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1

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

Lindblad-Toh, Kerstin, Wade, Claire M, Mikkelsen, Tarjei S., Karlsson, Elinor K., Jaffe, David B., Kamal, Michael, Clamp, Michele, Chang, Jean L., Kulbokas, Edward J., Zody, Michael C.

Journal:

Year:

2005

Language:

english

File:

PDF, 1.18 MB

english, 2005

2

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

Tewhey, Ryan, Kotliar, Dylan, Park, Daniel S., Liu, Brandon, Winnicki, Sarah, Reilly, Steven K., Andersen, Kristian G., Mikkelsen, Tarjei S., Lander, Eric S., Schaffner, Stephen F., Sabeti, Pardis C.

Journal:

Year:

2018

Language:

english

File:

PDF, 2.39 MB

english, 2018

3

A Bivalent Chromatin Structure Marks Key Developmental Genes in Embryonic Stem Cells

Bradley E. Bernstein, Tarjei S. Mikkelsen, Xiaohui Xie, Michael Kamal, Dana J. Huebert, James Cuff, Ben Fry, Alex Meissner, Marius Wernig, Kathrin Plath, Rudolf Jaenisch, Alexandre Wagschal, Robert Fe

Journal:

Year:

2006

Language:

english

File:

PDF, 720 KB

english, 2006

4

What makes us human?

Tarjei S Mikkelsen

Journal:

Year:

2004

Language:

english

File:

PDF, 61 KB

english, 2004

5

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

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

Journal:

Nature Biotechnology

Year:

2014

Language:

english

File:

PDF, 1.77 MB

english, 2014

6

The DAILY (Daily Automated Intensive Log for Youth) Trial: A Wireless, Portable System to Improve Adherence and Glycemic Control in Youth with Diabetes

Kumar, Vikram S., Wentzell, Katherine J., Mikkelsen, Tarjei, Pentland, Alex, Laffel, Lori M.

Journal:

Diabetes Technology & Therapeutics

Year:

2004

Language:

english

File:

PDF, 435 KB

english, 2004

7

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

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

Journal:

Year:

2007

Language:

english

File:

PDF, 485 KB

english, 2007

8

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

Mikkelsen, Tarjei S., Ku, Manching, Jaffe, David B., Issac, Biju, Lieberman, Erez, Giannoukos, Georgia, Alvarez, Pablo, Brockman, William, Kim, Tae-Kyung, Koche, Richard P.

Journal:

Year:

2007

Language:

english

File:

PDF, 577 KB

english, 2007

9

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

Ernst, Jason, Kheradpour, Pouya, Mikkelsen, Tarjei S., Shoresh, Noam, Ward, Lucas D., Epstein, Charles B., Zhang, Xiaolan, Wang, Li, Issner, Robbyn, Coyne, Michael

Journal:

Year:

2011

Language:

english

File:

PDF, 688 KB

english, 2011

10

High-Resolution Mapping Reveals a Conserved, Widespread, Dynamic mRNA Methylation Program in Yeast Meiosis

Schwartz, Schraga, Agarwala, Sudeep D., Mumbach, Maxwell R., Jovanovic, Marko, Mertins, Philipp, Shishkin, Alexander, Tabach, Yuval, Mikkelsen, Tarjei S., Satija, Rahul, Ruvkun, Gary, Carr, Steven A.,

Journal:

Year:

2013

Language:

english

File:

PDF, 1.78 MB

english, 2013

11

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

Ulirsch, Jacob C., Nandakumar, Satish K., Wang, Li, Giani, Felix C., Zhang, Xiaolan, Rogov, Peter, Melnikov, Alexandre, McDonel, Patrick, Do, Ron, Mikkelsen, Tarjei S., Sankaran, Vijay G.

Journal:

Year:

2016

Language:

english

File:

PDF, 2.86 MB

english, 2016

12

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

Tewhey, Ryan, Kotliar, Dylan, Park, Daniel S., Liu, Brandon, Winnicki, Sarah, Reilly, Steven K., Andersen, Kristian G., Mikkelsen, Tarjei S., Lander, Eric S., Schaffner, Stephen F., Sabeti, Pardis C.

Journal:

Year:

2016

Language:

english

File:

PDF, 3.87 MB

english, 2016

13

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

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

Journal:

Nature Biotechnology

Year:

2016

Language:

english

File:

PDF, 4.39 MB

english, 2016

14

Solving nonlinear polynomial systems in the barycentric Bernstein basis

Martin Reuter, Tarjei S. Mikkelsen, Evan C. Sherbrooke, Takashi Maekawa, Nicholas M. Patrikalakis

Journal:

The Visual Computer

Year:

2008

Language:

english

File:

PDF, 379 KB

english, 2008

15

DNA sequence and analysis of human chromosome 8

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.

Journal:

Year:

2006

Language:

english

File:

PDF, 302 KB

english, 2006

16

Dissecting direct reprogramming through integrative genomic analysis

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

Journal:

Year:

2008

Language:

english

File:

PDF, 717 KB

english, 2008

17

Genome-scale DNA methylation maps of pluripotent and differentiated cells

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

Journal:

Year:

2008

Language:

english

File:

PDF, 3.06 MB

english, 2008

18

Dissecting direct reprogramming through integrative genomic analysis

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

Journal:

Year:

2008

File:

PDF, 56 KB

2008

19

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

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

Journal:

Year:

2010

Language:

english

File:

PDF, 330 KB

english, 2010

20

Integrative Genomics Identifies the Corepressor SMRT as a Gatekeeper of Adipogenesis through the Transcription Factors C/EBPβ and KAISO

Sunil K. Raghav, Sebastian M. Waszak, Irina Krier, Carine Gubelmann, Alina Isakova, Tarjei S. Mikkelsen, Bart Deplancke

Journal:

Year:

2012

Language:

english

File:

PDF, 2.01 MB

english, 2012

21

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

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

Journal:

Year:

2012

Language:

english

File:

PDF, 927 KB

english, 2012

22

Comparative Epigenomic Analysis of Murine and Human Adipogenesis

Tarjei S. Mikkelsen, Zhao Xu, Xiaolan Zhang, Li Wang, Jeffrey M. Gimble, Eric S. Lander, Evan D. Rosen

Journal:

Year:

2010

Language:

english

File:

PDF, 1.48 MB

english, 2010

23

Convergent and divergent evolution of genomic imprinting in the marsupialMonodelphis domestica

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

Journal:

Year:

2012

Language:

english

File:

PDF, 972 KB

english, 2012

24

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

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

Journal:

Year:

2014

Language:

english

File:

PDF, 993 KB

english, 2014

25

Mapping Epigenomes

Mikkelsen, Tarjei

Journal:

Biophysical Journal

Year:

2009

Language:

english

File:

PDF, 52 KB

english, 2009

26

Editorial Board

Mikkelsen, Tarjei

Journal:

Accounting, Management and Information Technologies

Year:

1992

Language:

english

File:

PDF, 93 KB

english, 1992

27

The Regulatory Landscape of Osteogenic Differentiation

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

Journal:

Year:

2014

Language:

english

File:

PDF, 1.51 MB

english, 2014

28

microRNA-140 Targets RALA and Regulates Chondrogenic Differentiation of Human Mesenchymal Stem Cells by Translational Enhancement of SOX9 and ACAN

Karlsen, Tommy A., Jakobsen, Rune B., Mikkelsen, Tarjei S., Brinchmann, Jan E.

Journal:

Stem Cells and Development

Year:

2014

Language:

english

File:

PDF, 949 KB

english, 2014

29

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

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.

Journal:

Nature Cell Biology

Year:

2014

Language:

english

File:

PDF, 5.23 MB

english, 2014

30

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

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

Journal:

Year:

2014

Language:

english

File:

PDF, 2.43 MB

english, 2014

31

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

Markljung, Ellen, Jiang, Lin, Jaffe, Jacob D., Mikkelsen, Tarjei S., Wallerman, Ola, Larhammar, Martin, Zhang, Xiaolan, Wang, Li, Saenz-Vash, Veronica, Gnirke, Andreas, Lindroth, Anders M., Barrés, Ro

Journal:

Year:

2009

Language:

english

File:

PDF, 3.72 MB

english, 2009

32

The Case for Selection at CCR5-Δ32

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,

Journal:

Year:

2005

Language:

english

File:

PDF, 1.02 MB

english, 2005

33

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

Ku, Manching, Koche, Richard P., Rheinbay, Esther, Mendenhall, Eric M., Endoh, Mitsuhiro, Mikkelsen, Tarjei S., Presser, Aviva, Nusbaum, Chad, Xie, Xiaohui, Chi, Andrew S., Adli, Mazhar, Kasif, Simon,

Journal:

Year:

2008

Language:

english

File:

PDF, 865 KB

english, 2008

34

A distant trophoblast-specific enhancer controls HLA-G expression at the maternal–fetal interface

Ferreira, Leonardo M. R., Meissner, Torsten B., Mikkelsen, Tarjei S., Mallard, William, O’Donnell, Charles W., Tilburgs, Tamara, Gomes, Hannah A. B., Camahort, Raymond, Sherwood, Richard I., Gifford,

Journal:

Proceedings of the National Academy of Sciences

Year:

2016

Language:

english

File:

PDF, 1.07 MB

english, 2016

35

Early Lineage Bifurcation during Differentiation of Embryonic Stem Cells Revealed by Single-Cell Transcriptomics

Semrau, Stefan, Goldmann, Johanna, Soumillon, Magali, Mikkelsen, Tarjei, Jaenisch, Rudolf, van Oudenaarden, Alexander

Journal:

Biophysical Journal

Year:

2015

Language:

english

File:

PDF, 40 KB

english, 2015

36

Simultaneous Pathway Activity Inference and Gene Expression Analysis Using RNA Sequencing

O’Connell, Daniel J., Kolde, Raivo, Sooknah, Matthew, Graham, Daniel B., Sundberg, Thomas B., Latorre, Isabel J., Mikkelsen, Tarjei S., Xavier, Ramnik J.

Journal:

Year:

2016

Language:

english

File:

PDF, 3.42 MB

english, 2016

37

NIH Public Access

Guttman, Mitchell, Amit, Ido, Garber, Manuel, French, Courtney, Lin, Michael F, Huarte, Maite, Zuk, Or, Carey, Bryce W, Cassady, John P, Moran, N, Jaenisch, Rudolf, Mikkelsen, Tarjei S, Jacks, Tyler,

Year:

2009

Language:

english

File:

PDF, 2.00 MB

english, 2009

38

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

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

Journal:

Nucleic Acids Research

Year:

2016

Language:

english

File:

PDF, 794 KB

english, 2016

39

Systematic dissection of genomic features determining transcription factor binding and enhancer function

Grossman, Sharon R., Zhang, Xiaolan, Wang, Li, Engreitz, Jesse, Melnikov, Alexandre, Rogov, Peter, Tewhey, Ryan, Isakova, Alina, Deplancke, Bart, Bernstein, Bradley E., Mikkelsen, Tarjei S., Lander, E

Journal:

Proceedings of the National Academy of Sciences

Year:

2017

Language:

english

File:

PDF, 1.10 MB

english, 2017

40

Massively Parallel Reporter Assays in Cultured Mammalian Cells

Melnikov, Alexandre, Zhang, Xiaolan, Rogov, Peter, Wang, Li, Mikkelsen, Tarjei S.

Journal:

Journal of Visualized Experiments

Year:

2014

Language:

english

File:

PDF, 335 KB

english, 2014

41

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

Kadoki, Motohiko, Patil, Ashwini, Thaiss, Cornelius C., Brooks, Donald J., Pandey, Surya, Deep, Deeksha, Alvarez, David, von Andrian, Ulrich H., Wagers, Amy J., Nakai, Kenta, Mikkelsen, Tarjei S., Sou

Journal:

Year:

2017

Language:

english

File:

PDF, 9.87 MB

english, 2017

42

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

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

Journal:

Nature Communications

Year:

2017

Language:

english

File:

PDF, 1.80 MB

english, 2017

43

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

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

Journal:

Nucleic Acids Research

Year:

2017

Language:

english

File:

PDF, 349 KB

english, 2017

44

Identification of Functional Variants in the FAM13A COPD GWAS Locus by Massively Parallel Reporter Assays

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

Journal:

American Journal of Respiratory and Critical Care Medicine

Year:

2018

Language:

english

File:

PDF, 3.71 MB

english, 2018

45

Defining the human C2H2 zinc finger degrome targeted by thalidomide analogs through CRBN

Sievers, Quinlan L., Petzold, Georg, Bunker, Richard D., Renneville, Aline, Słabicki, Mikołaj, Liddicoat, Brian J., Abdulrahman, Wassim, Mikkelsen, Tarjei, Ebert, Benjamin L., Thomä, Nicolas H.

Journal:

Year:

2018

Language:

english

File:

PDF, 2.61 MB

english, 2018

46

Loss of DNA methyltransferase activity in primed human ES cells triggers increased cell-cell variability and transcriptional repression

Tsankov, Alexander M., Wadsworth, Marc H., Akopian, Veronika, Charlton, Jocelyn, Allon, Samuel J., Arczewska, Aleksandra, Mead, Benjamin E., Drake, Riley S., Smith, Zachary D., Mikkelsen, Tarjei S., S

Journal:

Development (The Company of Biologists)

Year:

2019

File:

PDF, 4.50 MB

2019