| Comparison of computational methods for the identification of topologically associating domains M Zufferey, D Tavernari, E Oricchio, G Ciriello Genome biology 19, 1-18, 2018 | 198 | 2018 |
| EZH2 oncogenic mutations drive epigenetic, transcriptional, and structural changes within chromatin domains MC Donaldson-Collier, S Sungalee, M Zufferey, D Tavernari, ... Nature genetics 51 (3), 517-528, 2019 | 121 | 2019 |
| Conditional selection of genomic alterations dictates cancer evolution and oncogenic dependencies M Mina, F Raynaud, D Tavernari, E Battistello, S Sungalee, S Saghafinia, ... Cancer cell 32 (2), 155-168. e6, 2017 | 111 | 2017 |
| Pan-cancer inference of intra-tumor heterogeneity reveals associations with different forms of genomic instability F Raynaud, M Mina, D Tavernari, G Ciriello PLoS genetics 14 (9), e1007669, 2018 | 88 | 2018 |
| Nongenetic evolution drives lung adenocarcinoma spatial heterogeneity and progression D Tavernari, E Battistello, E Dheilly, AS Petruzzella, M Mina, ... Cancer discovery 11 (6), 1490-1507, 2021 | 77 | 2021 |
| Systematic inference and comparison of multi-scale chromatin sub-compartments connects spatial organization to cell phenotypes Y Liu, L Nanni, S Sungalee, M Zufferey, D Tavernari, M Mina, S Ceri, ... Nature communications 12 (1), 2439, 2021 | 65 | 2021 |
| Linking aberrant chromatin features in chronic lymphocytic leukemia to transcription factor networks JP Mallm, M Iskar, N Ishaque, LC Klett, SJ Kugler, JM Muino, VB Teif, ... Molecular systems biology 15 (5), e8339, 2019 | 49 | 2019 |
| Histone acetylation dynamics modulates chromatin conformation and allele-specific interactions at oncogenic loci S Sungalee, Y Liu, RA Lambuta, N Katanayeva, M Donaldson Collier, ... Nature Genetics 53 (5), 650-662, 2021 | 40 | 2021 |
| Sustained androgen receptor signaling is a determinant of melanoma cell growth potential and tumorigenesis M Ma, S Ghosh, D Tavernari, A Katarkar, A Clocchiatti, L Mazzeo, ... Journal of Experimental Medicine 218 (2), e20201137, 2020 | 34 | 2020 |
| Pan-SRC kinase inhibition blocks B-cell receptor oncogenic signaling in non-Hodgkin lymphoma E Battistello, N Katanayeva, E Dheilly, D Tavernari, MC Donaldson, ... Blood, The Journal of the American Society of Hematology 131 (21), 2345-2356, 2018 | 32 | 2018 |
| Whole-genome doubling drives oncogenic loss of chromatin segregation RA Lambuta, L Nanni, Y Liu, J Diaz-Miyar, A Iyer, D Tavernari, ... Nature 615 (7954), 925-933, 2023 | 19 | 2023 |
| Discovering functional evolutionary dependencies in human cancers M Mina, A Iyer, D Tavernari, F Raynaud, G Ciriello Nature genetics 52 (11), 1198-1207, 2020 | 18 | 2020 |
| CellCharter reveals spatial cell niches associated with tissue remodeling and cell plasticity M Varrone, D Tavernari, A Santamaria-Martínez, LA Walsh, G Ciriello Nature Genetics 56 (1), 74-84, 2024 | 9 | 2024 |
| ANKRD1 is a mesenchymal-specific driver of cancer-associated fibroblast activation bridging androgen receptor loss to AP-1 activation L Mazzeo, S Ghosh, E Di Cicco, J Isma, D Tavernari, A Samarkina, ... Nature Communications 15 (1), 1038, 2024 | 2 | 2024 |
| CellCharter: a scalable framework to chart and compare cell niches across multiple samples and spatial-omics technologies M Varrone, D Tavernari, A Santamaria-Martínez, G Ciriello bioRxiv, 2023.01. 10.523386, 2023 | 2 | 2023 |
| Methods for the analysis of topologically associating domains (TADs) M Zufferey, D Tavernari, G Ciriello Hi-C Data Analysis: Methods and Protocols, 39-59, 2022 | 2 | 2022 |
| Systematic assessment of gene co-regulation within chromatin domains determines differentially active domains across human cancers M Zufferey, Y Liu, D Tavernari, M Mina, G Ciriello Genome Biology 22 (1), 218, 2021 | 2 | 2021 |
| Interrogating functional dependencies between genomic alterations can facilitate precision medicine approaches in cancer M Mina, F Raynaud, D Tavernari, E Battistello, S Sungalee, S Saghafinia, ... Annals of Oncology 28, vii2, 2017 | 1 | 2017 |
| E2F transcription factor-1 modulates expression of glutamine metabolic genes in mouse embryonic fibroblasts and uterine sarcoma cells K Huber, A Giralt, R Dreos, H Michenthaler, S Geller, V Barquissau, ... Biochimica et Biophysica Acta (BBA)-Molecular Cell Research, 119721, 2024 | | 2024 |
| Non-genetic routes of lung cancer evolution G Ciriello, D Tavernari, M Varrone Cancer Research 84 (6_Supplement), 6935-6935, 2024 | | 2024 |
