Sherman M Weissman

Sherman M Weissman

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Sherman M Weissman

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An Overview of Advances in Cell-Based Cancer Immunotherapies Based on the Multiple Immune-Cancer Cell Interactions.

Methods Mol Biol 2020 ;2097:139-171

Department of Pathology, Yale School of Medicine, New Haven, CT, USA.

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http://dx.doi.org/10.1007/978-1-0716-0203-4_10DOI Listing
January 2020

A versatile flow-based assay for immunocyte-mediated cytotoxicity.

J Immunol Methods 2019 Nov 13;474:112668. Epub 2019 Sep 13.

Department of Pathology, Yale School of Medicine, New Haven, CT 06525, USA; Yale Comprehensive Cancer Center, Yale School of Medicine, New Haven, CT 06525, USA. Electronic address:

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http://dx.doi.org/10.1016/j.jim.2019.112668DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6891822PMC
November 2019

Telomere Maintenance-Associated PML Is a Potential Specific Therapeutic Target of Human Colorectal Cancer.

Transl Oncol 2019 Sep 15;12(9):1164-1176. Epub 2019 Jun 15.

State Key Laboratory of Medicinal Chemical Biology, 2011 Collaborative Innovation Center for Biotherapy; Department of Cell Biology and Genetics, College of Life Sciences, Nankai University, Tianjin, 300071, China. Electronic address:

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http://dx.doi.org/10.1016/j.tranon.2019.05.010DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6580093PMC
September 2019

hESC-Derived Thalamic Organoids Form Reciprocal Projections When Fused with Cortical Organoids.

Cell Stem Cell 2019 03 21;24(3):487-497.e7. Epub 2019 Feb 21.

Department of Genetics, Yale Stem Cell Center, Yale Child Study Center, Yale School of Medicine, New Haven, CT 06520, USA. Electronic address:

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http://dx.doi.org/10.1016/j.stem.2018.12.015DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6853597PMC
March 2019

Correction to: MISC: missing imputation for single-cell RNA sequencing data.

BMC Syst Biol 2019 Jan 22;13(1):13. Epub 2019 Jan 22.

Joint Bioinformatics Program, University of Arkansas Little Rock George Washington Donaghey College of Engineering & IT and University of Arkansas for Medical Sciences, Little Rock, AR, 72204, USA.

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http://dx.doi.org/10.1186/s12918-019-0681-3DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6343234PMC
January 2019

MISC: missing imputation for single-cell RNA sequencing data.

BMC Syst Biol 2018 12 14;12(Suppl 7):114. Epub 2018 Dec 14.

Joint Bioinformatics Program, University of Arkansas Little Rock George Washington Donaghey College of Engineering & IT and University of Arkansas for Medical Sciences, Little Rock, AR, 72204, USA.

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http://dx.doi.org/10.1186/s12918-018-0638-yDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6293493PMC
December 2018

Local and global chromatin interactions are altered by large genomic deletions associated with human brain development.

Nat Commun 2018 12 17;9(1):5356. Epub 2018 Dec 17.

Department of Psychiatry and Behavioral Sciences, Stanford University School of Medicine, Stanford, 94304, CA, USA.

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http://dx.doi.org/10.1038/s41467-018-07766-xDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6297223PMC
December 2018

Ritornello: high fidelity control-free chromatin immunoprecipitation peak calling.

Nucleic Acids Res 2017 Dec;45(21):e173

Department of Pathology, Yale University School of Medicine, 333 Cedar Street, New Haven, CT 06520, USA.

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http://dx.doi.org/10.1093/nar/gkx799DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5716106PMC
December 2017

Detecting heterogeneity in single-cell RNA-Seq data by non-negative matrix factorization.

PeerJ 2017 19;5:e2888. Epub 2017 Jan 19.

Epidemiology Program, University of Hawaii Cancer Center , Honolulu , HI , United States.

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http://dx.doi.org/10.7717/peerj.2888DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5251935PMC
January 2017

Regulation of the DNA Methylation Landscape in Human Somatic Cell Reprogramming by the miR-29 Family.

Stem Cell Reports 2016 07 30;7(1):43-54. Epub 2016 Jun 30.

Department of Genetics, Yale Stem Cell Center, Yale School of Medicine, 10 Amistad, 201B, New Haven, CT 06520, USA. Electronic address:

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http://dx.doi.org/10.1016/j.stemcr.2016.05.014DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4945581PMC
July 2016

Single-Cell Sequencing for Precise Cancer Research: Progress and Prospects.

Cancer Res 2016 Mar 3;76(6):1305-12. Epub 2016 Mar 3.

Hangzhou Cancer Institution, Hangzhou Cancer Hospital, Hangzhou, Zhejiang Province, P. R. China.

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http://dx.doi.org/10.1158/0008-5472.CAN-15-1907DOI Listing
March 2016

Long intergenic non-coding RNA HOTAIRM1 regulates cell cycle progression during myeloid maturation in NB4 human promyelocytic leukemia cells.

RNA Biol 2014 24;11(6):777-87. Epub 2014 Apr 24.

Department of Pediatrics; University of Massachusetts Medical School; Worcester, MA USA; Department of Cancer Biology; University of Massachusetts Medical School; Worcester, MA USA.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4156508PMC
http://dx.doi.org/10.4161/rna.28828DOI Listing
July 2015

A comparative encyclopedia of DNA elements in the mouse genome.

Authors:
Feng Yue Yong Cheng Alessandra Breschi Jeff Vierstra Weisheng Wu Tyrone Ryba Richard Sandstrom Zhihai Ma Carrie Davis Benjamin D Pope Yin Shen Dmitri D Pervouchine Sarah Djebali Robert E Thurman Rajinder Kaul Eric Rynes Anthony Kirilusha Georgi K Marinov Brian A Williams Diane Trout Henry Amrhein Katherine Fisher-Aylor Igor Antoshechkin Gilberto DeSalvo Lei-Hoon See Meagan Fastuca Jorg Drenkow Chris Zaleski Alex Dobin Pablo Prieto Julien Lagarde Giovanni Bussotti Andrea Tanzer Olgert Denas Kanwei Li M A Bender Miaohua Zhang Rachel Byron Mark T Groudine David McCleary Long Pham Zhen Ye Samantha Kuan Lee Edsall Yi-Chieh Wu Matthew D Rasmussen Mukul S Bansal Manolis Kellis Cheryl A Keller Christapher S Morrissey Tejaswini Mishra Deepti Jain Nergiz Dogan Robert S Harris Philip Cayting Trupti Kawli Alan P Boyle Ghia Euskirchen Anshul Kundaje Shin Lin Yiing Lin Camden Jansen Venkat S Malladi Melissa S Cline Drew T Erickson Vanessa M Kirkup Katrina Learned Cricket A Sloan Kate R Rosenbloom Beatriz Lacerda de Sousa Kathryn Beal Miguel Pignatelli Paul Flicek Jin Lian Tamer Kahveci Dongwon Lee W James Kent Miguel Ramalho Santos Javier Herrero Cedric Notredame Audra Johnson Shinny Vong Kristen Lee Daniel Bates Fidencio Neri Morgan Diegel Theresa Canfield Peter J Sabo Matthew S Wilken Thomas A Reh Erika Giste Anthony Shafer Tanya Kutyavin Eric Haugen Douglas Dunn Alex P Reynolds Shane Neph Richard Humbert R Scott Hansen Marella De Bruijn Licia Selleri Alexander Rudensky Steven Josefowicz Robert Samstein Evan E Eichler Stuart H Orkin Dana Levasseur Thalia Papayannopoulou Kai-Hsin Chang Arthur Skoultchi Srikanta Gosh Christine Disteche Piper Treuting Yanli Wang Mitchell J Weiss Gerd A Blobel Xiaoyi Cao Sheng Zhong Ting Wang Peter J Good Rebecca F Lowdon Leslie B Adams Xiao-Qiao Zhou Michael J Pazin Elise A Feingold Barbara Wold James Taylor Ali Mortazavi Sherman M Weissman John A Stamatoyannopoulos Michael P Snyder Roderic Guigo Thomas R Gingeras David M Gilbert Ross C Hardison Michael A Beer Bing Ren

Nature 2014 Nov;515(7527):355-64

Ludwig Institute for Cancer Research and University of California, San Diego School of Medicine, 9500 Gilman Drive, La Jolla, California 92093, USA.

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http://dx.doi.org/10.1038/nature13992DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4266106PMC
November 2014

Co-detection and sequencing of genes and transcripts from the same single cells facilitated by a microfluidics platform.

Sci Rep 2014 Sep 26;4:6485. Epub 2014 Sep 26.

1] Department of Biomedical Engineering, Yale University, New Haven, CT 06520, USA [2] Yale Comprehensive Cancer Center, New Haven, CT 06520, USA.

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http://www.nature.com/articles/srep06485
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http://dx.doi.org/10.1038/srep06485DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4175731PMC
September 2014

Extended lifespan and reduced adiposity in mice lacking the FAT10 gene.

Proc Natl Acad Sci U S A 2014 Apr 24;111(14):5313-8. Epub 2014 Mar 24.

Departments of Genetics, Pediatrics, Pathology, and Immunobiology, Yale University School of Medicine, New Haven, CT 06520.

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http://dx.doi.org/10.1073/pnas.1323426111DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3986194PMC
April 2014

Nonstochastic reprogramming from a privileged somatic cell state.

Cell 2014 Feb 30;156(4):649-62. Epub 2014 Jan 30.

Yale Stem Cell Center, Yale University, New Haven, CT 06520, USA; Department of Genetics, Yale University, New Haven, CT 06520, USA; Yale Comprehensive Cancer Center, Yale University, New Haven, CT 06520, USA.

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http://dx.doi.org/10.1016/j.cell.2014.01.020DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4318260PMC
February 2014

Cell engineering with synthetic messenger RNA.

Methods Mol Biol 2013 ;969:3-28

Department of Genetics, Yale University School of Medicine, New Haven, CT, USA.

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http://dx.doi.org/10.1007/978-1-62703-260-5_1DOI Listing
June 2013

Robust measurement of telomere length in single cells.

Proc Natl Acad Sci U S A 2013 May 9;110(21):E1906-12. Epub 2013 May 9.

Department of Obstetrics and Gynecology, New York University Langone Medical Center, NY 10016, USA.

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http://dx.doi.org/10.1073/pnas.1306639110DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3666709PMC
May 2013

The variable somatic genome.

Cell Cycle 2013 Jan 19;12(1):5-6. Epub 2012 Dec 19.

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http://dx.doi.org/10.4161/cc.23069DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3570516PMC
January 2013

Extensive genetic variation in somatic human tissues.

Proc Natl Acad Sci U S A 2012 Oct 5;109(44):18018-23. Epub 2012 Oct 5.

Department of Genetics, Biomedical Informatics Training Program, Stanford University School of Medicine, Stanford, CA 94305, USA.

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http://dx.doi.org/10.1073/pnas.1213736109DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3497787PMC
October 2012

A highly integrated and complex PPARGC1A transcription factor binding network in HepG2 cells.

Genome Res 2012 Sep;22(9):1668-79

Department of Molecular, Cellular, and Developmental Biology, Yale University, New Haven, Connecticut 06520, USA.

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http://dx.doi.org/10.1101/gr.127761.111DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3431484PMC
September 2012

An encyclopedia of mouse DNA elements (Mouse ENCODE).

August 2012

Complex interactions in EML cell stimulation by stem cell factor and IL-3.

Proc Natl Acad Sci U S A 2011 Mar 7;108(12):4882-7. Epub 2011 Mar 7.

Department of Genetics, Yale University, New Haven, CT 06519, USA.

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http://dx.doi.org/10.1073/pnas.1018002108DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3064389PMC
March 2011

A multiprotein complex necessary for both transcription and DNA replication at the β-globin locus.

EMBO J 2010 Oct 31;29(19):3260-71. Epub 2010 Aug 31.

Department of Genetics, The Anlyan Center, Yale University School of Medicine, New Haven, CT, USA.

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http://dx.doi.org/10.1038/emboj.2010.204DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2957209PMC
October 2010

EBNA1 regulates cellular gene expression by binding cellular promoters.

Proc Natl Acad Sci U S A 2009 Dec 22;106(52):22421-6. Epub 2009 Dec 22.

Department of Genetics, Yale Cancer Center, Yale University School of Medicine, New Haven, CT 06520, USA.

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http://dx.doi.org/10.1073/pnas.0911676106DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2799695PMC
December 2009

Chromatin architecture and transcription factor binding regulate expression of erythrocyte membrane protein genes.

Mol Cell Biol 2009 Oct 17;29(20):5399-412. Epub 2009 Aug 17.

Department of Pediatrics, Yale University School of Medicine, 333 Cedar Street, P.O. Box 208064, New Haven, CT 06520-8064, USA.

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http://dx.doi.org/10.1128/MCB.00777-09DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2756878PMC
October 2009

Genome-wide screen of promoter methylation identifies novel markers in melanoma.

Genome Res 2009 Aug 2;19(8):1462-70. Epub 2009 Jun 2.

Department of Genetics, Yale University School of Medicine, New Haven, Connecticut 06520-8059, USA.

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http://dx.doi.org/10.1101/gr.091447.109DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2720187PMC
August 2009

A procedure for highly specific, sensitive, and unbiased whole-genome amplification.

Proc Natl Acad Sci U S A 2008 Oct 1;105(40):15499-504. Epub 2008 Oct 1.

Department of Genetics, Yale University School of Medicine, New Haven, CT 06520-8005, USA.

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http://dx.doi.org/10.1073/pnas.0808028105DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2563063PMC
October 2008

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

Genome Res 2008 Aug 16;18(8):1224-37. Epub 2008 May 16.

Department of Genetics, Yale University School of Medicine, New Haven, CT 06520-8005, USA.

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http://dx.doi.org/10.1101/gr.075804.107DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2493437PMC
August 2008

Control of beta globin genes.

J Cell Biochem 2007 Nov;102(4):801-10

Department of Human Genetics, Yale University School of Medicine, New Haven, Connecticut, USA.

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http://dx.doi.org/10.1002/jcb.21507DOI Listing
November 2007

Systematic prediction and validation of breakpoints associated with copy-number variants in the human genome.

Proc Natl Acad Sci U S A 2007 Jun 5;104(24):10110-5. Epub 2007 Jun 5.

Departments of Molecular Biophysics and Biochemistry, Yale University School of Medicine, New Haven, CT 06520, USA.

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http://dx.doi.org/10.1073/pnas.0703834104DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1891248PMC
June 2007

A limited number of genes are involved in the differentiation of germinal center B cells.

J Cell Biochem 2006 Dec;99(5):1308-25

Department of Genetics, Yale University School of Medicine, 300 Cedar St., New Haven, Connecticut 06510, USA.

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http://dx.doi.org/10.1002/jcb.20952DOI Listing
December 2006

Differentiated cells are more efficient than adult stem cells for cloning by somatic cell nuclear transfer.

Nat Genet 2006 Nov 1;38(11):1323-8. Epub 2006 Oct 1.

Center for Regenerative Biology and Department of Animal Science, University of Connecticut, Storrs, Connecticut 06269, USA.

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http://www.nature.com/articles/ng1895
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http://dx.doi.org/10.1038/ng1895DOI Listing
November 2006

Synthetic messenger RNA as a tool for gene therapy.

Hum Gene Ther 2006 Oct;17(10):1027-35

Department of Genetics, Yale University School of Medicine, New Haven, CT 06520, and Department of Hematology-Oncology, St. Jude Children's Research Hospital, Memphis, TN 38105, USA.

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http://dx.doi.org/10.1089/hum.2006.17.1027DOI Listing
October 2006

Identification of coding single nucleotide polymorphisms and mutations by combination of genome tiling arrays and enrichment/depletion of mismatch cDNAs.

Anal Biochem 2006 Sep 5;356(1):117-24. Epub 2006 Jun 5.

Department of Genetics, Yale University School of Medicine, New Haven, CT 06510, USA.

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http://dx.doi.org/10.1016/j.ab.2006.05.013DOI Listing
September 2006

FAT10/diubiquitin-like protein-deficient mice exhibit minimal phenotypic differences.

Mol Cell Biol 2006 Jul;26(13):5180-9

Department of Genetics, The Anlyan Center, Yale University School of Medicine, 300 Cedar St., TAC S-310, New Haven, CT 06510, USA.

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http://dx.doi.org/10.1128/MCB.00966-05DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1489174PMC
July 2006

Multi-protein complexes at the beta-globin locus.

Brief Funct Genomic Proteomic 2006 Mar 22;5(1):62-5. Epub 2006 Feb 22.

Department of Genetics, The Anlyan Center, Yale University School of Medicine, 300 Cedar St., New Haven, CT 06510, USA.

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http://dx.doi.org/10.1093/bfgp/ell001DOI Listing
March 2006

Werner protein protects nonproliferating cells from oxidative DNA damage.

Mol Cell Biol 2005 Dec;25(23):10492-506

Department of Genetics, Yale University School of Medicine, TAC Bldg., Rm. S319, 300 Cedar St., New Haven, CT 06510, USA.

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http://dx.doi.org/10.1128/MCB.25.23.10492-10506.2005DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1291253PMC
December 2005

Two types of precursor cells in a multipotential hematopoietic cell line.

Proc Natl Acad Sci U S A 2005 Dec 13;102(51):18461-6. Epub 2005 Dec 13.

Department of Genetics, Yale University School of Medicine, New Haven, CT 06519, USA.

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http://dx.doi.org/10.1073/pnas.0509314102DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1317970PMC
December 2005

Heterogeneous nuclear ribonucleoprotein C1/C2, MeCP1, and SWI/SNF form a chromatin remodeling complex at the beta-globin locus control region.

Proc Natl Acad Sci U S A 2005 Oct 10;102(42):15012-7. Epub 2005 Oct 10.

Department of Genetics, The Anlyan Center, Yale University School of Medicine, New Haven, CT 06511, USA.

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http://dx.doi.org/10.1073/pnas.0507596102DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1257739PMC
October 2005

A panorama of lineage-specific transcription in hematopoiesis.

Bioessays 2004 Dec;26(12):1276-87

Department of Cell Biology, New York University School of Medicine, New York, USA.

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http://dx.doi.org/10.1002/bies.20144DOI Listing
December 2004

Lineage specificity of gene expression patterns.

Proc Natl Acad Sci U S A 2004 Apr 19;101(17):6508-13. Epub 2004 Apr 19.

Department of Cell Biology, New York University School of Medicine, New York, NY 10016, USA.

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http://dx.doi.org/10.1073/pnas.0401136101DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC404075PMC
April 2004

Gene expression in mature neutrophils: early responses to inflammatory stimuli.

J Leukoc Biol 2004 Feb 21;75(2):358-72. Epub 2003 Nov 21.

University of Massachusetts Medical School, LRB 404, 364 Plantation Street, Worcester, MA 01655, USA.

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http://dx.doi.org/10.1189/jlb.0903412DOI Listing
February 2004

Gene expression in human neutrophils during activation and priming by bacterial lipopolysaccharide.

J Cell Biochem 2003 Jul;89(4):848-61

Department of Genetics, Boyer Center for Molecular Medicine, Yale University School of Medicine, New Haven, CT, USA.

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http://dx.doi.org/10.1002/jcb.10526DOI Listing
July 2003

Genomic and proteomic analysis of the myeloid differentiation program: global analysis of gene expression during induced differentiation in the MPRO cell line.

Blood 2002 Nov;100(9):3209-20

Department of Genetics, Boyer Center for Molecular Medicine, Yale University School of Medicine, New Haven, CT, USA.

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http://dx.doi.org/10.1182/blood-2002-03-0850DOI Listing
November 2002

Nucleolar localization of hTERT protein is associated with telomerase function.

Exp Cell Res 2002 Jul;277(2):201-9

Department of Genetics, Yale University School of Medicine, 333 Cedar Street, New Haven, Connecticut 06536-0812, USA.

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http://dx.doi.org/10.1006/excr.2002.5541DOI Listing
July 2002

An approach for global scanning of single nucleotide variations.

Proc Natl Acad Sci U S A 2002 Jul 1;99(14):9346-51. Epub 2002 Jul 1.

Molecular Staging, Inc., 300 George Street, Suite 701, New Haven, CT 06511, USA.

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http://www.pnas.org/content/99/14/9346.full.pdf
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http://www.pnas.org/cgi/doi/10.1073/pnas.132218699
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http://dx.doi.org/10.1073/pnas.132218699DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC123143PMC
July 2002

GATA-1 binding sites mapped in the beta-globin locus by using mammalian chIp-chip analysis.

Proc Natl Acad Sci U S A 2002 Mar 26;99(5):2924-9. Epub 2002 Feb 26.

Department of Molecular, Cellular and Developmental Biology, Yale University, New Haven, CT 06520, USA.

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http://dx.doi.org/10.1073/pnas.052706999DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC122449PMC
March 2002

DNA-dependent adenosine triphosphatase (helicaselike transcription factor) activates beta-globin transcription in K562 cells.

Blood 2002 Jan;99(1):348-56

Department of Genetics, Boyer Center for Molecular Medicine, Yale University School of Medicine, New Haven, CT 06536, USA.

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http://dx.doi.org/10.1182/blood.v99.1.348DOI Listing
January 2002