| An integrated encyclopedia of DNA elements in the human genome ENCODE Project Consortium Nature 489 (7414), 57, 2012 | 11638 | 2012 |
| Integration of biological networks and gene expression data using Cytoscape MS Cline, M Smoot, E Cerami, A Kuchinsky, N Landys, C Workman, ... Nature protocols 2 (10), 2366, 2007 | 2236 | 2007 |
| A comparative encyclopedia of DNA elements in the mouse genome F Yue, Y Cheng, A Breschi, J Vierstra, W Wu, T Ryba, R Sandstrom, Z Ma, ... Nature 515 (7527), 355-364, 2014 | 1310 | 2014 |
| The UCSC genome browser database: update 2011 PA Fujita, B Rhead, AS Zweig, AS Hinrichs, D Karolchik, MS Cline, ... Nucleic acids research 39 (suppl_1), D876-D882, 2010 | 1192 | 2010 |
| The UCSC Genome Browser database: extensions and updates 2013 LR Meyer, AS Zweig, AS Hinrichs, D Karolchik, RM Kuhn, M Wong, ... Nucleic acids research 41 (D1), D64-D69, 2012 | 798 | 2012 |
| The UCSC genome browser database: 2014 update D Karolchik, GP Barber, J Casper, H Clawson, MS Cline, M Diekhans, ... Nucleic acids research 42 (D1), D764-D770, 2014 | 716 | 2014 |
| NetAffx: Affymetrix probesets and annotations G Liu, AE Loraine, R Shigeta, M Cline, J Cheng, V Valmeekam, S Sun, ... Nucleic acids research 31 (1), 82-86, 2003 | 610 | 2003 |
| The UCSC genome browser database: 2008 update D Karolchik, RM Kuhn, R Baertsch, GP Barber, H Clawson, M Diekhans, ... Nucleic acids research 36 (suppl_1), D773-D779, 2007 | 575 | 2007 |
| Nova regulates brain-specific splicing to shape the synapse J Ule, A Ule, J Spencer, A Williams, JS Hu, M Cline, H Wang, T Clark, ... Nature genetics 37 (8), 844-852, 2005 | 513 | 2005 |
| The UCSC Genome Browser database: extensions and updates 2011 TR Dreszer, D Karolchik, AS Zweig, AS Hinrichs, BJ Raney, RM Kuhn, ... Nucleic acids research 40 (D1), D918-D923, 2012 | 380 | 2012 |
| Aberrant alternative splicing and extracellular matrix gene expression in mouse models of myotonic dystrophy H Du, MS Cline, RJ Osborne, DL Tuttle, TA Clark, JP Donohue, MP Hall, ... Nature structural & molecular biology 17 (2), 187, 2010 | 309 | 2010 |
| An encyclopedia of mouse DNA elements (Mouse ENCODE) JA Stamatoyannopoulos, M Snyder, R Hardison, B Ren, T Gingeras, ... Genome biology 13 (8), 1-5, 2012 | 301 | 2012 |
| Toil enables reproducible, open source, big biomedical data analyses J Vivian, AA Rao, FA Nothaft, C Ketchum, J Armstrong, A Novak, J Pfeil, ... Nature biotechnology 35 (4), 314-316, 2017 | 279 | 2017 |
| ENCODE whole-genome data in the UCSC Genome Browser: update 2012 KR Rosenbloom, TR Dreszer, JC Long, VS Malladi, CA Sloan, BJ Raney, ... Nucleic acids research 40 (D1), D912-D917, 2012 | 275 | 2012 |
| RBPmap: a web server for mapping binding sites of RNA-binding proteins I Paz, I Kosti, M Ares Jr, M Cline, Y Mandel-Gutfreund Nucleic acids research 42 (W1), W361-W367, 2014 | 261 | 2014 |
| Muscleblind-like 2-mediated alternative splicing in the developing brain and dysregulation in myotonic dystrophy K Charizanis, KY Lee, R Batra, M Goodwin, C Zhang, Y Yuan, L Shiue, ... Neuron 75 (3), 437-450, 2012 | 260 | 2012 |
| Hidden Markov models that use predicted local structure for fold recognition: alphabets of backbone geometry R Karchin, M Cline, Y Mandel‐Gutfreund, K Karplus Proteins: Structure, Function, and Bioinformatics 51 (4), 504-514, 2003 | 239 | 2003 |
| Unusual intron conservation near tissue-regulated exons found by splicing microarrays CW Sugnet, K Srinivasan, TA Clark, G O'Brien, MS Cline, H Wang, ... PLoS Comput Biol 2 (1), e4, 2006 | 232 | 2006 |
| ENCODE whole-genome data in the UCSC genome browser (2011 update) BJ Raney, MS Cline, KR Rosenbloom, TR Dreszer, K Learned, GP Barber, ... Nucleic acids research 39 (suppl_1), D871-D875, 2011 | 229 | 2011 |
| Exploring TCGA pan-cancer data at the UCSC cancer genomics browser MS Cline, B Craft, T Swatloski, M Goldman, S Ma, D Haussler, J Zhu Scientific reports 3 (1), 1-6, 2013 | 223 | 2013 |
Mark DiekhansUniversity of California, Santa Cruz; UC Santa Cruz Genomics InstituteVerified email at soe.ucsc.edu
