and MBF.
Nature. 2001 Jan 25; 409(6819): 533-538.
Pubmed Nature Web Supplement PDF

Haab BB, Dunham MJ, Brown PO.
Protein microarrays for highly parallel detection and quantitation of specific proteins and antibodies in complex solutions.
Genome Biol. 2001 Jan 22; 2(2): RESEARCH 0004.1-0004.13.
Pubmed PubMed Central Web Supplement PDF

Hastie T, Tibshirani R, Botstein D, Brown P.
Supervised harvesting of expression trees.
Genome Biol. 2001 Jan 10; 2(1): RESEARCH 0003.1-0003.12.
Pubmed PubMed Central
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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.
The Stanford Microarray Database.
Nucleic Acids Res. 2001 Jan 1; 29(1): 152-5.
Pubmed NAR SMD PDF

Renne R, Barry C, Dittmer D, Compitello N, Brown PO, Ganem D.
Modulation of cellular and viral gene expression by the latency-associated nuclear antigen of Kaposi's sarcoma-associated herpesvirus.
J Virol. 2001 Jan; 75(1): 458-68.
Pubmed J Virology
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Lee SE, Pellicioli A, Demeter J, Vaze MP, Gasch AP, Malkova A, Brown PO, Botstein D, Stearns T, Foiani M, Haber JE.
Arrest, adaptation, and recovery following a chromosome double-strand break in Saccharomyces cerevisiae.
Cold Spring Harb Symp Quant Biol. 2000; 65(): 303-14.
Pubmed

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Reid JL, Iyer VR, Brown PO, Struhl K.
Coordinate regulation of yeast ribosomal protein genes is associated with targeted recruitment of Esa1 histone acetylase.
Mol Cell. 2000 Dec; 6(6): 1297-1307.
Pubmed

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Ogawa N, DeRisi J, Brown PO.
New components of a system for phosphate accumulation and polyphosphate metabolism in Saccharomyces cerevisiae revealed by genomic expression analysis.
Mol Biol Cell. 2000 Dec; 11(12): 4309-4321.
Pubmed Mol Biol Cell Web Supplement PDF

Gasch AP, Spellman PT, Kao CM, Carmel-Harel O, Eisen MB, Storz G, Botstein D, Brown PO.
Genomic expression programs in the response of yeast cells to environmental changes.
Mol Biol Cell. 2000 Dec; 11(12): 4241-4257.
Pubmed Mol Biol Cell Web Supplement PDF

Khodursky AB, Peter BJ, Cozzarelli NR, Botstein D, Brown PO, Yanofsky C.
DNA microarray analysis of gene expression in response to physiological and genetic changes that affect tryptophan metabolism in Escherichia coli.
Proc Natl Acad Sci U S A. 2000 Oct 24; 97(22): 12170-5.
Pubmed PNAS Web Supplement PDF

Gross C, Kelleher M, Iyer VR, Brown PO, Winge DR.
Identification of the copper regulon in Saccharomyces cerevisiae by DNA microarrays.
J Biol Chem. 2000 Oct 13; 275(41): 32310-6.
Pubmed JBC
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Gerton JL, DeRisi J, Shroff R, Lichten M, Brown PO, Petes TD.
Inaugural article: global mapping of meiotic recombination hotspots and coldspots in the yeast Saccharomyces cerevisiae.
Proc Natl Acad Sci U S A. 2000 Oct 10; 97(21): 11383-90.
Pubmed PNAS
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Alter O, Brown PO, Botstein D.
Singular value decomposition for genome-wide expression data processing and modeling.
Proc Natl Acad Sci U S A. 2000 Aug 29; 97(18): 10101-6.
Pubmed PNAS Web Supplement PDF

Perou CM, Sorlie T, Eisen MB, van de Rijn M, Jeffrey SS, Rees CA, Pollack JR, Ross DT, Johnsen H, Akslen LA, Fluge O, Pergamenschikov A, Williams C, Zhu SX, Lonning PE, Borresen-Dale AL, Brown PO, Botstein D.
Molecular portraits of human breast tumours.
Nature. 2000 Aug 17; 406(6797): 747-52.
Pubmed Nature Web Supplement PDF

Lossos IS, Alizadeh AA, Eisen MB, Chan WC, Brown PO, Botstein D, Staudt LM, Levy R.
Ongoing immunoglobulin somatic mutation in germinal center B cell-like but not in activated B cell-like diffuse large cell lymphomas.
Proc Natl Acad Sci U S A. 2000 Aug 29; 97(18): 10209-13.
Pubmed PNAS
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Khodursky AB, Peter BJ, Schmid MB, DeRisi J, Botstein D, Brown PO, Cozzarelli NR.
Analysis of topoisomerase function in bacterial replication fork movement: use of DNA microarrays.
Proc Natl Acad Sci U S A. 2000 Aug 15; 97(17): 9419-24.
Pubmed PNAS
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Hastie T, Tibshirani R, Eisen MB, Alizadeh A, Levy R, Staudt L, Chan WC, Botstein D, Brown P.
Gene shaving' as a method for identifying distinct sets of genes with similar expression patterns.
Genome Biol. 2000 Aug 4; 1(2): RESEARCH 0003.1-0003.21.
Pubmed PubMed Central
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Zhu G, Spellman PT, Volpe T, Brown PO, Botstein D, Davis TN, Futcher B.
Two yeast forkhead genes regulate the cell cycle and pseudohyphal growth.
Nature. 2000 Jul 6; 406(6791): 90-4.
Pubmed Nature
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Lyons TJ, Gasch AP, Gaither LA, Botstein D, Brown PO, Eide DJ.
Genome-wide characterization of the Zap1p zinc-responsive regulon in yeast.
Proc Natl Acad Sci U S A. 2000 Jul 5; 97(14): 7957-62.
Pubmed PNAS
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Casagrande R, Stern P, Diehn M, Shamu C, Osario M, Zuniga M, Brown PO, Ploegh H.
Degradation of proteins from the ER of S. cerevisiae requires an intact unfolded protein response pathway.
Mol Cell. 2000 Apr; 5(4): 729-35.
Pubmed

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Staudt LM, Brown PO.
Genomic views of the immune system.
Annu Rev Immunol. 2000; 18(): 829-59. Review.
Pubmed Annu Rev Immunol
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Diehn M, Alizadeh AA, Brown PO.
Examining the living genome in health and disease with DNA microarrays.
JAMA. 2000 May 3; 283(17): 2298-9.
Pubmed

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Diehn M, Eisen MB, Botstein D, Brown PO.
Large-scale identification of secreted and membrane-associated gene products using DNA microarrays.
Nat Genet. 2000 May; 25(1): 58-62.
Pubmed Nature Genetics Web Supplement PDF

Yun CW, Ferea T, Rashford J, Ardon O, Brown PO, Botstein D, Kaplan J, Philpott CC.
Desferrioxamine-mediated iron uptake in Saccharomyces cerevisiae. Evidence for two pathways of iron uptake.
J Biol Chem. 2000 Apr 7; 275(14): 10709-15.
Pubmed JBC
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Sudarsanam P, Iyer VR, Brown PO, Winston F.
Whole-genome expression analysis of snf/swi mutants of Saccharomyces cerevisiae.
Proc Natl Acad Sci U S A. 2000 Mar 28; 97(7): 3364-9.
Pubmed PNAS
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Scherf U, Ross DT, Waltham M, Smith LH, Lee JK, Tanabe L, Kohn KW, Reinhold WC, Myers TG, Andrews DT, Scudiero DA, Eisen MB, Sausville EA, Pommier Y, Botstein D, Brown PO, Weinstein JN.
A gene expression database for the molecular pharmacology of cancer.
Nat Genet. 2000 Mar; 24(3): 236-44.
Pubmed Nature Genetics
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Ross DT, Scherf U, Eisen MB, Perou CM, Rees C, Spellman P, Iyer V, Jeffrey SS, Van de Rijn M, Waltham M, Pergamenschikov A, Lee JC, Lashkari D, Shalon D, Myers TG, Weinstein JN, Botstein D, Brown PO.
Systematic variation in gene expression patterns in human cancer cell lines.
Nat Genet. 2000 Mar; 24(3): 227-35.
Pubmed Nature Genetics Web Supplement PDF

Laurent LC, Olsen MN, Crowley RA, Savilahti H, Brown PO.
Functional characterization of the human immunodeficiency virus type 1 genome by genetic footprinting.
J Virol. 2000 Mar; 74(6): 2760-9.
Pubmed J Virology Web Supplement PDF

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 Jr, 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.
Distinct types of diffuse large B-cell lymphoma identified by gene expression profiling.
Nature. 2000 Feb 3; 403(6769): 503-11.
Pubmed Nature Web Supplement PDF

Hayward RE, Derisi JL, Alfadhli S, Kaslow DC, Brown PO, Rathod PK.
Shotgun DNA microarrays and stage-specific gene expression in Plasmodium falciparum malaria.
Mol Microbiol. 2000 Jan; 35(1): 6-14.
Pubmed

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Alizadeh A, Eisen M, Davis RE, Ma C, Sabet H, Tran T, Powell JI, Yang L, Marti GE, Moore DT, Hudson Jr. JR, Chan WC, Greiner T, Weisenburger D, Armitage JO, Lossos I, Levy R, Botstein D, Brown PO, Staudt LM.
The Lymphochip: A specialized cDNA microarray for the genomic-scale analysis of gene expression in normal and malignant lymphocytes.
Cold Spring Harbor Symposia on Quantitative Biology. 1999; 64(): 71-78.
Pubmed
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Ferea TL, Brown PO.
Observing the living genome.
Curr Opin Genet Dev. 1999 Dec; 9(6): 715-22. Review.
Pubmed

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Gerton JL, Herschlag D, Brown PO.
Stereospecificity of reactions catalyzed by HIV-1 integrase.
J Biol Chem. 1999 Nov 19; 274(47): 33480-7.
Pubmed JBC
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Johannes G, Carter MS, Eisen MB, Brown PO, Sarnow P.
Identification of eukaryotic mRNAs that are translated at reduced cap binding complex eIF4F concentrations using a cDNA microarray.
Proc Natl Acad Sci U S A. 1999 Nov 9; 96(23): 13118-23.
Pubmed PNAS
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Wilson M, DeRisi J, Kristensen HH, Imboden P, Rane S, Brown PO, Schoolnik GK.
Exploring drug-induced alterations in gene expression in Mycobacterium tuberculosis by microarray hybridization.
Proc Natl Acad Sci U S A. 1999 Oct 26; 96(22): 12833-8.
Pubmed PNAS
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Pollack JR, Perou CM, Alizadeh AA, Eisen MB, Pergamenschikov A, Williams CF, Jeffrey SS, Botstein D, Brown PO.
Genome-wide analysis of DNA copy-number changes using cDNA microarrays.
Nat Genet. 1999 Sep; 23(1): 41-6.
Pubmed Nature Genetics Web Supplement PDF

Ferea TL, Botstein D, Brown PO, Rosenzweig RF.
Systematic changes in gene expression patterns following adaptive evolution in yeast.
Proc Natl Acad Sci U S A. 1999 Aug 17; 96(17): 9721-6.
Pubmed PNAS Web Supplement PDF

Perou CM, Jeffrey SS, van de Rijn M, Rees CA, Eisen MB, Ross DT, Pergamenschikov A, Williams CF, Zhu SX, Lee JC, Lashkari D, Shalon D, Brown PO, Botstein D.
Distinctive gene expression patterns in human mammary epithelial cells and breast cancers.
Proc Natl Acad Sci U S A. 1999 Aug 3; 96(16): 9212-7.
Pubmed PNAS
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Eisen MB, Brown PO.
DNA arrays for analysis of gene expression.
Methods Enzymol. 1999; 303(): 179-205.
Pubmed

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Sutton RE, Reitsma MJ, Uchida N, Brown PO.
Transduction of human progenitor hematopoietic stem cells by human immunodeficiency virus type 1-based vectors is cell cycle dependent.
J Virol. 1999 May; 73(5): 3649-60.
Pubmed J Virology
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Yang GP, Ross DT, Kuang WW, Brown PO, Weigel RJ.
Combining SSH and cDNA microarrays for rapid identification of differentially expressed genes.
Nucleic Acids Res. 1999 Mar 15; 27(6): 1517-23.
Pubmed NAR
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Brown PO, Botstein D.
Exploring the new world of the genome with DNA microarrays.
Nat Genet. 1999 Jan; 21(1 Suppl): 33-7. Review.
Pubmed Nature Genetics
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Myers LC, Gustafsson CM, Hayashibara KC, Brown PO, Kornberg RD.
Mediator protein mutations that selectively abolish activated transcription.
Proc Natl Acad Sci U S A. 1999 Jan 5; 96(1): 67-72.
Pubmed PNAS
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Iyer VR, Eisen MB, Ross DT, Schuler G, Moore T, Lee JCF, Trent JM, Staudt LM, Hudson J Jr, Boguski MS, Lashkari D, Shalon D, Botstein D, Brown PO.
The transcriptional program in the response of human fibroblasts to serum.
Science. 1999 Jan 1; 283(5398): 83-7.
Pubmed Science Web Supplement PDF

Alizadeh A, Eisen M, Botstein D, Brown PO, Staudt LM.
Probing lymphocyte biology by genomic-scale gene expression analysis.
J Clin Immunol. 1998 Nov; 18(6): 373-9. Review.
Pubmed

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Eisen MB, Spellman PT, Brown PO, Botstein D.
Cluster analysis and display of genome-wide expression patterns.
Proc Natl Acad Sci U S A. 1998 Dec 8; 95(25): 14863-8.
Pubmed PNAS Web Supplement PDF

Spellman PT, Sherlock G, Zhang MQ, Iyer VR, Anders K, Eisen MB, Brown PO, Botstein D, Futcher B.
Comprehensive identification of cell cycle-regulated genes of the yeast Saccharomyces cerevisiae by microarray hybridization.
Mol Biol Cell. 1998 Dec; 9(12): 3273-97.
Pubmed MBC
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Lutfiyya LL, Iyer VR, DeRisi J, DeVit MJ, Brown PO, Johnston M.
Characterization of three related glucose repressors and genes they regulate in Saccharomyces cerevisiae.
Genetics. 1998 Dec; 150(4): 1377-91.
Pubmed Genetics
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Marton MJ, DeRisi JL, Bennett HA, Iyer VR, Meyer MR, Roberts CJ, Stoughton R, Burchard J, Slade D, Dai H, Bassett DE Jr, Hartwell LH, Brown PO, Friend SH.
Drug target validation and identification of secondary drug target effects using DNA microarrays.
Nat Med. 1998 Nov; 4(11): 1293-301.
Pubmed Nature Medicine
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Chu S, DeRisi J, Eisen M, Mulholland J, Botstein D, Brown PO, Herskowitz I.
The transcriptional program of sporulation in budding yeast.
Science. 1998 Oct 23; 282(5389): 699-705.
Pubmed Science Web Supplement PDF

Yeager M, Wilson-Kubalek EM, Weiner SG, Brown PO, Rein A.
Supramolecular organization of immature and mature murine leukemia virus revealed by electron cryo-microscopy: implications for retroviral assembly mechanisms.
Proc Natl Acad Sci U S A. 1998 Jun 23; 95(13): 7299-304.
Pubmed PNAS
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Sutton RE, Wu HT, Rigg R, Bohnlein E, Brown PO.
Human immunodeficiency virus type 1 vectors efficiently transduce human hematopoietic stem cells.
J Virol. 1998 Jul; 72(7): 5781-8.
Pubmed J Virology
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Heuer TS, Brown PO.
Photo-cross-linking studies suggest a model for the architecture of an active human immunodeficiency virus type 1 integrase-DNA complex.
Biochemistry. 1998 May 12; 37(19): 6667-78.
Pubmed
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Gerton JL, Ohgi S, Olsen M, DeRisi J, Brown PO.
Effects of mutations in residues near the active site of human immunodeficiency virus type 1 integrase on specific enzyme-substrate interactions.
J Virol. 1998 Jun; 72(6): 5046-55.
Pubmed J Virology
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McAllister L, Penland L, Brown PO.
Enrichment for loci identical-by-descent between pairs of mouse or human genomes by genomic mismatch scanning.
Genomics. 1998 Jan 1; 47(1): 7-11.
Pubmed Genomics
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Brown PO, Hartwell L.
Genomics and human disease--variations on variation.
Nat Genet. 1998 Feb; 18(2): 91-3.
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Lashkari DA, DeRisi JL, McCusker JH, Namath AF, Gentile C, Hwang SY, Brown PO, Davis RW.
Yeast microarrays for genome wide parallel genetic and gene expression analysis.
Proc Natl Acad Sci U S A. 1997 Nov 25; 94(24): 13057-62.
Pubmed PNAS
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Gerton JL, Brown PO.
The core domain of HIV-1 integrase recognizes key features of its DNA substrates.
J Biol Chem. 1997 Oct 10; 272(41): 25809-15.
Pubmed JBC
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DeRisi JL, Iyer VR, Brown PO.
Exploring the metabolic and genetic control of gene expression on a genomic scale.
Science. 1997 Oct 24; 278(5338): 680-6.
Pubmed Science Web Supplement PDF

Heuer TS, Brown PO.
Mapping features of HIV-1 integrase near selected sites on viral and target DNA molecules in an active enzyme-DNA complex by photo-cross-linking.
Biochemistry. 1997 Sep 2; 36(35): 10655-65.
Pubmed
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Singh IR, Crowley RA, Brown PO.
High-resolution functional mapping of a cloned gene by genetic footprinting.
Proc Natl Acad Sci U S A. 1997 Feb 18; 94(4): 1304-9.
Pubmed PNAS Web Supplement PDF

Scottoline BP, Chow S, Ellison V, Brown PO.
Disruption of the terminal base pairs of retroviral DNA during integration.
Genes Dev. 1997 Feb 1; 11(3): 371-82.
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Roe T, Chow SA, Brown PO.
3'-end processing and kinetics of 5'-end joining during retroviral integration in vivo.
J Virol. 1997 Feb; 71(2): 1334-40.
Pubmed J Virology
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Smith V, Chou KN, Lashkari D, Botstein D, Brown PO.
Functional analysis of the genes of yeast chromosome V by genetic footprinting.
Science. 1996 Dec 20; 274(5295): 2069-74.
Pubmed Science Web Supplement PDF

DeRisi J, Penland L, Brown PO, Bittner ML, Meltzer PS, Ray M, Chen Y, Su YA, Trent JM.
Use of a cDNA microarray to analyse gene expression patterns in human cancer.
Nat Genet. 1996 Dec; 14(4): 457-60.
Pubmed

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Schena M, Shalon D, Heller R, Chai A, Brown PO, Davis RW.
Parallel human genome analysis: microarray-based expression monitoring of 1000 genes.
Proc Natl Acad Sci U S A. 1996 Oct 1; 93(20): 10614-9.
Pubmed PNAS
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Shalon D, Smith SJ, Brown PO.
A DNA microarray system for analyzing complex DNA samples using two-color fluorescent probe hybridization.
Genome Res. 1996 Jul; 6(7): 639-45.
Pubmed Genome Research
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Nilsen BM, Haugan IR, Berg K, Olsen L, Brown PO, Helland DE.
Monoclonal antibodies against human immunodeficiency virus type 1 integrase: epitope mapping and differential effects on integrase activities in vitro.
J Virol. 1996 Mar; 70(3): 1580-7.
Pubmed J Virology
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Schena M, Shalon D, Davis RW, Brown PO.
Quantitative monitoring of gene expression patterns with a complementary DNA microarray.
Science. 1995 Oct 20; 270(5235): 467-70.
Pubmed Science
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Smith V, Botstein D, Brown PO.
Genetic footprinting: a genomic strategy for determining a gene's function given its sequence.
Proc Natl Acad Sci U S A. 1995 Jul 3; 92(14): 6479-83.
Pubmed PNAS
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Dupuis J, Brown PO, Siegmund D.
Statistical methods for linkage analysis of complex traits from high-resolution maps of identity by descent.
Genetics. 1995 Jun; 140(2): 843-56.
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