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Integrative analysis of 111 reference human epigenomes

Overview of attention for article published in Nature, February 2015
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  • In the top 5% of all research outputs scored by Altmetric
  • High Attention Score compared to outputs of the same age (99th percentile)
  • High Attention Score compared to outputs of the same age and source (90th percentile)

Citations

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5458 Dimensions

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4343 Mendeley
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22 CiteULike
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Title
Integrative analysis of 111 reference human epigenomes
Published in
Nature, February 2015
DOI 10.1038/nature14248
Pubmed ID
Authors

Anshul Kundaje, Wouter Meuleman, Jason Ernst, Misha Bilenky, Angela Yen, Alireza Heravi-Moussavi, Pouya Kheradpour, Zhizhuo Zhang, Jianrong Wang, Michael J. Ziller, Viren Amin, John W. Whitaker, Matthew D. Schultz, Lucas D. Ward, Abhishek Sarkar, Gerald Quon, Richard S. Sandstrom, Matthew L. Eaton, Yi-Chieh Wu, Andreas Pfenning, Xinchen Wang, Melina ClaussnitzerYaping Liu, Cristian Coarfa, R. Alan Harris, Noam Shoresh, Charles B. Epstein, Elizabeta Gjoneska, Danny Leung, Wei Xie, R. David Hawkins, Ryan Lister, Chibo Hong, Philippe Gascard, Andrew J. Mungall, Richard Moore, Eric Chuah, Angela Tam, Theresa K. Canfield, R. Scott Hansen, Rajinder Kaul, Peter J. Sabo, Mukul S. Bansal, Annaick Carles, Jesse R. Dixon, Kai-How Farh, Soheil Feizi, Rosa Karlic, Ah-Ram Kim, Ashwinikumar Kulkarni, Daofeng Li, Rebecca Lowdon, GiNell Elliott, Tim R. Mercer, Shane J. Neph, Vitor Onuchic, Paz Polak, Nisha Rajagopal, Pradipta Ray, Richard C. Sallari, Kyle T. Siebenthall, Nicholas A. Sinnott-Armstrong, Michael Stevens, Robert E. Thurman, Jie Wu, Bo Zhang, Xin Zhou, Nezar Abdennur, Mazhar Adli, Martin Akerman, Luis Barrera, Jessica Antosiewicz-Bourget, Tracy Ballinger, Michael J. Barnes, Daniel Bates, Robert J. A. Bell, David A. Bennett, Katherine Bianco, Christoph Bock, Patrick Boyle, Jan Brinchmann, Pedro Caballero-Campo, Raymond Camahort, Marlene J. Carrasco-Alfonso, Timothy Charnecki, Huaming Chen, Zhao Chen, Jeffrey B. Cheng, Stephanie Cho, Andy Chu, Wen-Yu Chung, Chad Cowan, Qixia Athena Deng, Vikram Deshpande, Morgan Diegel, Bo Ding, Timothy Durham, Lorigail Echipare, Lee Edsall, David Flowers, Olga Genbacev-Krtolica, Casey Gifford, Shawn Gillespie, Erika Giste, Ian A. Glass, Andreas Gnirke, Matthew Gormley, Hongcang Gu, Junchen Gu, David A. Hafler, Matthew J. Hangauer, Manoj Hariharan, Meital Hatan, Eric Haugen, Yupeng He, Shelly Heimfeld, Sarah Herlofsen, Zhonggang Hou, Richard Humbert, Robbyn Issner, Andrew R. Jackson, Haiyang Jia, Peng Jiang, Audra K. Johnson, Theresa Kadlecek, Baljit Kamoh, Mirhan Kapidzic, Jim Kent, Audrey Kim, Markus Kleinewietfeld, Sarit Klugman, Jayanth Krishnan, Samantha Kuan, Tanya Kutyavin, Ah-Young Lee, Kristen Lee, Jian Li, Nan Li, Yan Li, Keith L. Ligon, Shin Lin, Yiing Lin, Jie Liu, Yuxuan Liu, C. John Luckey, Yussanne P. Ma, Cecile Maire, Alexander Marson, John S. Mattick, Michael Mayo, Michael McMaster, Hayden Metsky, Tarjei Mikkelsen, Diane Miller, Mohammad Miri, Eran Mukame, Raman P. Nagarajan, Fidencio Neri, Joseph Nery, Tung Nguyen, Henriette O’Geen, Sameer Paithankar, Thalia Papayannopoulou, Mattia Pelizzola, Patrick Plettner, Nicholas E. Propson, Sriram Raghuraman, Brian J. Raney, Anthony Raubitschek, Alex P. Reynolds, Hunter Richards, Kevin Riehle, Paolo Rinaudo, Joshua F. Robinson, Nicole B. Rockweiler, Evan Rosen, Eric Rynes, Jacqueline Schein, Renee Sears, Terrence Sejnowski, Anthony Shafer, Li Shen, Robert Shoemaker, Mahvash Sigaroudinia, Igor Slukvin, Sandra Stehling-Sun, Ron Stewart, Sai Lakshmi Subramanian, Kran Suknuntha, Scott Swanson, Shulan Tian, Hannah Tilden, Linus Tsai, Mark Urich, Ian Vaughn, Jeff Vierstra, Shinny Vong, Ulrich Wagner, Hao Wang, Tao Wang, Yunfei Wang, Arthur Weiss, Holly Whitton, Andre Wildberg, Heather Witt, Kyoung-Jae Won, Mingchao Xie, Xiaoyun Xing, Iris Xu, Zhenyu Xuan, Zhen Ye, Chia-an Yen, Pengzhi Yu, Xian Zhang, Xiaolan Zhang, Jianxin Zhao, Yan Zhou, Jiang Zhu, Yun Zhu, Steven Ziegler, Arthur E. Beaudet, Laurie A. Boyer, Philip L. De Jager, Peggy J. Farnham, Susan J. Fisher, David Haussler, Steven J. M. Jones, Wei Li, Marco A. Marra, Michael T. McManus, Shamil Sunyaev, James A. Thomson, Thea D. Tlsty, Li-Huei Tsai, Wei Wang, Robert A. Waterland, Michael Q. Zhang, Lisa H. Chadwick, Bradley E. Bernstein, Joseph F. Costello, Joseph R. Ecker, Martin Hirst, Alexander Meissner, Aleksandar Milosavljevic, Bing Ren, John A. Stamatoyannopoulos, Ting Wang, Manolis Kellis

Abstract

The reference human genome sequence set the stage for studies of genetic variation and its association with human disease, but epigenomic studies lack a similar reference. To address this need, the NIH Roadmap Epigenomics Consortium generated the largest collection so far of human epigenomes for primary cells and tissues. Here we describe the integrative analysis of 111 reference human epigenomes generated as part of the programme, profiled for histone modification patterns, DNA accessibility, DNA methylation and RNA expression. We establish global maps of regulatory elements, define regulatory modules of coordinated activity, and their likely activators and repressors. We show that disease- and trait-associated genetic variants are enriched in tissue-specific epigenomic marks, revealing biologically relevant cell types for diverse human traits, and providing a resource for interpreting the molecular basis of human disease. Our results demonstrate the central role of epigenomic information for understanding gene regulation, cellular differentiation and human disease.

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X Demographics

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Mendeley readers

Mendeley readers

The data shown below were compiled from readership statistics for 4,343 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
United States 58 1%
United Kingdom 20 <1%
Germany 19 <1%
Netherlands 10 <1%
Spain 10 <1%
Japan 9 <1%
Canada 9 <1%
Brazil 8 <1%
Italy 6 <1%
Other 50 1%
Unknown 4144 95%

Demographic breakdown

Readers by professional status Count As %
Student > Ph. D. Student 1163 27%
Researcher 921 21%
Student > Master 390 9%
Student > Bachelor 344 8%
Student > Doctoral Student 214 5%
Other 685 16%
Unknown 626 14%
Readers by discipline Count As %
Agricultural and Biological Sciences 1301 30%
Biochemistry, Genetics and Molecular Biology 1274 29%
Medicine and Dentistry 339 8%
Computer Science 201 5%
Neuroscience 106 2%
Other 365 8%
Unknown 757 17%
Attention Score in Context

Attention Score in Context

This research output has an Altmetric Attention Score of 439. This is our high-level measure of the quality and quantity of online attention that it has received. This Attention Score, as well as the ranking and number of research outputs shown below, was calculated when the research output was last mentioned on 16 March 2024.
All research outputs
#64,332
of 25,401,381 outputs
Outputs from Nature
#4,999
of 97,883 outputs
Outputs of similar age
#625
of 269,021 outputs
Outputs of similar age from Nature
#91
of 986 outputs
Altmetric has tracked 25,401,381 research outputs across all sources so far. Compared to these this one has done particularly well and is in the 99th percentile: it's in the top 5% of all research outputs ever tracked by Altmetric.
So far Altmetric has tracked 97,883 research outputs from this source. They typically receive a lot more attention than average, with a mean Attention Score of 102.4. This one has done particularly well, scoring higher than 94% of its peers.
Older research outputs will score higher simply because they've had more time to accumulate mentions. To account for age we can compare this Altmetric Attention Score to the 269,021 tracked outputs that were published within six weeks on either side of this one in any source. This one has done particularly well, scoring higher than 99% of its contemporaries.
We're also able to compare this research output to 986 others from the same source and published within six weeks on either side of this one. This one has done particularly well, scoring higher than 90% of its contemporaries.