Itay Tirosh

Itay Tirosh

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Itay Tirosh

Itay Tirosh

Publications by authors named "Itay Tirosh"

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An Integrative Model of Cellular States, Plasticity, and Genetics for Glioblastoma.

Cell 2019 Aug 18;178(4):835-849.e21. Epub 2019 Jul 18.

Department of Pathology and Center for Cancer Research, Massachusetts General Hospital and Harvard Medical School, Boston, MA, 02114, USA; Klarman Cell Observatory, Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA; Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA. Electronic address:

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http://dx.doi.org/10.1016/j.cell.2019.06.024DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6703186PMC
August 2019

Single-Cell RNA Sequencing in Cancer: Lessons Learned and Emerging Challenges.

Mol Cell 2019 Jul;75(1):7-12

Department of Molecular Cell Biology, Weizmann Institute of Science, Rehovot 761001, Israel. Electronic address:

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http://dx.doi.org/10.1016/j.molcel.2019.05.003DOI Listing
July 2019

T Helper Cell Cytokines Modulate Intestinal Stem Cell Renewal and Differentiation.

Cell 2018 11 1;175(5):1307-1320.e22. Epub 2018 Nov 1.

Department of Molecular Biology, Massachusetts General Hospital, Boston, MA 02114, USA; Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA; Gastrointestinal Unit and Center for the Study of Inflammatory Bowel Disease, Massachusetts General Hospital, Boston, MA 02114, USA; Center for Microbiome informatics and Therapeutics, MIT, Cambridge, MA 02139, USA. Electronic address:

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https://linkinghub.elsevier.com/retrieve/pii/S00928674183131
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http://dx.doi.org/10.1016/j.cell.2018.10.008DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6239889PMC
November 2018

A Glial Signature and Wnt7 Signaling Regulate Glioma-Vascular Interactions and Tumor Microenvironment.

Cancer Cell 2018 05 19;33(5):874-889.e7. Epub 2018 Apr 19.

Department of Pediatrics, University of California San Francisco, San Francisco, CA 94143, USA; Eli and Edythe Broad Institute for Stem Cell Research and Regeneration Medicine, University of California San Francisco, San Francisco, CA 94143, USA; Department of Neurological Surgery and Brain Tumor Research Center, University of California San Francisco, San Francisco, CA 94143, USA; Department of Pediatrics, University of Cambridge and Wellcome Trust-MRC Stem Cell Institute, Hills Road, Cambridge CB2 0AN, UK. Electronic address:

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http://dx.doi.org/10.1016/j.ccell.2018.03.020DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6211172PMC
May 2018

Single cell RNA-seq highlights a role for a partial EMT in head and neck cancer.

Mol Cell Oncol 2018 7;5(3):e1448244. Epub 2018 Mar 7.

Department of Molecular Cell Biology, Weizmann Institute of Science, Rehovot, Israel.

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http://dx.doi.org/10.1080/23723556.2018.1448244DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6149805PMC
March 2018

Dissecting human gliomas by single-cell RNA sequencing.

Neuro Oncol 2018 01;20(1):37-43

Broad Institute of Harvard and MIT, Cambridge, Massachusetts.

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http://dx.doi.org/10.1093/neuonc/nox126DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5761500PMC
January 2018

Single-Cell Transcriptomic Analysis of Primary and Metastatic Tumor Ecosystems in Head and Neck Cancer.

Cell 2017 Dec 30;171(7):1611-1624.e24. Epub 2017 Nov 30.

Department of Pathology and Center for Cancer Research, Massachusetts General Hospital and Harvard Medical School, Boston, MA 02114, USA; Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA. Electronic address:

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https://linkinghub.elsevier.com/retrieve/pii/S00928674173127
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http://dx.doi.org/10.1016/j.cell.2017.10.044DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5878932PMC
December 2017

Genetic and Proteomic Interrogation of Lower Confidence Candidate Genes Reveals Signaling Networks in β-Catenin-Active Cancers.

Cell Syst 2016 09;3(3):302-316.e4

Broad Institute of Harvard and MIT, 415 Main Street, Cambridge, MA 02142, USA; Department of Medical Oncology, Dana-Farber Cancer Institute, Harvard Medical School, 450 Brookline Avenue, Boston, MA 02215, USA. Electronic address:

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http://dx.doi.org/10.1016/j.cels.2016.09.001DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5455996PMC
September 2016

Single-cell RNA-seq reveals changes in cell cycle and differentiation programs upon aging of hematopoietic stem cells.

Genome Res 2015 Dec 1;25(12):1860-72. Epub 2015 Oct 1.

Broad Institute of MIT and Harvard, Cambridge, Massachusetts 02142, USA; Howard Hughes Medical Institute, Massachusetts Institute of Technology, Cambridge, Massachusetts 02140, USA; Department of Biology, Massachusetts Institute of Technology, Cambridge, Massachusetts 02140, USA.

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http://dx.doi.org/10.1101/gr.192237.115DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4665007PMC
December 2015

Highly Parallel Genome-wide Expression Profiling of Individual Cells Using Nanoliter Droplets.

Cell 2015 May;161(5):1202-1214

Department of Genetics, Harvard Medical School, Boston, MA 02115, USA; Stanley Center for Psychiatric Research, Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA; Program in Medical and Population Genetics, Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA. Electronic address:

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http://dx.doi.org/10.1016/j.cell.2015.05.002DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4481139PMC
May 2015

Chromatin mediation of a transcriptional memory effect in yeast.

G3 (Bethesda) 2015 Mar 5;5(5):829-38. Epub 2015 Mar 5.

Laboratory of Molecular Genetics, Wadsworth Center, New York State Department of Health, Albany, New York Department of Biomedical Science, University at Albany School of Public Health, Albany, New York

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http://dx.doi.org/10.1534/g3.115.017418DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4426369PMC
March 2015

Single-cell RNA-seq highlights intratumoral heterogeneity in primary glioblastoma.

Science 2014 Jun 12;344(6190):1396-401. Epub 2014 Jun 12.

Department of Pathology and Center for Cancer Research, Massachusetts General Hospital and Harvard Medical School, Boston, MA 02114, USA. Broad Institute of Harvard and Massachusetts Institute of Techonology (MIT), Cambridge, MA 02142, USA. Howard Hughes Medical Institute Chevy Chase, MD 20815, USA.

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http://www.sciencemag.org/cgi/doi/10.1126/science.1254257
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http://dx.doi.org/10.1126/science.1254257DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4123637PMC
June 2014

Reconstructing and reprogramming the tumor-propagating potential of glioblastoma stem-like cells.

Cell 2014 Apr 10;157(3):580-94. Epub 2014 Apr 10.

Howard Hughes Medical Institute, Chevy Chase, MD 20815, USA; Department of Pathology and Center for Cancer Research, Massachusetts General Hospital and Harvard Medical School, Boston, MA 02114, USA; Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA. Electronic address:

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http://dx.doi.org/10.1016/j.cell.2014.02.030DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4004670PMC
April 2014

CRISPR targeting reveals a reservoir of common phages associated with the human gut microbiome.

Genome Res 2012 Oct 25;22(10):1985-94. Epub 2012 Jun 25.

Department of Molecular Genetics, Weizmann Institute of Science, Rehovot 76100, Israel.

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http://dx.doi.org/10.1101/gr.138297.112DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3460193PMC
October 2012

Promoter nucleosome organization shapes the evolution of gene expression.

PLoS Genet 2012 15;8(3):e1002579. Epub 2012 Mar 15.

Department of Molecular Genetics, Weizmann Institute of Science, Rehovot, Israel.

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http://dx.doi.org/10.1371/journal.pgen.1002579DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3305400PMC
September 2012

Expression noise and acetylation profiles distinguish HDAC functions.

Mol Cell 2012 Jul 7;47(2):193-202. Epub 2012 Jun 7.

Department of Molecular Genetics, Weizmann Institute of Science, Rehovot, Israel.

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http://dx.doi.org/10.1016/j.molcel.2012.05.008DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3408861PMC
July 2012

Transcriptional priming of cytoplasmic post-transcriptional regulation.

Authors:
Itay Tirosh

Transcription 2011 Nov-Dec;2(6):258-62. Epub 2011 Nov 1.

Department of Molecular Genetics, Weizmann Institute of Science, Rehovot, Israel.

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http://dx.doi.org/10.4161/trns.2.6.18608DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3265786PMC
June 2012

Computational analysis of nucleosome positioning.

Authors:
Itay Tirosh

Methods Mol Biol 2012 ;833:443-9

Department of Molecular Genetics, Weizmann Institute of Science, Rehovot, Israel.

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http://dx.doi.org/10.1007/978-1-61779-477-3_27DOI Listing
April 2012

Opposite GC skews at the 5' and 3' ends of genes in unicellular fungi.

BMC Genomics 2011 Dec 30;12:638. Epub 2011 Dec 30.

Department of Molecular Genetics, Weizmann Institute of Science, Rehovot, Israel.

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http://dx.doi.org/10.1186/1471-2164-12-638DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3315797PMC
December 2011

Evolution of nucleosome occupancy: conservation of global properties and divergence of gene-specific patterns.

Mol Cell Biol 2011 Nov 6;31(21):4348-55. Epub 2011 Sep 6.

Donnelly Centre for Cellular & Biomolecular Research, 160 College Street, Toronto, Ontario M5S 3E1, Canada.

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http://dx.doi.org/10.1128/MCB.05276-11DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3209338PMC
November 2011

Extensive divergence of yeast stress responses through transitions between induced and constitutive activation.

Proc Natl Acad Sci U S A 2011 Oct 19;108(40):16693-8. Epub 2011 Sep 19.

Department of Molecular Genetics, Weizmann Institute of Science, Rehovot 76100, Israel.

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http://www.pnas.org/cgi/doi/10.1073/pnas.1113718108
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http://dx.doi.org/10.1073/pnas.1113718108DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3189053PMC
October 2011

Inferring regulatory mechanisms from patterns of evolutionary divergence.

Mol Syst Biol 2011 Sep 13;7:530. Epub 2011 Sep 13.

Department of Molecular Genetics, Weizmann Institute of Science, Rehovot, Israel.

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http://dx.doi.org/10.1038/msb.2011.60DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3202799PMC
September 2011

Coupled evolution of transcription and mRNA degradation.

PLoS Biol 2011 Jul 19;9(7):e1001106. Epub 2011 Jul 19.

Department of Molecular Genetics, Weizmann Institute of Science, Rehovot, Israel.

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http://dx.doi.org/10.1371/journal.pbio.1001106DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3139634PMC
July 2011

Promoter architecture and the evolvability of gene expression.

J Biol 2009 14;8(11):95. Epub 2009 Dec 14.

Department of Molecular Genetics, Weizmann Institute of Science, Rehovot, 76100, Israel.

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http://dx.doi.org/10.1186/jbiol204DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2804285PMC
March 2011

Chromatin regulators as capacitors of interspecies variations in gene expression.

Mol Syst Biol 2010 Nov;6:435

Department of Molecular Genetics, Weizmann Institute of Science, Rehovot, Israel.

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http://dx.doi.org/10.1038/msb.2010.84DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3010112PMC
November 2010

Widespread remodeling of mid-coding sequence nucleosomes by Isw1.

Genome Biol 2010 10;11(5):R49. Epub 2010 May 10.

Department of Molecular genetics, Weizmann Institute of Science, Herzl street, Rehovot 76100, Israel.

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http://genomebiology.biomedcentral.com/articles/10.1186/gb-2
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http://dx.doi.org/10.1186/gb-2010-11-5-r49DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2898075PMC
September 2010

Epigenetically-inherited centromere and neocentromere DNA replicates earliest in S-phase.

PLoS Genet 2010 Aug 19;6(8):e1001068. Epub 2010 Aug 19.

Department of Genetics, Cell Biology, and Development, University of Minnesota, Minneapolis, Minnesota, USA.

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http://dx.doi.org/10.1371/journal.pgen.1001068DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2924309PMC
August 2010

Divergence of nucleosome positioning between two closely related yeast species: genetic basis and functional consequences.

Mol Syst Biol 2010 May;6:365

Department of Molecular Genetics, Weizmann Institute of Science, Rehovot, Israel.

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http://dx.doi.org/10.1038/msb.2010.20DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2890324PMC
May 2010

PBAN receptor: employment of anti-receptor antibodies for its characterization and for development of a microplate binding assay.

J Insect Physiol 2009 Sep 10;55(9):825-33. Epub 2009 Jun 10.

Department of Entomology, The Volcani Center, Hamabacim St. 6, Bet Dagan 50250, Israel.

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http://dx.doi.org/10.1016/j.jinsphys.2009.05.006DOI Listing
September 2009

A yeast hybrid provides insight into the evolution of gene expression regulation.

Science 2009 May;324(5927):659-62

Department of Molecular Genetics, Weizmann Institute of Science, Rehovot, Israel.

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http://dx.doi.org/10.1126/science.1169766DOI Listing
May 2009

Two strategies for gene regulation by promoter nucleosomes.

Genome Res 2008 Jul 30;18(7):1084-91. Epub 2008 Apr 30.

Department of Molecular Genetics, Weizmann Institute of Science, Rehovot 76100, Israel.

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http://dx.doi.org/10.1101/gr.076059.108DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2493397PMC
July 2008

Evolution of gene sequence and gene expression are not correlated in yeast.

Trends Genet 2008 Mar 4;24(3):109-13. Epub 2008 Feb 4.

Department of Molecular Genetics, Weizmann Institute of Science, Rehovot 76100, Israel.

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http://dx.doi.org/10.1016/j.tig.2007.12.004DOI Listing
March 2008

On the relation between promoter divergence and gene expression evolution.

Mol Syst Biol 2008 15;4:159. Epub 2008 Jan 15.

Department of Molecular Genetics, Weizmann Institute of Science, Rehovot, Israel.

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http://dx.doi.org/10.1038/msb4100198DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2238714PMC
January 2008

Comparative analysis indicates regulatory neofunctionalization of yeast duplicates.

Genome Biol 2007 ;8(4):R50

Department of Molecular Genetics, Weizmann Institute of Science, Rehovot, Israel.

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http://dx.doi.org/10.1186/gb-2007-8-4-r50DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1895995PMC
November 2007

Comparative biology: beyond sequence analysis.

Curr Opin Biotechnol 2007 Aug 10;18(4):371-7. Epub 2007 Aug 10.

Department of Molecular Genetics, Weizmann Institute of Science, 76100 Rehovot, Israel.

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http://dx.doi.org/10.1016/j.copbio.2007.07.003DOI Listing
August 2007

The pattern and evolution of yeast promoter bendability.

Trends Genet 2007 Jul 6;23(7):318-21. Epub 2007 Apr 6.

Department of Molecular Genetics, Weizmann Institute of Science, Rehovot, Israel.

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http://dx.doi.org/10.1016/j.tig.2007.03.015DOI Listing
July 2007

Autocorrelation analysis reveals widespread spatial biases in microarray experiments.

BMC Genomics 2007 Jun 12;8:164. Epub 2007 Jun 12.

Department of Molecular Genetics, Weizmann Institute of Science, Rehovot, Israel.

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http://dx.doi.org/10.1186/1471-2164-8-164DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1913520PMC
June 2007

A genetic signature of interspecies variations in gene expression.

Nat Genet 2006 Jul 18;38(7):830-4. Epub 2006 Jun 18.

Department of Molecular Genetics, Weizmann Institute of Science, 76100 Rehovot, Israel.

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http://dx.doi.org/10.1038/ng1819DOI Listing
July 2006

Computational verification of protein-protein interactions by orthologous co-expression.

BMC Bioinformatics 2005 Mar 2;6:40. Epub 2005 Mar 2.

Department of Molecular Genetics, Weizmann Institute of Science, Rehovot, Israel.

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http://dx.doi.org/10.1186/1471-2105-6-40DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC555590PMC
March 2005