Tarjei S Mikkelsen

Tarjei S Mikkelsen

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Tarjei S Mikkelsen

Tarjei S Mikkelsen

Publications by authors named "Tarjei S Mikkelsen"

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Aligning Single-Cell Developmental and Reprogramming Trajectories Identifies Molecular Determinants of Myogenic Reprogramming Outcome.

Cell Syst 2018 09 5;7(3):258-268.e3. Epub 2018 Sep 5.

Molecular & Cellular Biology Program, University of Washington, Seattle, WA, USA; Department of Genome Sciences, University of Washington, Seattle, WA, USA. Electronic address:

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http://dx.doi.org/10.1016/j.cels.2018.07.006DOI Listing
September 2018

Organism-Level Analysis of Vaccination Reveals Networks of Protection across Tissues.

Cell 2017 Oct 21;171(2):398-413.e21. Epub 2017 Sep 21.

Faculty of Arts & Sciences Center for Systems Biology, Harvard University, Cambridge, MA 02138, USA. Electronic address:

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http://dx.doi.org/10.1016/j.cell.2017.08.024DOI Listing
October 2017

Dynamics of lineage commitment revealed by single-cell transcriptomics of differentiating embryonic stem cells.

Nat Commun 2017 10 23;8(1):1096. Epub 2017 Oct 23.

Hubrecht Institute-KNAW (Royal Netherlands Academy of Arts and Sciences) and University Medical Center Utrecht, Uppsalalaan 8, 3584 CT, Utrecht, The Netherlands.

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http://dx.doi.org/10.1038/s41467-017-01076-4DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5653659PMC
October 2017

Genome-scale high-resolution mapping of activating and repressive nucleotides in regulatory regions.

Nat Biotechnol 2016 Nov 3;34(11):1180-1190. Epub 2016 Oct 3.

Broad Institute of Massachusetts Institute of Technology and Harvard University, Cambridge, Massachusetts, USA.

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http://dx.doi.org/10.1038/nbt.3678DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5125825PMC
November 2016

Direct Identification of Hundreds of Expression-Modulating Variants using a Multiplexed Reporter Assay.

Cell 2016 Jun;165(6):1519-1529

Center for Systems Biology, Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, MA 02138, USA; Broad Institute, Cambridge, MA 02142, USA. Electronic address:

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http://dx.doi.org/10.1016/j.cell.2016.04.027DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4957403PMC
June 2016

Systematic Functional Dissection of Common Genetic Variation Affecting Red Blood Cell Traits.

Cell 2016 Jun;165(6):1530-1545

Division of Hematology/Oncology, The Manton Center for Orphan Disease Research, Boston Children's Hospital and Department of Pediatric Oncology, Dana-Farber Cancer Institute, Harvard Medical School, Boston, MA 02115, USA; Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA; Harvard Stem Cell Institute, Cambridge, MA 02138, USA. Electronic address:

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http://dx.doi.org/10.1016/j.cell.2016.04.048DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4893171PMC
June 2016

Analysis of the effects of five factors relevant to in vitro chondrogenesis of human mesenchymal stem cells using factorial design and high throughput mRNA-profiling.

PLoS One 2014 9;9(5):e96615. Epub 2014 May 9.

Norwegian Center for Stem Cell Research, Oslo University Hospital, Rikshospitalet, Oslo, Norway; Department of Biochemistry, Institute of Basic Medical Sciences, The Medical Faculty, University of Oslo, Oslo, Norway; Institute of Immunology, Oslo University Hospital, Rikshospitalet, Oslo, Norway.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0096615PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4015996PMC
October 2015

Integrative Analyses of Human Reprogramming Reveal Dynamic Nature of Induced Pluripotency.

Cell 2015 Jul;162(2):412-424

Department of Stem Cell and Regenerative Biology, Harvard University, Cambridge, MA 02138, USA; Broad Institute, Cambridge, MA 02142, USA; Harvard Stem Cell Institute, Harvard University, Cambridge, MA 02138, USA. Electronic address:

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http://dx.doi.org/10.1016/j.cell.2015.06.016DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4511597PMC
July 2015

ZBED6 modulates the transcription of myogenic genes in mouse myoblast cells.

PLoS One 2014 8;9(4):e94187. Epub 2014 Apr 8.

Science for Life Laboratory, Department of Medical Biochemistry and Microbiology, Uppsala University, Uppsala, Sweden; Department of Animal Breeding and Genetics, Swedish University of Agricultural Sciences, Uppsala, Sweden.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0094187PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3979763PMC
January 2015

Identification of nuclear hormone receptor pathways causing insulin resistance by transcriptional and epigenomic analysis.

Nat Cell Biol 2015 Jan 15;17(1):44-56. Epub 2014 Dec 15.

1] Division of Endocrinology, Beth Israel Deaconess Medical Center, Boston, Massachusetts 02215, USA [2] Broad Institute, Cambridge, Massachusetts 02142, USA [3] Harvard Medical School, Boston, Massachusetts 02215, USA.

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http://dx.doi.org/10.1038/ncb3080DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4281178PMC
January 2015

Altered chromatin occupancy of master regulators underlies evolutionary divergence in the transcriptional landscape of erythroid differentiation.

PLoS Genet 2014 Dec 18;10(12):e1004890. Epub 2014 Dec 18.

Division of Hematology/Oncology, The Manton Center for Orphan Disease Research, Boston Children's Hospital and Department of Pediatric Oncology, Dana-Farber Cancer Institute, Harvard Medical School, Boston, Massachusetts, United States of America; Broad Institute of MIT and Harvard, Cambridge, Massachusetts, United States of America.

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https://dx.plos.org/10.1371/journal.pgen.1004890
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http://dx.doi.org/10.1371/journal.pgen.1004890DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4270484PMC
December 2014

The regulatory landscape of osteogenic differentiation.

Stem Cells 2014 Oct;32(10):2780-93

Department of Tumor Biology, Institute for Cancer Research, The Norwegian Radium Hospital.

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http://dx.doi.org/10.1002/stem.1759DOI Listing
October 2014

Comprehensive mutational scanning of a kinase in vivo reveals substrate-dependent fitness landscapes.

Nucleic Acids Res 2014 Aug 9;42(14):e112. Epub 2014 Jun 9.

Broad Technology Labs, Broad Institute, Cambridge, MA 02142, USA

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http://dx.doi.org/10.1093/nar/gku511DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4132701PMC
August 2014

Perturbation of m6A writers reveals two distinct classes of mRNA methylation at internal and 5' sites.

Cell Rep 2014 Jul 26;8(1):284-96. Epub 2014 Jun 26.

Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA; Department of Biology, Massachusetts Institute of Technology, Cambridge, MA 02139, USA; Howard Hughes Medical Institute, 4000 Jones Bridge Road, Chevy Chase, MD 20815, USA. Electronic address:

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http://dx.doi.org/10.1016/j.celrep.2014.05.048DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4142486PMC
July 2014

Brief report: importance of SOX8 for in vitro chondrogenic differentiation of human mesenchymal stromal cells.

Stem Cells 2014 Jun;32(6):1629-35

Norwegian Center for Stem Cell Research and Institute of Immunology, Oslo University Hospital-Rikshospitalet, Oslo, Norway.

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http://dx.doi.org/10.1002/stem.1642DOI Listing
June 2014

The dynamics and regulators of cell fate decisions are revealed by pseudotemporal ordering of single cells.

Nat Biotechnol 2014 Apr 23;32(4):381-386. Epub 2014 Mar 23.

Department of Stem Cell and Regenerative Biology, Harvard University, Cambridge, Massachusetts, USA.

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http://dx.doi.org/10.1038/nbt.2859DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4122333PMC
April 2014

microRNA-140 targets RALA and regulates chondrogenic differentiation of human mesenchymal stem cells by translational enhancement of SOX9 and ACAN.

Stem Cells Dev 2014 Feb 7;23(3):290-304. Epub 2013 Nov 7.

1 Norwegian Center for Stem Cell Research, Oslo University Hospital , Rikshospitalet, Oslo, Norway .

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http://dx.doi.org/10.1089/scd.2013.0209DOI Listing
February 2014

Early B-cell factor-1 (EBF1) is a key regulator of metabolic and inflammatory signaling pathways in mature adipocytes.

J Biol Chem 2013 Dec 30;288(50):35925-39. Epub 2013 Oct 30.

From the Division of Endocrinology, Beth Israel Deaconess Medical Center, Boston, Massachusetts 02215.

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http://dx.doi.org/10.1074/jbc.M113.491936DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3861642PMC
December 2013

Cellular source and mechanisms of high transcriptome complexity in the mammalian testis.

Cell Rep 2013 Jun 20;3(6):2179-90. Epub 2013 Jun 20.

Center for Integrative Genomics, University of Lausanne, Génopode, CH-1015, Lausanne, Switzerland.

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http://dx.doi.org/10.1016/j.celrep.2013.05.031DOI Listing
June 2013

Systematic dissection of regulatory motifs in 2000 predicted human enhancers using a massively parallel reporter assay.

Genome Res 2013 May 19;23(5):800-11. Epub 2013 Mar 19.

Computer Science and Artificial Intelligence Laboratory, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA.

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http://dx.doi.org/10.1101/gr.144899.112DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3638136PMC
May 2013

Integrative genomics identifies the corepressor SMRT as a gatekeeper of adipogenesis through the transcription factors C/EBPβ and KAISO.

Mol Cell 2012 May 19;46(3):335-50. Epub 2012 Apr 19.

Laboratory of Systems Biology and Genetics, Institute of Bioengineering, School of Life Sciences, École Polytechnique Fédérale de Lausanne (EPFL), Lausanne, Switzerland.

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http://dx.doi.org/10.1016/j.molcel.2012.03.017DOI Listing
May 2012

A unique regulatory phase of DNA methylation in the early mammalian embryo.

Nature 2012 Mar 28;484(7394):339-44. Epub 2012 Mar 28.

Broad Institute of MIT and Harvard, Cambridge, Massachusetts 02142, USA.

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http://dx.doi.org/10.1038/nature10960DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3331945PMC
March 2012

Dissecting direct reprogramming through integrative genomic analysis.

Nature 2008 Jul 28;454(7200):49-55. Epub 2008 May 28.

Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, Massachusetts 02142, USA.

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http://dx.doi.org/10.1038/nature07056DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2754827PMC
July 2008

Systematic discovery of regulatory motifs in conserved regions of the human genome, including thousands of CTCF insulator sites.

Proc Natl Acad Sci U S A 2007 Apr 18;104(17):7145-50. Epub 2007 Apr 18.

Broad Institute of MIT and Harvard, Massachusetts Institute of Technology and Harvard Medical School, Cambridge, MA 02142, USA.

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http://www.pnas.org/cgi/doi/10.1073/pnas.0701811104
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http://dx.doi.org/10.1073/pnas.0701811104DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1852749PMC
April 2007

A second fatty acid amide hydrolase with variable distribution among placental mammals.

J Biol Chem 2006 Dec 2;281(48):36569-78. Epub 2006 Oct 2.

The Skaggs Institute for Chemical Biology and Departments of Cell Biology and Chemistry, The Scripps Research Institute, La Jolla, California 92037, USA.

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http://dx.doi.org/10.1074/jbc.M606646200DOI Listing
December 2006

System-wide genomic and biochemical comparisons of sialic acid biology among primates and rodents: Evidence for two modes of rapid evolution.

J Biol Chem 2006 Sep 12;281(35):25689-702. Epub 2006 Jun 12.

Glycobiology Research and Training Center, Department of Cellular and Molecular Medicine, University of California San Diego, La Jolla, California 92093-0687, USA.

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http://www.jbc.org/lookup/doi/10.1074/jbc.M604221200
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http://dx.doi.org/10.1074/jbc.M604221200DOI Listing
September 2006

Genome sequence, comparative analysis and haplotype structure of the domestic dog.

Authors:
Kerstin Lindblad-Toh Claire M Wade Tarjei S Mikkelsen Elinor K Karlsson David B Jaffe Michael Kamal Michele Clamp Jean L Chang Edward J Kulbokas Michael C Zody Evan Mauceli Xiaohui Xie Matthew Breen Robert K Wayne Elaine A Ostrander Chris P Ponting Francis Galibert Douglas R Smith Pieter J DeJong Ewen Kirkness Pablo Alvarez Tara Biagi William Brockman Jonathan Butler Chee-Wye Chin April Cook James Cuff Mark J Daly David DeCaprio Sante Gnerre Manfred Grabherr Manolis Kellis Michael Kleber Carolyne Bardeleben Leo Goodstadt Andreas Heger Christophe Hitte Lisa Kim Klaus-Peter Koepfli Heidi G Parker John P Pollinger Stephen M J Searle Nathan B Sutter Rachael Thomas Caleb Webber Jennifer Baldwin Adal Abebe Amr Abouelleil Lynne Aftuck Mostafa Ait-Zahra Tyler Aldredge Nicole Allen Peter An Scott Anderson Claudel Antoine Harindra Arachchi Ali Aslam Laura Ayotte Pasang Bachantsang Andrew Barry Tashi Bayul Mostafa Benamara Aaron Berlin Daniel Bessette Berta Blitshteyn Toby Bloom Jason Blye Leonid Boguslavskiy Claude Bonnet Boris Boukhgalter Adam Brown Patrick Cahill Nadia Calixte Jody Camarata Yama Cheshatsang Jeffrey Chu Mieke Citroen Alville Collymore Patrick Cooke Tenzin Dawoe Riza Daza Karin Decktor Stuart DeGray Norbu Dhargay Kimberly Dooley Kathleen Dooley Passang Dorje Kunsang Dorjee Lester Dorris Noah Duffey Alan Dupes Osebhajajeme Egbiremolen Richard Elong Jill Falk Abderrahim Farina Susan Faro Diallo Ferguson Patricia Ferreira Sheila Fisher Mike FitzGerald Karen Foley Chelsea Foley Alicia Franke Dennis Friedrich Diane Gage Manuel Garber Gary Gearin Georgia Giannoukos Tina Goode Audra Goyette Joseph Graham Edward Grandbois Kunsang Gyaltsen Nabil Hafez Daniel Hagopian Birhane Hagos Jennifer Hall Claire Healy Ryan Hegarty Tracey Honan Andrea Horn Nathan Houde Leanne Hughes Leigh Hunnicutt M Husby Benjamin Jester Charlien Jones Asha Kamat Ben Kanga Cristyn Kells Dmitry Khazanovich Alix Chinh Kieu Peter Kisner Mayank Kumar Krista Lance Thomas Landers Marcia Lara William Lee Jean-Pierre Leger Niall Lennon Lisa Leuper Sarah LeVine Jinlei Liu Xiaohong Liu Yeshi Lokyitsang Tashi Lokyitsang Annie Lui Jan Macdonald John Major Richard Marabella Kebede Maru Charles Matthews Susan McDonough Teena Mehta James Meldrim Alexandre Melnikov Louis Meneus Atanas Mihalev Tanya Mihova Karen Miller Rachel Mittelman Valentine Mlenga Leonidas Mulrain Glen Munson Adam Navidi Jerome Naylor Tuyen Nguyen Nga Nguyen Cindy Nguyen Thu Nguyen Robert Nicol Nyima Norbu Choe Norbu Nathaniel Novod Tenchoe Nyima Peter Olandt Barry O'Neill Keith O'Neill Sahal Osman Lucien Oyono Christopher Patti Danielle Perrin Pema Phunkhang Fritz Pierre Margaret Priest Anthony Rachupka Sujaa Raghuraman Rayale Rameau Verneda Ray Christina Raymond Filip Rege Cecil Rise Julie Rogers Peter Rogov Julie Sahalie Sampath Settipalli Theodore Sharpe Terrance Shea Mechele Sheehan Ngawang Sherpa Jianying Shi Diana Shih Jessie Sloan Cherylyn Smith Todd Sparrow John Stalker Nicole Stange-Thomann Sharon Stavropoulos Catherine Stone Sabrina Stone Sean Sykes Pierre Tchuinga Pema Tenzing Senait Tesfaye Dawa Thoulutsang Yama Thoulutsang Kerri Topham Ira Topping Tsamla Tsamla Helen Vassiliev Vijay Venkataraman Andy Vo Tsering Wangchuk Tsering Wangdi Michael Weiand Jane Wilkinson Adam Wilson Shailendra Yadav Shuli Yang Xiaoping Yang Geneva Young Qing Yu Joanne Zainoun Lisa Zembek Andrew Zimmer Eric S Lander

Nature 2005 Dec;438(7069):803-19

Broad Institute of Harvard and MIT, 320 Charles Street, Cambridge, Massachusetts 02141, USA.

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http://www.nature.com/articles/nature04338
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http://dx.doi.org/10.1038/nature04338DOI Listing
December 2005

A human-specific gene in microglia.

Science 2005 Sep;309(5741):1693

Glycobiology Research and Training Center, University of California at San Diego, La Jolla, CA 92093, USA.

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http://dx.doi.org/10.1126/science.1114321DOI Listing
September 2005

What makes us human?

Genome Biol 2004 27;5(8):238. Epub 2004 Jul 27.

Broad Institute, Massachusetts Institute of Technology and Harvard University, 320 Charles Street, Cambridge, MA 02139, USA.

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http://dx.doi.org/10.1186/gb-2004-5-8-238DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC507872PMC
February 2005

Improving genome annotations using phylogenetic profile anomaly detection.

Bioinformatics 2005 Feb 16;21(4):464-70. Epub 2004 Sep 16.

The Eli & Edythe L. Broad Institute, Massachusetts Institute of Technology and Harvard University 320 Charles Street, Cambridge, MA 02141, USA.

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http://dx.doi.org/10.1093/bioinformatics/bti027DOI Listing
February 2005