Works by Botstein, David

Results: 114

Ammonium Toxicity and Potassium Limitation in Yeast.

Published in:

PLoS Biology, 2006, v. 4, n. 11, p. 2012, doi. 10.1371/journal.pbio.0040351

By:

Hess, David C.;
Wenyun Lu;
Rabinowitz, Joshua D.;
Botstein, David

Publication type:

Article

Gene Expression Signature of Fibroblast Serum Response Predicts Human Cancer Progression: Similarities between Tumors and Wounds.

Published in:

PLoS Biology, 2004, v. 2, n. 2, p. 0206, doi. 10.1371/journal.pbio.0020007

By:

Chang, Howard Y.;
Sneddon, Julie B.;
Alizadeh, Ash A.;
Sood, Ruchira;
West, Rob B.;
Montgomery, Kelli;
Jen-Tsan Chi;
Van de Rijn, Matt;
Botstein, David;
Brown, Patrick O.

Publication type:

Article

Gene Expression Signature of Fibroblast Serum Response Predicts Human Cancer Progression: Similarities between Tumors and Wounds.

Published in:

PLoS Biology, 2004, v. 2, n. 1, p. 1, doi. 10.1371/journal.pbio.0020007

By:

Chang, Howard Y;
Sneddon, Julie B;
Alizadeh, Ash A;
Sood, Ruchira;
West, Rob B;
Montgomery, Kelli;
Chi, Jen-Tsan;
Rijn, Matt van de;
Botstein, David;
Brown, Patrick O

Publication type:

Article

T Cell Receptor-Independent Basal Signaling via Erk and Abl Kinases Suppresses RAG Gene Expression.

Published in:

PLoS Biology, 2003, v. 1, n. 11, p. 1, doi. 10.1371/journal.pbio.0000053

By:

Roose, Jeroen P;
Diehn, Maximilian;
Tomlinson, Michael G;
Lin, Joseph;
Alizadeh, Ash A;
Botstein, David;
Brown, Patrick O;
Weiss, Arthur

Publication type:

Article

T Cell Receptor-Independent Basal Signaling via Erk and Abl Kinases Suppresses RAG Gene Expression.

Published in:

PLoS Biology, 2003, v. 1, n. 2, p. 271, doi. 10.1371/journal.pbio.0000053

By:

Roose, Jeroen P.;
Diehn, Maximilian;
Tomlinson, Michael G.;
Lin, Joseph;
Alizadeh, Ash A.;
Botstein, David;
Brown, Patrick O.;
Weiss, Arthur

Publication type:

Article

Occurrence of a transposition from the X-chromosome long arm to the Y-chromosome short arm during human evolution.

Published in:

Nature, 1984, v. 311, n. 5982, p. 119, doi. 10.1038/311119a0

By:

Page, David C.;
Harper, Mary E.;
Love, Jamie;
Botstein, David

Publication type:

Article

Properties of hybrids between Salmonella phage P22 and coliphage λ.

Published in:

Nature, 1974, v. 251, n. 5476, p. 584, doi. 10.1038/251584a0

By:

Botstein, David;
Herskowitz, Ira

Publication type:

Article

SPECIALIZED TRANSDUCTION BY BACTERIOPHAGE P22 IN SALMONELLA TYPHIMURIUM: GENETIC AND PHYSICAL STRUCTURE OF THE TRANSDUCING GENOMES AND THE PROPHAGE ATTACHMENT SITE.

Published in:

Genetics, 1976, v. 83, n. 3, p. 433

By:

CHAN, RUSSELL K.;
BOTSTEIN, DAVID

Publication type:

Article

RECESSIVE LETHAL AMBER SUPPRESSORS IN YEAST.

Published in:

Genetics, 1975, v. 79, n. 4, p. 551

By:

BRANDRISS, MARJORIE C.;
SOLL, LARRY;
BOTSTEIN, DAVID

Publication type:

Article

INTRODUCTORY SCIENCE AND MATHEMATICS FOR THE 21ST CENTURY BIOLOGISTS.

Published in:

International Journal of Humanities & Peace, 2005, v. 21, n. 1, p. 51

By:

Bialek, William;
Botstein, David

Publication type:

Article

STANFORD SYMPOSIUM.

Published in:

1999

By:

Keeffe, Emmet B.;
Li, King C. P.;
Chan, Frandics;
So, Samule;
Barry, Christopher;
Xin Chen;
Botstein, David;
Brown, Patrick;
Razavi, Mahmood;
Sze, Daniel

Publication type:

Proceeding

Role of thioredoxin reductase in the Yap1p-dependent response to oxidative stress in Saccharomyces cerevisiae.

Published in:

Molecular Microbiology, 2001, v. 39, n. 3, p. 595, doi. 10.1046/j.1365-2958.2001.02255.x

By:

Carmel-Harel, Orna;
Stearman, Robert;
Gasch, Audrey P.;
Botstein, David;
Brown, Patrick O.;
Storz, Gisela

Publication type:

Article

Synthetic gene expression perturbation systems with rapid, tunable, single-gene specificity in yeast.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 4, p. e57, doi. 10.1093/nar/gks1313

By:

McIsaac, R. Scott;
Oakes, Benjamin L.;
Wang, Xin;
Dummit, Krysta A.;
Botstein, David;
Noyes, Marcus B.

Publication type:

Article

Fungal BLAST and Model Organism BLASTP Best Hits: new comparison resources at the Saccharomyces Genome Database (SGD).

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 1, p. d374

By:

Balakrishnan, Rama;
Christie, Karen R.;
Costanzo, Maria C.;
Dolinski, Kara;
Dwight, Selina S.;
Engel, Stacia R.;
Fisk, Dianna G.;
Hirschman, Jodi E.;
Hong, Eurie L.;
Nash, Robert;
Oughtred, Rose;
Skrzypek, Marek;
Theesfeld, Chandra L.;
Binkley, Gail;
Dong, Qing;
Lane, Christopher;
Sethuraman, Anand;
Weng, Shuai;
Botstein, David;
Cherry, J. Michael

Publication type:

Article

SOURCE: a unified genomic resource of functional annotations, ontologies, and gene expression data.

Published in:

Nucleic Acids Research, 2003, v. 31, n. 1, p. 219, doi. 10.1093/nar/gkg014

By:

Diehn, Maximilian;
Sherlock, Gavin;
Binkley, Gail;
Jin, Heng;
Matese, John C.;
Hernandez-Boussard, Tina;
Rees, Christian A.;
Cherry, J. Michael;
Botstein, David;
Brown, Patrick O.;
Alizadeh, Ash A.

Publication type:

Article

The Stanford Microarray Database: data access and quality assessment tools.

Published in:

Nucleic Acids Research, 2003, v. 31, n. 1, p. 94, doi. 10.1093/nar/gkg078

By:

Gollub, Jeremy;
Ball, Catherine A.;
Binkley, Gail;
Demeter, Janos;
Finkelstein, David B.;
Hebert, Joan M.;
Hernandez-Boussard, Tina;
Jin, Heng;
Kaloper, Miroslava;
Matese, John C.;
Schroeder, Mark;
Brown, Patrick O.;
Botstein, David;
Sherlock, Gavin

Publication type:

Article

Saccharomyces Genome Database (SGD) provides biochemical and structural information for budding yeast proteins.

Published in:

Nucleic Acids Research, 2003, v. 31, n. 1, p. 216, doi. 10.1093/nar/gkg054

By:

Weng, Shuai;
Dong, Qing;
Balakrishnan, Rama;
Christie, Karen;
Costanzo, Maria;
Dolinski, Kara;
Dwight, Selina S.;
Engel, Stacia;
Fisk, Dianna G.;
Hong, Eurie;
Issel-Tarver, Laurie;
Sethuraman, Anand;
Theesfeld, Chandra;
Andrada, Rey;
Binkley, Gail;
Lane, Christopher;
Schroeder, Mark;
Botstein, David;
Michael Cherry, J.

Publication type:

Article

Saccharomyces Genome Database (SGD) provides secondary gene annotation using the Gene Ontology (GO).

Published in:

Nucleic Acids Research, 2002, v. 30, n. 1, p. 69, doi. 10.1093/nar/30.1.69

By:

Dwight, Selina S.;
Harris, Midori A.;
Dolinski, Kara;
Ball, Catherine A.;
Binkley, Gail;
Christie, Karen R.;
Fisk, Dianna G.;
Issel-Tarver, Laurie;
Schroeder, Mark;
Sherlock, Gavin;
Sethuraman, Anand;
Weng, Shuai;
Botstein, David;
Cherry, J. Michael

Publication type:

Article

A tps1Δ persister-like state in Saccharomyces cerevisiae is regulated by MKT1.

Published in:

PLoS ONE, 2020, v. 15, n. 5, p. 1, doi. 10.1371/journal.pone.0233779

By:

Gibney, Patrick A.;
Chen, Anqi;
Schieler, Ariel;
Chen, Jonathan C.;
Xu, Yifan;
Hendrickson, David G.;
McIsaac, R. Scott;
Rabinowitz, Joshua D.;
Botstein, David

Publication type:

Article

Expanding yeast knowledge online.

Published in:

Yeast, 1998, v. 14, n. 16, p. 1453, doi. 10.1002/(SICI)1097-0061(199812)14:16<1453::AID-YEA348>3.0.CO;2-G

By:

Dolinski, Kara;
Ball, Catherine A.;
Chervitz, Stephen A.;
Dwight, Selina S.;
Harris, Midori A.;
Roberts, Shannon;
Roe, Taiyun;
Cherry, J. Michael;
Botstein, David

Publication type:

Article

Functional analysis reports. Precise gene disruption in Saccharomyces cerevisiae by double fusion polymerase chain reaction.

Published in:

Yeast, 1995, v. 11, n. 13, p. 1275, doi. 10.1002/yea.320111307

By:

Amberg, David C.;
Botstein, David;
Beasley, Ellen M.

Publication type:

Article

IV. Yeast sequencing reports. Nucleotide sequence of the SAC2 gene of Saccharomyces cerevisiae.

Published in:

Yeast, 1994, v. 10, n. 9, p. 1211, doi. 10.1002/yea.320100909

By:

Kölling, Ralf;
Lee, Angela;
Chen, Ellson Y.;
Botstein, David

Publication type:

Article

Structure of the yeast endoplasmic reticulum: Localization of ER proteins using immunofluorescence and immunoelectron microscopy.

Published in:

Yeast, 1991, v. 7, n. 9, p. 891, doi. 10.1002/yea.320070902

By:

Preuss, Daphne;
Mulholland, Jon;
Kaiser, Chris A.;
Orlean, Peter;
Albright, Charles;
Rose, Mark D.;
Robbins, Phillips W.;
Botstein, David

Publication type:

Article

Probing β-lactamase structure and function using random replacement mutagenesis.

Published in:

Proteins, 1992, v. 14, n. 1, p. 29, doi. 10.1002/prot.340140106

By:

Palzkill, Timothy;
Botstein, David

Publication type:

Article

The 15 N-terminal amino acids of hexokinase II are not required for in vivo function: Analysis of a truncated form of hexokinase II in Saccharomyces cerevisiae.

Published in:

Proteins, 1989, v. 5, n. 3, p. 218, doi. 10.1002/prot.340050305

By:

Ma, Hong;
Bloom, Leslie M.;
Dakin, Susan E.;
Walsh, Christopher T.;
Botstein, David

Publication type:

Article

Module networks: identifying regulatory modules and their condition-specific regulators from gene expression data.

Published in:

Nature Genetics, 2003, v. 34, n. 2, p. 166, doi. 10.1038/ng1165

By:

Segal, Eran;
Shapira, Michael;
Regev, Aviv;
Pe'er, Dana;
Botstein, David;
Koller, Daphne;
Friedman, Nir

Publication type:

Article

Discovering genotypes underlying human phenotypes: past successes for mendelian disease, future approaches for complex disease.

Published in:

Nature Genetics, 2003, v. 33, p. 228, doi. 10.1038/ng1090

By:

Botstein, David;
Risch, Neil

Publication type:

Article

Promoter-specific binding of Rap1 revealed by genome-wide maps of protein?DNA association.

Published in:

Nature Genetics, 2001, v. 28, n. 4, p. 327, doi. 10.1038/ng569

By:

Lieb, Jason D.;
Liu, Xiaole;
Botstein, David;
Brown, Patrick O.

Publication type:

Article

Using universal human reference RNA in microarray gene expression studies.

Published in:

2001

By:

Novoradovskaya, Natalia;
Chin, Nicki;
Payette, Terry;
Pergamenschikov, Alexander;
Fero, Michael;
Botstein, David;
Braman, Jeff

Publication type:

Abstract

From gene expression to the bedside: A high-throughput approach for identifying serum diagnostic markers and immunotherapy targets in human malignancies using DNA microarrays.

Published in:

2001

By:

Diehn, Maximilian;
Eisen, Michael B.;
Botstein, David;
Brown, Patrick O.

Publication type:

Abstract

Gene Ontology: tool for the unification of biology.

Published in:

Nature Genetics, 2000, v. 25, n. 1, p. 25, doi. 10.1038/75556

By:

Ashburner, Michael;
Ball, Catherine A.;
Blake, Judith A.;
Botstein, David;
Butler, Heather;
Cherry, J. Michael;
Davis, Allan P.;
Dolinski, Kara;
Dwight, Selina S.;
Eppig, Janan T.;
Harris, Midori A.;
Hill, David P.;
Issel-Tarver, Laurie;
Kasarskis, Andrew;
Lewis, Suzanna;
Matese, John C.;
Richardson, Joel E.;
Ringwald, Martin;
Rubin, Gerald M.

Publication type:

Article

Large-scale identification of secreted and membrane-associated gene products using DNA microarrays.

Published in:

Nature Genetics, 2000, v. 25, n. 1, p. 58, doi. 10.1038/75603

By:

Diehn, Maximilian;
Eisen, Michael B.;
Botstein, David;
Brown, Patrick O.

Publication type:

Article

Systematic variation in gene expression patterns in human cancer cell lines.

Published in:

Nature Genetics, 2000, v. 24, n. 3, p. 227, doi. 10.1038/73432

By:

Ross, Douglas T.;
Scherf, Uwe;
Eisen, Michael B.;
Perou, Charles M.;
Rees, Christian;
Spellman, Paul;
Iyer, Vishwanath;
Jeffrey, Stefanie S.;
Van de Rijn, Matt;
Waltham, Mark;
Pergamenschikov, Alexander;
Lee, Jeffrey C.F.;
Lashkari, Deval;
Shalon, Dari;
Myers, Timothy G.;
Weinstein, John N.;
Botstein, David;
Brown, Patrick O.

Publication type:

Article

A gene expression database for the molecular pharmacology of cancer.

Published in:

Nature Genetics, 2000, v. 24, n. 3, p. 236, doi. 10.1038/73439

By:

Scherf, Uwe;
Ross, Douglas T.;
Waltham, Mark;
Smith, Lawrence H.;
Lee, Jae K.;
Tanabe, Lorraine;
Kohn, Kurt W.;
Reinhold, William C.;
Myers, Timothy G.;
Andrews, Darren T.;
Scudiero, Dominic A.;
Eisen, Michael B.;
Sausville, Edward A.;
Pommier, Yves;
Botstein, David;
Brown, Patrick O.;
Weinstein, John N.

Publication type:

Article

Analysis of gene expression in normal and malignant lymphocytes using the Lymphochip cDNA microarray.

Published in:

1999

By:

Alizadeh, Ash;
Eisen, Michael B.;
Davis, R. Eric;
Powell, John I.;
Yang, Liming;
Hart, Robin R.;
Sabet, Hajeer;
Tran, Truc H.;
Yu, Xin;
Ma, Chi;
Chan, Wing C.;
Greiner, Timothy C.;
Weisenburger, Dennis D.;
Armitage, James O.;
Lossos, Izidore;
Levy, Ron;
Botstein, David;
Staudt, Louis M.;
Brown, Patrick O.

Publication type:

Abstract

Genome-wide maps of DNA-protein interactions using a yeast ORF and intergenic microarray.

Published in:

1999

By:

Iyer, Vishwanath R.;
Horak, Christine;
Kuras, Laurent;
Kosa, Peter;
Scafe, Charles;
Botstein, David;
Struhl, Kevin;
Snyder, Michael;
Brown, Patrick O.

Publication type:

Abstract

Genome-wide analysis of DNA copy number variation in breast cancer using DNA microarrays.

Published in:

1999

By:

Pollack, Jonathan R.;
Perou, Charles M.;
Sorlie, Therese;
Alizadeh, Ash A.;
Rees, Christian;
Eise, Michael B.;
Pergamenschikov, Alexander;
Williams, Cheryl F.;
van de Rijn, Matt;
Jeffrey, Stefanie S.;
Johnsen, Hilde;
Lonning, Per E.;
Geisler, Stephanie;
Aas, Turid;
Borresen-Dale, Anne-Lise;
Botstein, David;
Brown, Patrick O.

Publication type:

Abstract

Functional clustering of genes using microarray gene expression data.

Published in:

1999

By:

Spellman, Paul;
Gasch, Audrey;
Eisen, Michael;
Kao, Camilla;
Brown, Patrick;
Botstein, David

Publication type:

Abstract

Genome-wide analysis of DNA copy-number changes using cDNA microarrays.

Published in:

Nature Genetics, 1999, v. 23, n. 1, p. 41, doi. 10.1038/12640

By:

Pollack, Jonathan R.;
Perou, Charles M.;
Alizadeh, Ash A.;
Eisen, Michael B.;
Pergamenschikov, Alexander;
Williams, Cheryl F.;
Jeffrey, Stefanie S.;
Botstein, David;
Brown, Patrick O.

Publication type:

Article

Exploring the new world of the genome with DNA microarrays.

Published in:

Nature Genetics, 1999, v. 21, p. 33, doi. 10.1038/4462

By:

Brown, Patrick O.;
Botstein, David

Publication type:

Article

Comprehensive curation and analysis of global interaction networks in Saccharomyces cerevisiae.

Published in:

Journal of Biology, 2006, v. 5, p. 1

By:

Reguly, Teresa;
Breitkreutz, Ashton;
Boucher, Lorrie;
Breitkreutz, Bobby-Joe;
Hon, Gary C.;
Myers, Chad L.;
Parsons, Ainslie;
Friesen, Helena;
Oughtred, Rose;
Tong, Amy;
Stark, Chris;
Yuen Ho;
Botstein, David;
Andrews, Brenda;
Boone, Charles;
Troyanskya, Olga G.;
Ideker, Trey;
Dolinski, Kara;
Batada, Nizar N.;
Tyers, Mike

Publication type:

Article

The Repertoire and Dynamics of Evolutionary Adaptations to Controlled Nutrient-Limited Environments in Yeast.

Published in:

PLoS Genetics, 2008, v. 4, n. 12, p. 1, doi. 10.1371/journal.pgen.1000303

By:

Gresham, David;
Desai, Michael M.;
Tucker, Cheryl M.;
Jenq, Harry T.;
Pai, Dave A.;
Ward, Alexandra;
DeSevo, Christopher G.;
Botstein, David;
Dunham, Maitreya J.

Publication type:

Article

Genome-Scale Identification of Membrane-Associated Human mRNAs.

Published in:

PLoS Genetics, 2006, v. 2, n. 1, p. e11, doi. 10.1371/journal.pgen.0020011

By:

Diehn, Maximilian;
Bhattacharya, Ramona;
Botstein, David;
Brown, Patrick O.;
Gibson, Greg

Publication type:

Article

GO::TermFinder—open source software for accessing Gene Ontology information and finding significantly enriched Gene Ontology terms associated with a list of genes.

Published in:

Bioinformatics, 2004, v. 20, n. 18, p. 3710, doi. 10.1093/bioinformatics/bth456

By:

Boyle, Elizabeth I.;
Weng, Shuai;
Gollub, Jeremy;
Jin, Heng;
Botstein, David;
Cherry, J. Michael;
Sherlock, Gavin

Publication type:

Article

Nonparametric methods for identifying differentially expressed genes in microarray data.

Published in:

Bioinformatics, 2002, v. 18, n. 11, p. 1454, doi. 10.1093/bioinformatics/18.11.1454

By:

Troyanskaya, Olga G.;
Garber, Mitchell E.;
Brown, Patrick O.;
Botstein, David;
Altman, Russ B.

Publication type:

Article

Missing value estimation methods for DNA microarrays.

Published in:

Bioinformatics, 2001, v. 17, n. 6, p. 520, doi. 10.1093/bioinformatics/17.6.520

By:

Troyanskaya, Olga;
Cantor, Michael;
Sherlock, Gavin;
Brown, Pat;
Hastie, Trevor;
Tibshirani, Robert;
Botstein, David;
Altman, Russ B.

Publication type:

Article

Back to the future: education for systems-level biologists.

Published in:

Nature Reviews Molecular Cell Biology, 2006, v. 7, n. 11, p. 829, doi. 10.1038/nrm2023

By:

Wingreen, Ned;
Botstein, David

Publication type:

Article

Fully phased sequence of a diploid human genome determined de novo from the DNA of a single individual.

Published in:

G3: Genes | Genomes | Genetics, 2020, v. 10, n. 9, p. 1, doi. 10.1534/g3.119.400995

By:

Soifer, Ilya;
Fong, Nicole L.;
Yi, Nelda;
Ireland, Andrea T.;
Lam, Irene;
Sooknah, Matthew;
Paw, Jonathan S.;
Peluso, Paul;
Concepcion, Gregory T.;
Rank, David;
Hastie, Alex R.;
Jojic, Vladimir;
Graham Ruby, J.;
Botstein, David;
Roy, Margaret A.

Publication type:

Article

Saccharomyces cerevisiae S288C genome annotation: a working hypothesis.

Published in:

Yeast, 2006, v. 23, n. 12, p. 857, doi. 10.1002/yea.1400

By:

Fisk, Dianna G.;
Ball, Catherine A.;
Dolinski, Kara;
Engel, Stacia R.;
Hong, Eurie L.;
Issel-Tarver, Laurie;
Schwartz, Katja;
Sethuraman, Anand;
Botstein, David;
Michael Cherry, J.

Publication type:

Article

Genetic variation in the human urea transporter-2 is associated with variation in blood pressure.

Published in:

Human Molecular Genetics, 2001, v. 10, n. 19, p. 2157, doi. 10.1093/hmg/10.19.2157

By:

Ranade, Koustubh;
Wu, Kwan-Dun;
Hwu, Chii-Min;
Ting, Chih-Tai;
Pei, Dee;
Pesich, Robert;
Hebert, Joan;
Chen, Yii-Der I.;
Pratt, Richard;
Olshen, Richard;
Masaki, Kamal;
Risch, Neil;
Cox, David R.;
Botstein, David

Publication type:

Article