Publications by authors named "Matan Hofree"

31Publications

A Distinct Transcriptional Program in Human CAR T Cells Bearing the 4-1BB Signaling Domain Revealed by scRNA-Seq.

Mol Ther 2020 Jul 25. Epub 2020 Jul 25.

Cellular Immunotherapy Program and Cancer Center, Massachusetts General Hospital, Charlestown, MA 02129, USA; Harvard Medical School, Boston, MA 02115, USA; Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA 02139, USA; Department of Medicine, Massachusetts General Hospital, Boston, MA 02114, USA. Electronic address:

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http://dx.doi.org/10.1016/j.ymthe.2020.07.023DOI Listing
July 2020

Synthetic Essentiality of Metabolic Regulator PDHK1 in PTEN-Deficient Cells and Cancers.

Cell Rep 2019 08;28(9):2317-2330.e8

Department of Medicine, University of California, San Francisco, San Francisco, CA 94158, USA; Helen Diller Family Comprehensive Cancer Center, University of California, San Francisco, San Francisco, CA 94158, USA; Department of Cellular and Molecular Pharmacology, University of California, San Francisco, San Francisco, CA 94158, USA; QB3, California Institute for Quantitative Biosciences, San Francisco, CA 94158, USA. Electronic address:

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http://dx.doi.org/10.1016/j.celrep.2019.07.063DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6728083PMC
August 2019

A Cellular Taxonomy of the Bone Marrow Stroma in Homeostasis and Leukemia.

Cell 2019 06 23;177(7):1915-1932.e16. Epub 2019 May 23.

Center for Regenerative Medicine, Massachusetts General Hospital, Boston, MA 02114, USA; Harvard Stem Cell Institute, Cambridge, MA 02138, USA; Department of Stem Cell and Regenerative Biology, Harvard University, Cambridge, MA 02138, USA. Electronic address:

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https://linkinghub.elsevier.com/retrieve/pii/S00928674193045
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http://dx.doi.org/10.1016/j.cell.2019.04.040DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6570562PMC
June 2019

Anatomically and Functionally Distinct Lung Mesenchymal Populations Marked by Lgr5 and Lgr6.

Cell 2017 Sep;170(6):1149-1163.e12

Stem Cell Program and Divisions of Hematology/Oncology and Pulmonary & Respiratory Diseases, Boston Children's Hospital, Boston, MA 02115, USA; Harvard Stem Cell Institute, Cambridge, MA 02138, USA; Department of Genetics, Harvard Medical School, Boston, MA 02115, USA. Electronic address:

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http://dx.doi.org/10.1016/j.cell.2017.07.028DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5607351PMC
September 2017

Challenges in identifying cancer genes by analysis of exome sequencing data.

Nat Commun 2016 07 15;7:12096. Epub 2016 Jul 15.

Cancer Cell Map Initiative (CCMI), 9500 Gilman Drive, La Jolla, California 92093, USA.

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http://dx.doi.org/10.1038/ncomms12096DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4947162PMC
July 2016

Integrated Proteomic and Genomic Analysis of Gastric Cancer Patient Tissues.

J Proteome Res 2015 Dec 20;14(12):4995-5006. Epub 2015 Oct 20.

Barnett Institute and Department of Chemistry and Chemical Biology, Northeastern University , 360 Huntington Avenue, Boston, Massachusetts 02115, United States.

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http://dx.doi.org/10.1021/acs.jproteome.5b00827DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5706558PMC
December 2015

Identifying mutation specific cancer pathways using a structurally resolved protein interaction network.

Pac Symp Biocomput 2015 :84-95

School of Medicine, University of California San Diego, 9500 Gilman Dr. San Diego, CA 92093, USA.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4299875PMC
April 2016

Multi-tiered genomic analysis of head and neck cancer ties TP53 mutation to 3p loss.

Nat Genet 2014 Sep 3;46(9):939-43. Epub 2014 Aug 3.

1] Bioinformatics and Systems Biology Program, University of California, San Diego, La Jolla, California, USA. [2] Department of Medicine, University of California, San Diego, La Jolla, California, USA. [3] Department of Computer Science and Engineering, University of California, San Diego, La Jolla, California, USA. [4] Moores Cancer Center, University of California, San Diego, La Jolla, California, USA.

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http://dx.doi.org/10.1038/ng.3051DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4146706PMC
September 2014

Genotype to phenotype via network analysis.

Curr Opin Genet Dev 2013 Dec 14;23(6):611-21. Epub 2013 Nov 14.

Institute for Genomic Medicine and Department of Medicine, University of California, San Diego, 9500 Gillman Drive, La Jolla, CA 92093, United States.

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http://dx.doi.org/10.1016/j.gde.2013.10.003DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3866044PMC
December 2013

Network-based stratification of tumor mutations.

Nat Methods 2013 Nov 15;10(11):1108-15. Epub 2013 Sep 15.

Department of Computer Science and Engineering, University of California, San Diego, La Jolla, California, USA.

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http://dx.doi.org/10.1038/nmeth.2651DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3866081PMC
November 2013

Genome wide proteomics of ERBB2 and EGFR and other oncogenic pathways in inflammatory breast cancer.

J Proteome Res 2013 Jun 22;12(6):2805-17. Epub 2013 May 22.

Barnett Institute and Department of Chemistry and Chemical Biology, Northeastern University, 360 Huntington Avenue, Boston, Massachusetts 02115, United States.

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http://dx.doi.org/10.1021/pr4001527DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4142215PMC
June 2013

RepTar: a database of predicted cellular targets of host and viral miRNAs.

Nucleic Acids Res 2011 Jan 10;39(Database issue):D188-94. Epub 2010 Dec 10.

Department of Microbiology and Molecular Genetics, IMRIC, The Hebrew University-Hadassah Medical School, Jerusalem 91120, Israel.

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http://dx.doi.org/10.1093/nar/gkq1233DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3013742PMC
January 2011

A decade of systems biology.

Annu Rev Cell Dev Biol 2010 ;26:721-44

Division of Medical Genetics, Department of Medicine, University of California, San Diego, La Jolla, California 92093, USA.

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http://dx.doi.org/10.1146/annurev-cellbio-100109-104122DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3371392PMC
October 2010