Works by Botstein, David

Results: 114

Learning the Language of Systems Biology.

Published in:

Bio-IT World, 2003, v. 2, n. 12, p. 22

By:

Botstein, David

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

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

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

A method for detecting and correcting feature misidentification on expression microarrays.

Published in:

BMC Genomics, 2004, v. 5, p. 64, doi. 10.1186/1471-2164-5-64

By:

I-Ping Tu;
Schaner, Marci;
Diehn, Maximilian;
Sikic, Branimir I.;
Brown, Patrick O.;
Botstein, David;
Fero, Michael J.

Publication type:

Article

Universal Reference RNA as a standard for microarray experiments.

Published in:

BMC Genomics, 2004, v. 5, p. 20, doi. 10.1186/1471-2164-5-20

By:

Novoradovskaya, Natalia;
Whitfield, Michael L.;
Basehore, Lee S.;
Novoradovsky, Alexey;
Pesich, Robert;
Usary, Jerry;
Karaca, Mehmet;
Wong, Winston K.;
Aprelikova, Olga;
Fero, Michael;
Perou, Charles M.;
Botstein, David;
Braman, Jeff

Publication type:

Article

A THEORY OF MODULAR EVOLUTION FOR BACTERIOPHAGES*.

Published in:

Annals of the New York Academy of Sciences, 1980, v. 354, n. 1, p. 484, doi. 10.1111/j.1749-6632.1980.tb27987.x

By:

Botstein, David

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

Novel insights from a multiomics dissection of the Hayflick limit.

Published in:

eLife, 2022, p. 1, doi. 10.7554/eLife.70283

By:

Chan, Michelle;
Han Yuan;
Soifer, Ilya;
Maile, Tobias M.;
Wang, Rebecca Y.;
Ireland, Andrea;
O'Brien, Jonathon J.;
Goudeau, Jérôme;
Chan, Leanne J. G.;
Vijay, Twaritha;
Freund, Adam;
Kenyon, Cynthia;
Bennett, Bryson D.;
McAllister, Fiona E.;
Kelley, David R.;
Roy, Margaret;
Cohen, Robert L.;
Levinson, Arthur D.;
Botstein, David;
Hendrickson, David G.

Publication type:

Article

Novel insights from a multiomics dissection of the Hayflick limit.

Published in:

eLife, 2022, p. 1, doi. 10.7554/eLife.70283

By:

Chan, Michelle;
Han Yuan;
Soifer, Ilya;
Maile, Tobias M.;
Wang, Rebecca Y.;
Ireland, Andrea;
O'Brien, Jonathon J.;
Goudeau, Jérôme;
Chan, Leanne J. G.;
Vijay, Twaritha;
Freund, Adam;
Kenyon, Cynthia;
Bennett, Bryson D.;
McAllister, Fiona E.;
Kelley, David R.;
Roy, Margaret;
Cohen, Robert L.;
Levinson, Arthur D.;
Botstein, David;
Hendrickson, David G.

Publication type:

Article

A Test of the Coordinated Expression Hypothesis for the Origin and Maintenance of the GAL Cluster in Yeast.

Published in:

PLoS ONE, 2011, v. 6, n. 9, p. 1, doi. 10.1371/journal.pone.0025290

By:

Lang, Gregory I.;
Botstein, David

Publication type:

Article

A genome‐scale yeast library with inducible expression of individual genes.

Published in:

Molecular Systems Biology, 2021, v. 17, n. 6, p. 1, doi. 10.15252/msb.202110207

By:

Arita, Yuko;
Kim, Griffin;
Li, Zhijian;
Friesen, Helena;
Turco, Gina;
Wang, Rebecca Y;
Climie, Dale;
Usaj, Matej;
Hotz, Manuel;
Stoops, Emily H;
Baryshnikova, Anastasia;
Boone, Charles;
Botstein, David;
Andrews, Brenda J;
McIsaac, R Scott

Publication type:

Article

Perspective: Linkage Maps, Communities of Geneticists, and Genome Databases.

Published in:

Genetics, 2020, v. 216, n. 2, p. 261, doi. 10.1534/genetics.120.303647

By:

Botstein, David

Publication type:

Article

Analysis of Polygenic Mutants Suggests a Role for Mediator in Regulating Transcriptional Activation Distance in Saccharomyces cerevisiae.

Published in:

Genetics, 2015, v. 201, n. 2, p. 599, doi. 10.1534/genetics.115.181164

By:

Reavey, Caitlin T.;
Hickman, Mark J.;
Dobi, Krista C.;
Botstein, David;
Winston, Fred

Publication type:

Article

Yeast: An Experimental Organism for 21st Century Biology.

Published in:

Genetics, 2011, v. 189, n. 3, p. 695, doi. 10.1534/genetics.111.130765

By:

Botstein, David;
Fink, Gerald R.

Publication type:

Article

Genetic Variation and the Fate of Beneficial Mutations in Asexual Populations.

Published in:

Genetics, 2011, v. 188, n. 3, p. 647, doi. 10.1534/genetics.111.128942

By:

Lang, Gregory I.;
Botstein, David;
Desai, Michael M.

Publication type:

Article

System-Level Analysis of Genes and Functions Affecting Survival During Nutrient Starvation in Saccharomyces cerevisiae.

Published in:

Genetics, 2011, v. 187, n. 1, p. 299, doi. 10.1534/genetics.110.120766

By:

Gresham, David;
Boer, Viktor M.;
Caudy, Amy;
Ziv, Naomi;
Brandt, Nathan J.;
Storey, John D.;
Botstein, David

Publication type:

Article

Accumulation of Recessive Lethal Mutations in Saccharomyces cerevisiae mIh1 Mismatch Repair Mutants Is Not Associated With Gross Chromosomal Rearrangements.

Published in:

Genetics, 2006, v. 174, n. 1, p. 519, doi. 10.1534/genetics.106.059311

By:

Akiko Heck, Julie;
Gresham, David;
Botstein, David;
Alani, Eric

Publication type:

Article

Anecdotal, Historical and Critical Commentaries on Genetics.

Published in:

2004

By:

Botstein, David;
Crow, James F.;
Dove, William F.

Publication type:

Obituary

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

A molecular barcoded yeast ORF library enables mode-of-action analysis of bioactive compounds.

Published in:

Nature Biotechnology, 2009, v. 27, n. 4, p. 369, doi. 10.1038/nbt.1534

By:

Ho, Cheuk Hei;
Magtanong, Leslie;
Barker, Sarah L;
Gresham, David;
Nishimura, Shinichi;
Natarajan, Paramasivam;
Koh, Judice L Y;
Porter, Justin;
Gray, Christopher A;
Andersen, Raymond J;
Giaever, Guri;
Nislow, Corey;
Andrews, Brenda;
Botstein, David;
Graham, Todd R;
Yoshida, Minoru;
Boone, Charles

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

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

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

Genomic amplification of a decoy receptor for Fas ligand in lung and colon cancer.

Published in:

Nature, 1998, v. 396, n. 6712, p. 699, doi. 10.1038/25387

By:

Pitti, Robert M.;
Marsters, Scot A.;
Lawrence, David A.;
Roy, Margaret;
Kischkel, Frank C.;
Dowd, Patrick;
Huang, Arthur;
Donahue, Christopher J.;
Sherwood, Steven W.;
Baldwin, Daryl T.;
Godowski, Paul J.;
Wood, William I.;
Gurney, Austin L.;
Hillan, Kenneth J.;
Cohen, Robert L.;
Goddard, Audrey D.;
Botstein, David;
Ashkenazi, Avi

Publication type:

Article

Comparing whole genomes using DNA microarrays.

Published in:

2008

By:

Gresham, David;
Dunham, Maitreya J.;
Botstein, David

Publication type:

journal article