The immune landscape of cancer V Thorsson, DL Gibbs, SD Brown, D Wolf, DS Bortone, THO Yang, ... Immunity 48 (4), 812-830. e14, 2018 | 4865 | 2018 |
ARACNE: an algorithm for the reconstruction of gene regulatory networks in a mammalian cellular context AA Margolin, I Nemenman, K Basso, C Wiggins, G Stolovitzky, RD Favera, ... BMC bioinformatics 7, 1-15, 2006 | 3241 | 2006 |
Prediction of central nervous system embryonal tumour outcome based on gene expression SL Pomeroy, P Tamayo, M Gaasenbeek, LM Sturla, M Angelo, ... Nature 415 (6870), 436-442, 2002 | 2919 | 2002 |
A promoter-level mammalian expression atlas Nature 507 (7493), 462-470, 2014 | 1781 | 2014 |
Reverse engineering of regulatory networks in human B cells K Basso, AA Margolin, G Stolovitzky, U Klein, R Dalla-Favera, A Califano Nature genetics 37 (4), 382-390, 2005 | 1680 | 2005 |
Cross-species single-cell analysis of pancreatic ductal adenocarcinoma reveals antigen-presenting cancer-associated fibroblasts E Elyada, M Bolisetty, P Laise, WF Flynn, ET Courtois, RA Burkhart, ... Cancer discovery 9 (8), 1102-1123, 2019 | 1536 | 2019 |
The transcriptional network for mesenchymal transformation of brain tumours MS Carro, WK Lim, MJ Alvarez, RJ Bollo, X Zhao, EY Snyder, EP Sulman, ... Nature 463 (7279), 318-325, 2010 | 1415 | 2010 |
Mutations of multiple genes cause deregulation of NF-κB in diffuse large B-cell lymphoma M Compagno, WK Lim, A Grunn, SV Nandula, M Brahmachary, Q Shen, ... Nature 459 (7247), 717-721, 2009 | 1322 | 2009 |
Gene expression profiling of B cell chronic lymphocytic leukemia reveals a homogeneous phenotype related to memory B cells U Klein, Y Tu, GA Stolovitzky, M Mattioli, G Cattoretti, H Husson, ... The Journal of experimental medicine 194 (11), 1625-1638, 2001 | 1236 | 2001 |
The DLEU2/miR-15a/16-1 cluster controls B cell proliferation and its deletion leads to chronic lymphocytic leukemia U Klein, M Lia, M Crespo, R Siegel, Q Shen, T Mo, A Ambesi-Impiombato, ... Cancer cell 17 (1), 28-40, 2010 | 1070 | 2010 |
NOTCH1 directly regulates c-MYC and activates a feed-forward-loop transcriptional network promoting leukemic cell growth T Palomero, WK Lim, DT Odom, ML Sulis, PJ Real, A Margolin, ... Proceedings of the National Academy of Sciences 103 (48), 18261-18266, 2006 | 1054 | 2006 |
Toward understanding and exploiting tumor heterogeneity AA Alizadeh, V Aranda, A Bardelli, C Blanpain, C Bock, C Borowski, ... Nature medicine 21 (8), 846-853, 2015 | 833 | 2015 |
Functional characterization of somatic mutations in cancer using network-based inference of protein activity MJ Alvarez, Y Shen, FM Giorgi, A Lachmann, BB Ding, BH Ye, A Califano Nature genetics 48 (8), 838-847, 2016 | 800 | 2016 |
Structure-based prediction of protein–protein interactions on a genome-wide scale QC Zhang, D Petrey, L Deng, L Qiang, Y Shi, CA Thu, B Bisikirska, ... Nature 490 (7421), 556-560, 2012 | 795 | 2012 |
An extensive microRNA-mediated network of RNA-RNA interactions regulates established oncogenic pathways in glioblastoma P Sumazin, X Yang, HS Chiu, WJ Chung, A Iyer, D Llobet-Navas, ... Cell 147 (2), 370-381, 2011 | 792 | 2011 |
tRNA-derived microRNA modulates proliferation and the DNA damage response and is down-regulated in B cell lymphoma RL Maute, C Schneider, P Sumazin, A Holmes, A Califano, K Basso, ... Proceedings of the National Academy of Sciences 110 (4), 1404-1409, 2013 | 601 | 2013 |
Transcriptional analysis of the B cell germinal center reaction U Klein, Y Tu, GA Stolovitzky, JL Keller, J Haddad Jr, V Miljkovic, ... Proceedings of the National Academy of Sciences 100 (5), 2639-2644, 2003 | 543 | 2003 |
Dialogue on reverse‐engineering assessment and methods: the DREAM of high‐throughput pathway inference G Stolovitzky, DON Monroe, A Califano Annals of the New York Academy of Sciences 1115 (1), 1-22, 2007 | 458 | 2007 |
Reverse engineering cellular networks AA Margolin, K Wang, WK Lim, M Kustagi, I Nemenman, A Califano Nature protocols 1 (2), 662-671, 2006 | 456 | 2006 |
A human B‐cell interactome identifies MYB and FOXM1 as master regulators of proliferation in germinal centers C Lefebvre, P Rajbhandari, MJ Alvarez, P Bandaru, WK Lim, M Sato, ... Molecular systems biology 6 (1), 377, 2010 | 433 | 2010 |