ENCODE linksets
Architecture of the human regulatory network derived from ENCODE data.
Mark B. Gerstein, Anshul Kundaje, Manoj Hariharan, Stephen G. Landt, Koon-Kiu Yan, Chao Cheng, Xinmeng Jasmine Mu, Ekta Khurana, Joel Rozowsky, Roger Alexander, Renqiang Min, Pedro Alves, Alexej Abyzov, Nick Addleman, Nitin Bhardwaj, Alan P. Boyle, Philip Cayting, Alexandra Charos, David Z. Chen, Yong Cheng, Declan Clarke, Catharine Eastman, Ghia Euskirchen, Seth Frietze, Yao Fu, Jason Gertz, Fabian Grubert, Arif Harmanci, Preti Jain, Maya Kasowski, Phil Lacroute, Jing Leng, Jin Lian, Hannah Monahan, Henriette O’Geen, Zhengqing Ouyang, E. Christopher Partridge, Dorrelyn Patacsil, Florencia Pauli, Debasish Raha, Lucia Ramirez, Timothy E. Reddy, Brian Reed, Minyi Shi, Teri Slifer, Jing Wang, Linfeng Wu, Xinqiong Yang, Kevin Y. Yip, Gili Zilberman-Schapira, Serafim Batzoglou, Arend Sidow, Peggy J. Farnham, Richard M. Myers, Sherman M. Weissman, Michael Snyder.
Nature (1012) 489(7414), 91.
doi: 10.1038/nature11245
Supplementary data available on: encodenets.gersteinlab.org/
ENCODE 2015
The database content was downloaded from here.
| Linkset | Species | Interactions | TFs | Target genes | Supported gene identifiers |
|---|---|---|---|---|---|
| encode-proximal-2012.xgmml.zip | Homo sapiens (hsa) | 24,111 | 115 | 8,253 | NCBI Gene, Ensembl, UniProt, HGNC |
| encode-distal-2012.xgmml.zip | Homo sapiens (hsa) | 18,240 | 109 | 2093 | NCBI Gene, Ensembl, UniProt, HGNC |