| TCGAbiolinks: an R/Bioconductor package for integrative analysis of TCGA data A Colaprico, TC Silva, C Olsen, L Garofano, C Cava, D Garolini, ... Nucleic acids research 44 (8), e71-e71, 2016 | 3264 | 2016 |
| Molecular profiling reveals biologically discrete subsets and pathways of progression in diffuse glioma M Ceccarelli, FP Barthel, TM Malta, TS Sabedot, SR Salama, BA Murray, ... Cell 164 (3), 550-563, 2016 | 2142 | 2016 |
| The chromatin accessibility landscape of primary human cancers MR Corces, JM Granja, S Shams, BH Louie, JA Seoane, W Zhou, ... Science 362 (6413), eaav1898, 2018 | 1092 | 2018 |
| New functionalities in the TCGAbiolinks package for the study and integration of cancer data from GDC and GTEx M Mounir, M Lucchetta, TC Silva, C Olsen, G Bontempi, X Chen, ... PLoS computational biology 15 (3), e1006701, 2019 | 430 | 2019 |
| Glioma CpG island methylator phenotype (G-CIMP): biological and clinical implications TM Malta, CF de Souza, TS Sabedot, TC Silva, MS Mosella, SN Kalkanis, ... Neuro-oncology 20 (5), 608-620, 2018 | 300 | 2018 |
| TCGA Workflow: Analyze cancer genomics and epigenomics data using Bioconductor packages TC Silva, A Colaprico, C Olsen, F D'Angelo, G Bontempi, M Ceccarelli, ... F1000Research 5, 2016 | 270 | 2016 |
| Multi-omics analysis identifies therapeutic vulnerabilities in triple-negative breast cancer subtypes BD Lehmann, A Colaprico, TC Silva, J Chen, H An, Y Ban, H Huang, ... Nature communications 12 (1), 6276, 2021 | 174 | 2021 |
| Before and after: comparison of legacy and harmonized TCGA genomic data commons’ data GF Gao, JS Parker, SM Reynolds, TC Silva, LB Wang, W Zhou, R Akbani, ... Cell systems 9 (1), 24-34. e10, 2019 | 153 | 2019 |
| Identification of distinct mutational patterns and new driver genes in oesophageal squamous cell carcinomas and adenocarcinomas DC Lin, HQ Dinh, JJ Xie, A Mayakonda, TC Silva, YY Jiang, LW Ding, ... Gut 67 (10), 1769-1779, 2018 | 116 | 2018 |
| ELMER v. 2: an R/Bioconductor package to reconstruct gene regulatory networks from DNA methylation and transcriptome profiles TC Silva, SG Coetzee, N Gull, L Yao, DJ Hazelett, H Noushmehr, DC Lin, ... Bioinformatics 35 (11), 1974-1977, 2019 | 104 | 2019 |
| Epigenome-wide meta-analysis of DNA methylation differences in prefrontal cortex implicates the immune processes in Alzheimer’s disease L Zhang, TC Silva, JI Young, L Gomez, MA Schmidt, KL Hamilton-Nelson, ... Nature communications 11 (1), 6114, 2020 | 95 | 2020 |
| Interpreting pathways to discover cancer driver genes with Moonlight A Colaprico, C Olsen, MH Bailey, GJ Odom, T Terkelsen, TC Silva, ... Nature communications 11 (1), 69, 2020 | 93 | 2020 |
| Master transcription factors form interconnected circuitry and orchestrate transcriptional networks in oesophageal adenocarcinoma L Chen, M Huang, J Plummer, J Pan, YY Jiang, Q Yang, TC Silva, N Gull, ... Gut 69 (4), 630-640, 2020 | 79 | 2020 |
| RNA-Binding Protein ZFP36L1 Suppresses Hypoxia and Cell-Cycle Signaling XY Loh, QY Sun, LW Ding, A Mayakonda, N Venkatachalam, MS Yeo, ... Cancer research 80 (2), 219-233, 2020 | 54 | 2020 |
| GENAVi: a shiny web application for gene expression normalization, analysis and visualization ALP Reyes, TC Silva, SG Coetzee, JT Plummer, BD Davis, S Chen, ... BMC genomics 20, 1-9, 2019 | 54 | 2019 |
| SpidermiR: an R/bioconductor package for integrative analysis with miRNA data C Cava, A Colaprico, G Bertoli, A Graudenzi, TC Silva, C Olsen, ... International journal of molecular sciences 18 (2), 274, 2017 | 52 | 2017 |
| Lineage-specific epigenomic and genomic activation of oncogene HNF4A promotes gastrointestinal adenocarcinomas J Pan, TC Silva, N Gull, Q Yang, JT Plummer, S Chen, K Daigo, ... Cancer research 80 (13), 2722-2736, 2020 | 51 | 2020 |
| Sex-specific DNA methylation differences in Alzheimer’s disease pathology L Zhang, JI Young, L Gomez, TC Silva, MA Schmidt, J Cai, X Chen, ... Acta neuropathologica communications 9 (1), 77, 2021 | 42 | 2021 |
| Whole-genome characterization of lung adenocarcinomas lacking alterations in the RTK/RAS/RAF pathway J Carrot-Zhang, X Yao, S Devarakonda, A Deshpande, JS Damrauer, ... Cell reports 34 (5), 2021 | 34 | 2021 |
| A pan-cancer analysis of CpG Island gene regulation reveals extensive plasticity within Polycomb target genes Y Zheng, G Huang, TC Silva, Q Yang, YY Jiang, HP Koeffler, DC Lin, ... Nature communications 12 (1), 2485, 2021 | 31 | 2021 |
Antonio ColapricoAssociate Scientist (University of Miami)Verified email at med.miami.edu