Works by Mikkelsen, Tarjei S.

Results: 34

ZBED6, a Novel Transcription Factor Derived from a Domesticated DNA Transposon Regulates IGF2 Expression and Muscle Growth.

Published in:

PLoS Biology, 2009, v. 7, n. 12, p. 1, doi. 10.1371/journal.pbio.1000256

By:

Markljung, Ellen;
Lin Jiang;
Jaffe, Jacob D.;
Mikkelsen, Tarjei S.;
Wallerman, Ola;
Larhammar, Martin;
Xiaolan Zhang;
Li Wang;
Saenz-Vash, Veronica;
Gnirke, Andreas;
Lindroth, Anders M.;
Barrés, Romain;
Jie Yan;
Strömberg, Sara;
De, Sachinandan;
Pontén, Fredrik;
Lander, Eric S.;
Carr, Steven A.;
Zierath, Juleen R.;
Kullander, Klas

Publication type:

Article

The Case for Selection at CCR5-Δ32.

Published in:

PLoS Biology, 2005, v. 3, n. 11, p. 1963, doi. 10.1371/journal.pbio.0030378

By:

Sabeti, Pardis C.;
Walsh, Emily;
Schaffner, Steve F.;
Varilly, Patrick;
Fry, Ben;
Hutcheson, Holli B.;
Cullen, Mike;
Mikkelsen, Tarjei S.;
Roy, Jessica;
Patterson, Nick;
Cooper, Richard;
Reich, David;
Altshuler, David;
O'Brien, Stephen;
Lander, Eric S.

Publication type:

Article

Enhanced methods for unbiased deep sequencing of Lassa and Ebola RNA viruses from clinical and biological samples.

Published in:

Genome Biology, 2014, v. 15, n. 10, p. 519, doi. 10.1186/s13059-014-0519-7

By:

Matranga, Christian B.;
Andersen, Kristian G.;
Winnicki, Sarah;
Busby, Michele;
Gladden, Adrianne D.;
Tewhey, Ryan;
Stremlau, Matthew;
Berlin, Aaron;
Gire, Stephen K.;
England, Eleina;
Moses, Lina M.;
Mikkelsen, Tarjei S.;
Odia, Ikponmwonsa;
Ehiane, Philomena E.;
Folarin, Onikepe;
Goba, Augustine;
Grant, Donald S.;
Honko, Anna;
Hensley, Lisa;
Happi, Christian

Publication type:

Article

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

Published in:

Nature Cell Biology, 2015, v. 17, n. 1, p. 44, doi. 10.1038/ncb3080

By:

Kang, Sona;
Tsai, Linus T.;
Zhou, Yiming;
Evertts, Adam;
Xu, Su;
Griffin, Michael J.;
Issner, Robbyn;
Whitton, Holly J.;
Garcia, Benjamin A.;
Epstein, Charles B.;
Mikkelsen, Tarjei S.;
Rosen, Evan D.

Publication type:

Article

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

Published in:

Nature Communications, 2017, v. 8, n. 1, p. 1, doi. 10.1038/s41467-017-01076-4

By:

Semrau, Stefan;
Goldmann, Johanna E.;
Soumillon, Magali;
Mikkelsen, Tarjei S.;
Jaenisch, Rudolf;
van Oudenaarden, Alexander

Publication type:

Article

Identification of Functional Variants in the FAM13A Chronic Obstructive Pulmonary Disease Genome-Wide Association Study Locus by Massively Parallel Reporter Assays.

Published in:

2019

By:

Castaldi, Peter J;
Guo, Feng;
Qiao, Dandi;
Du, Fei;
Naing, Zun Zar Chi;
Li, Yan;
Pham, Betty;
Mikkelsen, Tarjei S;
Cho, Michael H;
Silverman, Edwin K;
Zhou, Xiaobo

Publication type:

journal article

Genome-wide map of quantified epigenetic changes during in vitro chondrogenic differentiation of primary human mesenchymal stem cells.

Published in:

BMC Genomics, 2013, v. 14, n. 1, p. 1, doi. 10.1186/1471-2164-14-105

By:

Herlofsen, Sarah R.;
Bryne, Jan Christian;
Høiby, Torill;
Li Wang;
Issner, Robbyn;
Xiaolan Zhang;
Coyne, Michael J.;
Boyle, Patrick;
Hongcang Gu;
Meza-Zepeda, Leonardo A.;
Collas, Philippe;
Mikkelsen, Tarjei S.;
Brinchmann, Jan E.

Publication type:

Article

Convergent and divergent evolution of genomic imprinting in the marsupial Monodelphis domestica.

Published in:

BMC Genomics, 2012, v. 13, n. 1, p. 394, doi. 10.1186/1471-2164-13-394

By:

Das, Radhika;
Anderson, Nathan;
Koran, MaryEllen I.;
Weidman, Jennifer R.;
Mikkelsen, Tarjei S.;
Kamal, Michael;
Murphy, Susan K.;
Linblad-Toh, Kerstin;
Greally, John M.;
Jirtle, Randy L.

Publication type:

Article

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

Published in:

Nature, 2012, v. 484, n. 7394, p. 339, doi. 10.1038/nature10960

By:

Smith, Zachary D.;
Chan, Michelle M.;
Mikkelsen, Tarjei S.;
Gu, Hongcang;
Gnirke, Andreas;
Regev, Aviv;
Meissner, Alexander

Publication type:

Article

Mapping and analysis of chromatin state dynamics in nine human cell types.

Published in:

Nature, 2011, v. 473, n. 7345, p. 43, doi. 10.1038/nature09906

By:

Ernst, Jason;
Kheradpour, Pouya;
Mikkelsen, Tarjei S.;
Shoresh, Noam;
Ward, Lucas D.;
Epstein, Charles B.;
Zhang, Xiaolan;
Wang, Li;
Issner, Robbyn;
Coyne, Michael;
Ku, Manching;
Durham, Timothy;
Kellis, Manolis;
Bernstein, Bradley E.

Publication type:

Article

Chromatin signature reveals over a thousand highly conserved large non-coding RNAs in mammals.

Published in:

2009

By:

Guttman, Mitchell;
Amit, Ido;
Garber, Manuel;
French, Courtney;
Lin, Michael F.;
Feldser, David;
Huarte, Maite;
Zuk, Or;
Carey, Bryce W.;
Cassady, John P.;
Cabili, Moran N.;
Jaenisch, Rudolf;
Mikkelsen, Tarjei S.;
Jacks, Tyler;
Hacohen, Nir;
Bernstein, Bradley E.;
Kellis, Manolis;
Regev, Aviv;
Rinn, John L.;
Lander, Eric S.

Publication type:

Letter

Dissecting neural differentiation regulatory networks through epigenetic footprinting.

Published in:

Nature, 2015, v. 518, n. 7539, p. 355, doi. 10.1038/nature13990

By:

Ziller, Michael J.;
Edri, Reuven;
Yaffe, Yakey;
Donaghey, Julie;
Pop, Ramona;
Mallard, William;
Issner, Robbyn;
Gifford, Casey A.;
Goren, Alon;
Xing, Jeffrey;
Gu, Hongcang;
Cacchiarelli, Davide;
Tsankov, Alexander M.;
Epstein, Charles;
Rinn, John L.;
Mikkelsen, Tarjei S.;
Kohlbacher, Oliver;
Gnirke, Andreas;
Bernstein, Bradley E.;
Elkabetz, Yechiel

Publication type:

Article

Improving genome annotations using phylogenetic profile anomaly detection.

Published in:

Bioinformatics, 2005, v. 21, n. 4, p. 464, doi. 10.1093/bioinformatics/bti027

By:

Mikkelsen, Tarjei S.;
Galagan, James E.;
Mesirov, Jill P.

Publication type:

Article

Combinatorial single-cell CRISPR screens by direct guide RNA capture and targeted sequencing.

Published in:

Nature Biotechnology, 2020, v. 38, n. 8, p. 954, doi. 10.1038/s41587-020-0470-y

By:

Replogle, Joseph M.;
Norman, Thomas M.;
Xu, Albert;
Hussmann, Jeffrey A.;
Chen, Jin;
Cogan, J. Zachery;
Meer, Elliott J.;
Terry, Jessica M.;
Riordan, Daniel P.;
Srinivas, Niranjan;
Fiddes, Ian T.;
Arthur, Joseph G.;
Alvarado, Luigi J.;
Pfeiffer, Katherine A.;
Mikkelsen, Tarjei S.;
Weissman, Jonathan S.;
Adamson, Britt

Publication type:

Article

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

Published in:

Nature Biotechnology, 2016, v. 34, n. 11, p. 1180, doi. 10.1038/nbt.3678

By:

Ernst, Jason;
Melnikov, Alexandre;
Zhang, Xiaolan;
Wang, Li;
Rogov, Peter;
Mikkelsen, Tarjei S;
Kellis, Manolis

Publication type:

Article

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

Published in:

Nature Biotechnology, 2014, v. 32, n. 4, p. 381, doi. 10.1038/nbt.2859

By:

Trapnell, Cole;
Cacchiarelli, Davide;
Grimsby, Jonna;
Pokharel, Prapti;
Li, Shuqiang;
Morse, Michael;
Lennon, Niall J;
Livak, Kenneth J;
Mikkelsen, Tarjei S;
Rinn, John L

Publication type:

Article

Systematic dissection and optimization of inducible enhancers in human cells using a massively parallel reporter assay.

Published in:

Nature Biotechnology, 2012, v. 30, n. 3, p. 271, doi. 10.1038/nbt.2137

By:

Melnikov, Alexandre;
Murugan, Anand;
Zhang, Xiaolan;
Tesileanu, Tiberiu;
Wang, Li;
Rogov, Peter;
Feizi, Soheil;
Gnirke, Andreas;
Callan, Curtis G;
Kinney, Justin B;
Kellis, Manolis;
Lander, Eric S;
Mikkelsen, Tarjei S

Publication type:

Article

Registry in a tube: multiplexed pools of retrievable parts for genetic design space exploration.

Published in:

Nucleic Acids Research, 2017, v. 45, n. 3, p. 1553, doi. 10.1093/nar/gkw1226

By:

Woodruff, Lauren B. A.;
Gorochowski, Thomas E.;
Roehner, Nicholas;
Mikkelsen, Tarjei S.;
Densmore, Douglas;
Gordon, D. Benjamin;
Nicol, Robert;
Voigt, Christopher A.

Publication type:

Article

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

Published in:

Nucleic Acids Research, 2014, v. 42, n. 14, p. e112, doi. 10.1093/nar/gku511

By:

Melnikov, Alexandre;
Rogov, Peter;
Wang, Li;
Gnirke, Andreas;
Mikkelsen, Tarjei S.

Publication type:

Article

Genome-scale DNA methylation maps of pluripotent and differentiated cells.

Published in:

Nature, 2008, v. 454, n. 7205, p. 766, doi. 10.1038/nature07107

By:

Meissner, Alexander;
Mikkelsen, Tarjei S.;
Hongcang Gu;
Wernig, Marius;
Hanna, Jacob;
Sivachenko, Andrey;
Xiaolan Zhang;
Bernstein, Bradley E.;
Nusbaum, Chad;
Jaffe, David B.;
Gnirke, Andreas;
Jaenisch, Rudolf;
Lander, Eric S.

Publication type:

Article

Dissecting direct reprogramming through integrative genomic analysis.

Published in:

2008

By:

Mikkelsen, Tarjei S.;
Hanna, Jacob;
Zhang, Xiaolan;
Ku, Manching;
Wernig, Marius;
Schorderet, Patrick;
Bernstein, Bradley E.;
Jaenisch, Rudolf;
Lander, Eric S.;
Meissner, Alexander

Publication type:

Correction Notice

Dissecting direct reprogramming through integrative genomic analysis.

Published in:

Nature, 2008, v. 454, n. 7200, p. 49, doi. 10.1038/nature07056

By:

Mikkelsen, Tarjei S.;
Hanna, Jacob;
Zhang, Xiaolan;
Ku, Manching;
Wernig, Marius;
Schorderet, Patrick;
Bernstein, Bradley E.;
Jaenisch, Rudolf;
Lander, Eric S.;
Meissner, Alexander

Publication type:

Article

Genome-wide maps of chromatin state in pluripotent and lineage-committed cells.

Published in:

Nature, 2007, v. 448, n. 7153, p. 553, doi. 10.1038/nature06008

By:

Mikkelsen, Tarjei S.;
Ku, Manching;
Jaffe, David B.;
Issac, Biju;
Lieberman, Erez;
Giannoukos, Georgia;
Alvarez, Pablo;
Brockman, William;
Tae-Kyung Kim;
Koche, Richard P.;
Lee, William;
Mendenhall, Eric;
O'Donovan, Aisling;
Presser, Aviva;
Russ, Carsten;
Xiaohui Xie;
Meissner, Alexander;
Wernig, Marius;
Jaenisch, Rudolf;
Nusbaum, Chad

Publication type:

Article

Genome of the marsupial Monodelphis domestica reveals innovation in non-coding sequences.

Published in:

Nature, 2007, v. 447, n. 7141, p. 167, doi. 10.1038/nature05805

By:

Mikkelsen, Tarjei S.;
Wakefield, Matthew J.;
Aken, Bronwen;
Amemiya, Chris T.;
Chang, Jean L.;
Duke, Shannon;
Garber, Manuel;
Gentles, Andrew J.;
Goodstadt, Leo;
Heger, Andreas;
Jurka, Jerzy;
Kamal, Michael;
Mauceli, Evan;
Searle, Stephen M. J.;
Sharpe, Ted;
Baker, Michelle L.;
Batzer, Mark A.;
Benos, Panayiotis V.;
Belov, Katherine;
Clamp, Michele

Publication type:

Article

DNA sequence and analysis of human chromosome 8.

Published in:

Nature, 2006, v. 439, n. 7074, p. 331, doi. 10.1038/nature04406

By:

Nusbaum, Chad;
Mikkelsen, Tarjei S.;
Zody, Michael C.;
Asakawa, Shuichi;
Taudien, Stefan;
Garber, Manuel;
Kodira, Chinnappa D.;
Schueler, Mary G.;
Shimizu, Atsushi;
Whittaker, Charles A.;
Chang, Jean L.;
Cuomo, Christina A.;
Dewar, Ken;
FitzGerald, Michael G.;
Xiaoping Yang;
Allen, Nicole R.;
Anderson, Scott;
Asakawa, Teruyo;
Blechschmidt, Karin;
Bloom, Toby

Publication type:

Article

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

Published in:

Nature, 2005, v. 438, n. 7069, p. 803, doi. 10.1038/nature04338

By:

Lindblad-Toh, Kerstin;
Wade, Claire M;
Mikkelsen, Tarjei S.;
Karlsson, Elinor K.;
Jaffe, David B.;
Kamal, Michael;
Clamp, Michele;
Chang, Jean L.;
Kulbokas III, Edward J.;
Zody, Michael C.;
Mauceli, Evan;
Xiaohui Xie;
Breen, Matthew;
Wayne, Robert K.;
Ostrander, Elaine A.;
Ponting, Chris P.;
Galibert, Francis;
Smith, Douglas R.;
deJong, Pieter J.;
Kirkness, Ewen

Publication type:

Article

Analysis of the Effects of Five Factors Relevant to <i>In Vitro</i> Chondrogenesis of Human Mesenchymal Stem Cells Using Factorial Design and High Throughput mRNA-Profiling.

Published in:

PLoS ONE, 2014, v. 9, n. 5, p. 1, doi. 10.1371/journal.pone.0096615

By:

Jakobsen, Rune B.;
Østrup, Esben;
Zhang, Xiaolan;
Mikkelsen, Tarjei S.;
Brinchmann, Jan E.

Publication type:

Article

ZBED6 Modulates the Transcription of Myogenic Genes in Mouse Myoblast Cells.

Published in:

PLoS ONE, 2014, v. 9, n. 4, p. 1, doi. 10.1371/journal.pone.0094187

By:

Jiang, Lin;
Wallerman, Ola;
Younis, Shady;
Rubin, Carl-Johan;
Gilbert, Elizabeth R.;
Sundström, Elisabeth;
Ghazal, Awaisa;
Zhang, Xiaolan;
Wang, Li;
Mikkelsen, Tarjei S.;
Andersson, Göran;
Andersson, Leif

Publication type:

Article

Altered Chromatin Occupancy of Master Regulators Underlies Evolutionary Divergence in the Transcriptional Landscape of Erythroid Differentiation.

Published in:

PLoS Genetics, 2014, v. 10, n. 12, p. 1, doi. 10.1371/journal.pgen.1004890

By:

Ulirsch, Jacob C.;
Lacy, Jessica N.;
An, Xiuli;
Mohandas, Narla;
Mikkelsen, Tarjei S.;
Sankaran, Vijay G.

Publication type:

Article

The NIH Roadmap Epigenomics Mapping Consortium.

Published in:

Nature Biotechnology, 2010, v. 28, n. 10, p. 1045, doi. 10.1038/nbt1010-1045

By:

Bernstein, Bradley E.;
Stamatoyannopoulos, John A.;
Costello, Joseph F.;
Ren, Bing;
Milosavljevic, Aleksandar;
Meissner, Alexander;
Kellis, Manolis;
Marra, Marco A.;
Beaudet, Arthur L.;
Ecker, Joseph R.;
Farnham, Peggy J.;
Hirst, Martin;
Lander, Eric S.;
Mikkelsen, Tarjei S.;
Thomson, James A.

Publication type:

Article

The Regulatory Landscape of Osteogenic Differentiation.

Published in:

Stem Cells, 2014, v. 32, n. 10, p. 2780, doi. 10.1002/stem.1759

By:

Håkelien, Anne-Mari;
Bryne, Jan Christian;
Harstad, Kristine G.;
Lorenz, Susanne;
Paulsen, Jonas;
Sun, Jinchang;
Mikkelsen, Tarjei S.;
Myklebost, Ola;
Meza-Zepeda, Leonardo A.

Publication type:

Article

Brief Report: Importance of SOX8 for In Vitro Chondrogenic Differentiation of Human Mesenchymal Stromal Cells.

Published in:

Stem Cells, 2014, v. 32, n. 6, p. 1629, doi. 10.1002/stem.1642

By:

Herlofsen, Sarah R.;
Høiby, Torill;
Cacchiarelli, Davide;
Zhang, Xiaolan;
Mikkelsen, Tarjei S.;
Brinchmann, Jan E.

Publication type:

Article

Genome-scale DNA methylation mapping of clinical samples at single-nucleotide resolution.

Published in:

Nature Methods, 2010, v. 7, n. 2, p. 133, doi. 10.1038/nmeth.1414

By:

Hongcang Gu;
Bock, Christoph;
Mikkelsen, Tarjei S.;
J.äger, Natalie;
Smith, Zachary D.;
Tomazou, Eleni;
Gnirke, Andreas;
Lander, Eric S.;
Meissner, Alexander

Publication type:

Article

Genomewide Analysis of PRC1 and PRC2 Occupancy Identifies Two Classes of Bivalent Domains.

Published in:

PLoS Genetics, 2008, v. 4, n. 10, p. 1, doi. 10.1371/journal.pgen.1000242

By:

Manching Ku;
Koche, Richard P.;
Rheinbay, Esther;
Mendenhall, Eric M.;
Endoh, Mitsuhiro;
Mikkelsen, Tarjei S.;
Presser, Aviva;
Nusbaum, Chad;
Xiaohui Xie;
Chi, Andrew S.;
Adli, Mazhar;
Kasif, Simon;
Ptaszek, Leon M.;
Cowan, Chad A.;
Lander, Eric S.;
Koseki, Haruhiko;
Bernstein, Bradley E.

Publication type:

Article