Please enable Javascript

Labmeeting uses lots of Javascript - basically you can't use the site without it. So please enable Javascript in your browser. If your browser does not support Javascript, we recommend Firefox.

Papers authored by Gerstein M

Collect these papers and discover other ones on Labmeeting. Learn more.

Artificial Transmembrane Oncoproteins Smaller than the Bovine Papillomavirus E5 Protein Redefine Sequence Requirements for Activation of the Platelet-Derived Growth Factor {beta} Receptor.

+ cite this

+ View Abstract

Talbert-Slagle K, Marlatt S, Barrera FN, Khurana E, Oates J, Gerstein M, Engelman DM, Dixon AM, and Dimaio D

Journal of virology 83(19):9773-85, 2009 Oct - Who cited this? | PubMed ID: 19605488 | Fulltext

Bayesian Modeling of the Yeast SH3 Domain Interactome Predicts Spatiotemporal Dynamics of Endocytosis Proteins.

+ cite this

+ View Abstract

Tonikian R, Xin X, Toret CP, Gfeller D, Landgraf C, Panni S, Paoluzi S, Castagnoli L, Currell B, Seshagiri S, Yu H, Winsor B, Vidal M, Gerstein MB, Bader GD, Volkmer R,

(show remaining authors)

PLoS biology 7(10):e1000218, 2009 Oct - Who cited this? | PubMed ID: 19841731 | Fulltext

Mapping accessible chromatin regions using Sono-Seq.

+ cite this

+ View Abstract

Auerbach RK, Euskirchen G, Rozowsky J, Lamarre-Vincent N, Moqtaderi Z, Lefrançois P, Struhl K, Gerstein M, and Snyder M

Proceedings of the National Academy of Sciences of the United States of America 106(35):14926-31, 2009 Sep 1 - Who cited this? | PubMed ID: 19706456 | Fulltext

N-myc downstream regulated gene 1 (NDRG1) is fused to ERG in prostate cancer.

+ cite this

+ View Abstract

Pflueger D, Rickman DS, Sboner A, Perner S, LaFargue CJ, Svensson MA, Moss BJ, Kitabayashi N, Pan Y, de la Taille A, Kuefer R, Tewari AK, Demichelis F, Chee MS, Gerstein MB, and Rubin MA

Neoplasia (New York, N.Y.) 11(8):804-11, 2009 Aug - Who cited this? | PubMed ID: 19649210 | Fulltext

The genetic architecture of Down syndrome phenotypes revealed by high-resolution analysis of human segmental trisomies.

+ cite this

+ View Abstract

Korbel JO, Tirosh-Wagner T, Urban AE, Chen XN, Kasowski M, Dai L, Grubert F, Erdman C, Gao MC, Lange K, Sobel EM, Barlow GM, Aylsworth AS, Carpenter NJ, Clark RD, Cohen MY,

(show remaining authors)

Proceedings of the National Academy of Sciences of the United States of America 106(29):12031-6, 2009 Jul 21 - Who cited this? | PubMed ID: 19597142 | Fulltext

Integrating sequencing technologies in personal genomics: optimal low cost reconstruction of structural variants.

+ cite this

+ View Abstract

Du J, Bjornson RD, Zhang ZD, Kong Y, Snyder M, and Gerstein MB

PLoS computational biology 5(7):e1000432, 2009 Jul - Who cited this? | PubMed ID: 19593373 | Fulltext

Small RNAs Originated from Pseudogenes: cis- or trans-Acting?.

+ cite this

+ View Abstract

Guo X, Zhang Z, Gerstein MB, and Zheng D

PLoS computational biology 5(7):e1000449, 2009 Jul - Who cited this? | PubMed ID: 19649160 | Fulltext

Getting started in text mining: part two.

+ cite this

Rzhetsky A, Seringhaus M, and Gerstein MB

PLoS computational biology 5(7):e1000411, 2009 Jul - Who cited this? | PubMed ID: 19649304 | Fulltext

Unlocking the secrets of the genome.

+ cite this

Celniker SE, Dillon LA, Gerstein MB, Gunsalus KC, Henikoff S, Karpen GH, Kellis M, Lai EC, Lieb JD, MacAlpine DM, Micklem G, Piano F, Snyder M, Stein L, White KP, Waterston RH,

(show remaining authors)

Nature 459(7249):927-30, 2009 Jun 18 - Who cited this? | PubMed ID: 19536255 | Fulltext

Dynamic and complex transcription factor binding during an inducible response in yeast.

+ cite this

+ View Abstract

Ni L, Bruce C, Hart C, Leigh-Bell J, Gelperin D, Umansky L, Gerstein MB, and Snyder M

Genes & development 23(11):1351-63, 2009 Jun 1 - Who cited this? | PubMed ID: 19487574 | Fulltext

Relating protein conformational changes to packing efficiency and disorder.

+ cite this

+ View Abstract

Bhardwaj N and Gerstein M

Protein science : a publication of the Protein Society 18(6):1230-40, 2009 Jun - Who cited this? | PubMed ID: 19472340 | Fulltext

Integrated assessment of genomic correlates of protein evolutionary rate.

+ cite this

+ View Abstract

Xia Y, Franzosa EA, and Gerstein MB

PLoS computational biology 5(6):e1000413, 2009 Jun - Who cited this? | PubMed ID: 19521505 | Fulltext

Distinct genomic aberrations associated with ERG rearranged prostate cancer.

+ cite this

+ View Abstract

Demichelis F, Setlur SR, Beroukhim R, Perner S, Korbel JO, Lafargue CJ, Pflueger D, Pina C, Hofer MD, Sboner A, Svensson MA, Rickman DS, Urban A, Snyder M, Meyerson M, Lee C,

(show remaining authors)

Genes, chromosomes & cancer 48(4):366-80, 2009 Apr - Who cited this? | PubMed ID: 19156837 | Fulltext

A myelopoiesis-associated regulatory intergenic noncoding RNA transcript within the human HOXA cluster.

+ cite this

+ View Abstract

Zhang X, Lian Z, Padden C, Gerstein MB, Rozowsky J, Snyder M, Gingeras TR, Kapranov P, Weissman SM, and Newburger PE

Blood 113(11):2526-34, 2009 Mar 12 - Who cited this? | PubMed ID: 19144990 | Fulltext

Zebrafish miR-1 and miR-133 shape muscle gene expression and regulate sarcomeric actin organization.

+ cite this

+ View Abstract

Mishima Y, Abreu-Goodger C, Staton AA, Stahlhut C, Shou C, Cheng C, Gerstein M, Enright AJ, and Giraldez AJ

Genes & development 23(5):619-32, 2009 Mar 1 - Who cited this? | PubMed ID: 19240126 | Fulltext

Quantifying environmental adaptation of metabolic pathways in metagenomics.

+ cite this

+ View Abstract

Gianoulis TA, Raes J, Patel PV, Bjornson R, Korbel JO, Letunic I, Yamada T, Paccanaro A, Jensen LJ, Snyder M, Bork P, and Gerstein MB

Proceedings of the National Academy of Sciences of the United States of America 106(5):1374-9, 2009 Feb 3 - Who cited this? | PubMed ID: 19164758 | Fulltext

StoneHinge: hinge prediction by network analysis of individual protein structures.

+ cite this

+ View Abstract

Keating KS, Flores SC, Gerstein MB, and Kuhn LA

Protein science : a publication of the Protein Society 18(2):359-71, 2009 Feb - Who cited this? | PubMed ID: 19180449 | Fulltext

Training set expansion: an approach to improving the reconstruction of biological networks from limited and uneven reliable interactions.

+ cite this

+ View Abstract

Yip KY and Gerstein M

Bioinformatics (Oxford, England) 25(2):243-50, 2009 Jan 15 - Who cited this? | PubMed ID: 19015141 | Fulltext

Pseudofam: the pseudogene families database.

+ cite this

+ View Abstract

Lam HY, Khurana E, Fang G, Cayting P, Carriero N, Cheung KH, and Gerstein MB

Nucleic acids research 37(Database issue):D738-43, 2009 Jan - Who cited this? | PubMed ID: 18957444 | Fulltext

PeakSeq enables systematic scoring of ChIP-seq experiments relative to controls.

+ cite this

+ View Abstract

Rozowsky J, Euskirchen G, Auerbach RK, Zhang ZD, Gibson T, Bjornson R, Carriero N, Snyder M, and Gerstein MB

Nature biotechnology 27(1):66-75, 2009 Jan - Who cited this? | PubMed ID: 19122651 | Fulltext

MAPK target networks in Arabidopsis thaliana revealed using functional protein microarrays.

+ cite this

+ View Abstract

Popescu SC, Popescu GV, Bachan S, Zhang Z, Gerstein M, Snyder M, and Dinesh-Kumar SP

Genes & development 23(1):80-92, 2009 Jan 1 - Who cited this? | PubMed ID: 19095804 | Fulltext

Efficient yeast ChIP-Seq using multiplex short-read DNA sequencing.

+ cite this

+ View Abstract

Lefrançois P, Euskirchen GM, Auerbach RK, Rozowsky J, Gibson T, Yellman CM, Gerstein M, and Snyder M

BMC genomics 10:37, 2009 - Who cited this? | PubMed ID: 19159457 | Fulltext

Personal phenotypes to go with personal genomes.

+ cite this

Snyder M, Weissman S, and Gerstein M

Molecular systems biology 5:273, 2009 - Who cited this? | PubMed ID: 19455137 | Fulltext

Systematic identification of transcription factors associated with patient survival in cancers.

+ cite this

+ View Abstract

Cheng C, Li LM, Alves P, and Gerstein M

BMC genomics 10:225, 2009 - Who cited this? | PubMed ID: 19442316 | Fulltext

Comparative analysis of processed ribosomal protein pseudogenes in four mammalian genomes.

+ cite this

+ View Abstract

Balasubramanian S, Zheng D, Liu YJ, Fang G, Frankish A, Carriero N, Robilotto R, Cayting P, and Gerstein M

Genome biology 10(1):R2, 2009 - Who cited this? | PubMed ID: 19123937 | Fulltext

Understanding modularity in molecular networks requires dynamics.

+ cite this

+ View Abstract

Alexander RP, Kim PM, Emonet T, and Gerstein MB

Science signaling 2(81):pe44, 2009 - Who cited this? | PubMed ID: 19638611 | Fulltext

Multi-level learning: improving the prediction of protein, domain and residue interactions by allowing information flow between levels.

+ cite this

+ View Abstract

Yip KY, Kim PM, McDermott D, and Gerstein M

BMC bioinformatics 10:241, 2009 - Who cited this? | PubMed ID: 19656385 | Fulltext

The relationship between the evolution of microRNA targets and the length of their UTRs.

+ cite this

+ View Abstract

Cheng C, Bhardwaj N, and Gerstein M

BMC genomics 10:431, 2009 - Who cited this? | PubMed ID: 19751524 | Fulltext

An approach to comparing tiling array and high throughput sequencing technologies for genomic transcript mapping.

+ cite this

+ View Abstract

Sasidharan R, Agarwal A, Rozowsky J, and Gerstein M

BMC research notes 2:150, 2009 - Who cited this? | PubMed ID: 19630981 | Fulltext

An approach to compare genome tiling microarray and MPSS sequencing data for transcript mapping.

+ cite this

+ View Abstract

Sasidharan R, Agarwal A, Rozowsky J, and Gerstein M

BMC research notes 2:211, 2009 - Who cited this? | PubMed ID: 19845943 | Fulltext

mRNA expression profiles show differential regulatory effects of microRNAs between estrogen receptor-positive and estrogen receptor-negative breast cancer.

+ cite this

+ View Abstract

Cheng C, Fu X, Alves P, and Gerstein M

Genome biology 10(9):R90, 2009 - Who cited this? | PubMed ID: 19723326 | Fulltext

Comprehensive analysis of the pseudogenes of glycolytic enzymes in vertebrates: the anomalously high number of GAPDH pseudogenes highlights a recent burst of retrotrans-positional activity.

+ cite this

+ View Abstract

Liu YJ, Zheng D, Balasubramanian S, Carriero N, Khurana E, Robilotto R, and Gerstein MB

BMC genomics 10:480, 2009 - Who cited this? | PubMed ID: 19835609 | Fulltext

MSB: A mean-shift-based approach for the analysis of structural variation in the genome.

+ cite this

+ View Abstract

Wang LY, Abyzov A, Korbel JO, Snyder M, and Gerstein M

Genome research, 2008 Nov 26 - Who cited this? | PubMed ID: 19037015 | Fulltext

RNA-Seq: a revolutionary tool for transcriptomics.

+ cite this

+ View Abstract

Wang Z, Gerstein M, and Snyder M

Nature reviews. Genetics, 2008 Nov 18 - Who cited this? | PubMed ID: 19015660 | Fulltext

Defining the TRiC/CCT interactome links chaperonin function to stabilization of newly made proteins with complex topologies.

+ cite this

+ View Abstract

Yam AY, Xia Y, Lin HT, Burlingame A, Gerstein M, and Frydman J

Nature structural & molecular biology, 2008 Nov 16 - Who cited this? | PubMed ID: 19011634 | Fulltext

High-resolution copy-number variation map reflects human olfactory receptor diversity and evolution.

+ cite this

+ View Abstract

Hasin Y, Olender T, Khen M, Gonzaga-Jauregui C, Kim PM, Urban AE, Snyder M, Gerstein MB, Lancet D, and Korbel JO

PLoS genetics 4(11):e1000249, 2008 Nov - Who cited this? | PubMed ID: 18989455 | Fulltext

Analysis of copy number variants and segmental duplications in the human genome: Evidence for a change in the process of formation in recent evolutionary history.

+ cite this

+ View Abstract

Kim PM, Lam HY, Urban AE, Korbel JO, Chen X, Snyder M, and Gerstein MB

Genome research, 2008 Oct 8 - Who cited this? | PubMed ID: 18842824 | Fulltext

Genomic anonymity: have we already lost it?.

+ cite this

Greenbaum D, Du J, and Gerstein M

The American journal of bioethics : AJOB 8(10):71-4, 2008 Oct - Who cited this? | PubMed ID: 19003717 | Fulltext

Association of cytokeratin 7 and 19 expression with genomic stability and favorable prognosis in clear cell renal cell cancer.

+ cite this

+ View Abstract

Mertz KD, Demichelis F, Sboner A, Hirsch MS, Cin PD, Struckmann K, Storz M, Scherrer S, Schmid DM, Strebel RT, Probst-Hensch NM, Gerstein M, Moch H, and Rubin MA

International journal of cancer. Journal international du cancer 123(3):569-76, 2008 Aug 1 - Who cited this? | PubMed ID: 18478571 | Fulltext

Seeking a New Biology through Text Mining.

+ cite this

+ View Abstract

Rzhetsky A, Seringhaus M, and Gerstein M

Cell 134(1):9, 2008 Jul 11 - Who cited this? | PubMed ID: 18614002 | Fulltext

Genomics: protein fossils live on as RNA.

+ cite this

Sasidharan R and Gerstein M

Nature 453(7196):729, 2008 Jun 5 - Who cited this? | PubMed ID: 18528383 | Fulltext

The current excitement about copy-number variation: how it relates to gene duplications and protein families.

+ cite this

+ View Abstract

Korbel JO, Kim PM, Chen X, Urban AE, Weissman S, Snyder M, and Gerstein MB

Current opinion in structural biology 18(3):366, 2008 Jun - Who cited this? | PubMed ID: 18511261 | Fulltext

Targeting the human cancer pathway protein interaction network by structural genomics.

+ cite this

+ View Abstract

Huang YJ, Hang D, Lu LJ, Tong L, Gerstein MB, and Montelione GT

Molecular & cellular proteomics : MCP, 2008 May 18 - Who cited this? | PubMed ID: 18487680 | Fulltext

A Genomics Analysis of RNA polymerase II modification and chromatin architecture related to 3' end RNA polyadenylation.

+ cite this

+ View Abstract

Lian Z, Karpikov A, Lian J, Mahajan MC, Hartman S, Gerstein M, Snyder M, and Weissman SM

Genome research, 2008 May 16 - Who cited this? | PubMed ID: 18487515 | Fulltext

The Transcriptional Landscape of the Yeast Genome Defined by RNA Sequencing.

+ cite this

+ View Abstract

Nagalakshmi U, Wang Z, Waern K, Shou C, Raha D, Gerstein M, and Snyder M

Science (New York, N.Y.), 2008 May 1 - Who cited this? | PubMed ID: 18451266 | Fulltext

Rapid evolution by positive darwinian selection in T-cell antigen CD4 in primates.

+ cite this

+ View Abstract

Zhang ZD, Weinstock G, and Gerstein M

Journal of molecular evolution 66(5):446-56, 2008 May - Who cited this? | PubMed ID: 18414925 | Fulltext

HingeMaster: Normal mode hinge prediction approach and integration of complementary predictors.

+ cite this

+ View Abstract

Flores SC, Keating KS, Painter J, Morcos F, Nguyen K, Merritt EA, Kuhn LA, and Gerstein MB

Proteins, 2008 Apr 23 - Who cited this? | PubMed ID: 18433058 | Fulltext

Manually structured digital abstracts: a scaffold for automatic text mining.

+ cite this

Seringhaus M and Gerstein M

FEBS letters 582(8):1170, 2008 Apr 9 - Who cited this? | PubMed ID: 18328823 | Fulltext

Systematic evaluation of variability in ChIP-chip experiments using predefined DNA targets.

+ cite this

+ View Abstract

Johnson DS, Li W, Gordon DB, Bhattacharjee A, Curry B, Ghosh J, Brizuela L, Carroll JS, Brown M, Flicek P, Koch CM, Dunham I, Bieda M, Xu X, Farnham PJ, Kapranov P,

(show remaining authors)

Genome research 18(3):393, 2008 Mar - Who cited this? | PubMed ID: 18258921 | Fulltext

Open access: taking full advantage of the content.

+ cite this

Bourne PE, Fink JL, and Gerstein M

PLoS computational biology 4(3), 2008 Mar - Who cited this? | PubMed ID: 18369428 | Fulltext

Search Google Scholar for Gerstein M

Join Labmeeting

Organize and search your PDF collection
Collect papers
Search millions of papers
Keep up to date with paper alerts
Read your papers from anywhere
Recommend papers to colleagues
Manage your lab

Labmeeting is a web service for researchers. Sign up with your academic email address.

Individuals or corporations not affiliated with an academic institution can request a trial subscription.

Got a question?
The Labmeeting Network
has the answer.
Ask scientists at top universities like Harvard, Stanford, and MIT for their expert opinion!