| 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, 2009 | 1498 | 2009 |
| 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, 2016 | 984 | 2016 |
| Targeted inhibition of galectin-1 gene expression in tumor cells results in heightened T cell-mediated rejection: a potential mechanism of tumor-immune privilege N Rubinstein, M Alvarez, NW Zwirner, MA Toscano, JM Ilarregui, A Bravo, ... Cancer cell 5 (3), 241-251, 2004 | 726 | 2004 |
| 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), 2010 | 458 | 2010 |
| A community computational challenge to predict the activity of pairs of compounds M Bansal, J Yang, C Karan, MP Menden, JC Costello, H Tang, G Xiao, ... Nature Biotechnology, 2014 | 367 | 2014 |
| Cross-Species Regulatory Network Analysis Identifies a Synergistic Interaction between FOXM1 and CENPF that Drives Prostate Cancer Malignancy A Aytes, A Mitrofanova, C Lefebvre, MJ Alvarez, M Castillo-Martin, ... Cancer cell 25 (5), 638-651, 2014 | 351 | 2014 |
| Integrated biochemical and computational approach identifies BCL6 direct target genes controlling multiple pathways in normal germinal center B cells K Basso, M Saito, P Sumazin, AA Margolin, K Wang, WK Lim, Y Kitagawa, ... Blood 115 (5), 975-984, 2010 | 324 | 2010 |
| Resistance to neoadjuvant chemotherapy in triple-negative breast cancer mediated by a reversible drug-tolerant state GV Echeverria, Z Ge, S Seth, X Zhang, S Jeter-Jones, X Zhou, S Cai, Y Tu, ... Science translational medicine 11 (488), 2019 | 315 | 2019 |
| Genome-wide identification of post-translational modulators of transcription factor activity in human B cells K Wang, M Saito, BC Bisikirska, MJ Alvarez, WK Lim, P Rajbhandari, ... Nature biotechnology 27 (9), 829-837, 2009 | 291 | 2009 |
| The recurrent architecture of tumour initiation, progression and drug sensitivity A Califano, MJ Alvarez Nature Reviews Cancer, 2016 | 250 | 2016 |
| A precision oncology approach to the pharmacological targeting of mechanistic dependencies in neuroendocrine tumors MJ Alvarez, PS Subramaniam, LH Tang, A Grunn, M Aburi, G Rieckhof, ... Nature genetics, 1, 2018 | 233 | 2018 |
| Identification of Causal Genetic Drivers of Human Disease through Systems-Level Analysis of Regulatory Networks JC Chen, MJ Alvarez, F Talos, H Dhruv, GE Rieckhof, A Iyer, KL Diefes, ... Cell 159 (2), 402-414, 2014 | 226 | 2014 |
| Differentiation-state plasticity is a targetable resistance mechanism in basal-like breast cancer T Risom, EM Langer, MP Chapman, J Rantala, AJ Fields, C Boniface, ... Nature communications 9 (1), 1-17, 2018 | 201 | 2018 |
| Cross-cohort analysis identifies a TEAD4↔ MYCN positive-feedback loop as the core regulatory element of high-risk neuroblastoma P Rajbhandari, G Lopez, C Capdevila, B Salvatori, J Yu, ... Cancer Discovery, CD-16-0861, 2018 | 166 | 2018 |
| Identification of neurodegenerative factors using translatome-regulatory network analysis L Brichta, W Shin, V Jackson-Lewis, J Blesa, EL Yap, Z Walker, J Zhang, ... Nature neuroscience 18 (9), 1325-1333, 2015 | 150 | 2015 |
| PFT1, the MED25 subunit of the plant Mediator complex, promotes flowering through CONSTANS dependent and independent mechanisms in Arabidopsis S Iñigo, MJ Alvarez, B Strasser, A Califano, PD Cerdán The Plant Journal 69 (4), 601-612, 2012 | 149 | 2012 |
| Quantitative assessment of protein activity in orphan tissues and single cells using the metaVIPER algorithm H Ding, EF Douglass, AM Sonabend, A Mela, S Bose, C Gonzalez, ... Nature communications 9 (1), 1-10, 2018 | 139 | 2018 |
| Inhibition of the autocrine IL-6–JAK2–STAT3–calprotectin axis as targeted therapy for HR−/HER2+ breast cancers R Rodriguez-Barrueco, J Yu, LP Saucedo-Cuevas, M Olivan, ... Genes & development 29 (15), 1631-1648, 2015 | 138 | 2015 |
| A modular master regulator landscape controls cancer transcriptional identity EO Paull, A Aytes, SJ Jones, PS Subramaniam, FM Giorgi, EF Douglass, ... Cell 184 (2), 334-351. e20, 2021 | 130 | 2021 |
| PLATE-Seq for genome-wide regulatory network analysis of high-throughput screens EC Bush, F Ray, MJ Alvarez, R Realubit, H Li, C Karan, A Califano, ... Nature Communications 8 (1), 105, 2017 | 126 | 2017 |
