| Improved prediction of immune checkpoint blockade efficacy across multiple cancer types D Chowell, SK Yoo, C Valero, A Pastore, C Krishna, M Lee, D Hoen, ... Nature biotechnology 40 (4), 499-506, 2022 | 179 | 2022 |
| Ovarian cancer mutational processes drive site-specific immune evasion I Vázquez-García, F Uhlitz, N Ceglia, JLP Lim, M Wu, N Mohibullah, ... Nature 612 (7941), 778-786, 2022 | 146 | 2022 |
| Tim-4+ cavity-resident macrophages impair anti-tumor CD8+ T cell immunity A Chow, S Schad, MD Green, MD Hellmann, V Allaj, N Ceglia, G Zago, ... Cancer Cell 39 (7), 973-988. e9, 2021 | 133 | 2021 |
| Clinical sequencing of soft tissue and bone sarcomas delineates diverse genomic landscapes and potential therapeutic targets BA Nacev, F Sanchez-Vega, SA Smith, CR Antonescu, E Rosenbaum, ... Nature Communications 13 (1), 3405, 2022 | 120 | 2022 |
| Single-cell genomic variation induced by mutational processes in cancer T Funnell, CH O’Flanagan, MJ Williams, A McPherson, S McKinney, ... Nature 612 (7938), 106-115, 2022 | 73 | 2022 |
| Classifying gastric cancer using FLORA reveals clinically relevant molecular subtypes and highlights LINC01614 as a biomarker for patient prognosis Y Chen, WY Cheng, H Shi, S Huang, H Chen, D Liu, W Xu, J Yu, J Wang Oncogene 40 (16), 2898-2909, 2021 | 33 | 2021 |
| Altered host protease determinants for SARS-CoV-2 Omicron JFW Chan, X Huang, B Hu, Y Chai, H Shi, T Zhu, TTT Yuen, Y Liu, H Liu, ... Science Advances 9 (3), eadd3867, 2023 | 24 | 2023 |
| Allele-specific transcriptional effects of subclonal copy number alterations enable genotype-phenotype mapping in cancer cells H Shi, MJ Williams, G Satas, AC Weiner, A McPherson, SP Shah Nature Communications 15 (1), 2482, 2024 | 9* | 2024 |
| A randomized phase II trial of adjuvant hepatic arterial infusion and systemic therapy with or without panitumumab after hepatic resection of KRAS wild-type colorectal cancer NE Kemeny, JF Chou, M Capanu, WK Chatila, H Shi, F Sanchez-Vega, ... Annals of surgery 274 (2), 248-254, 2021 | 9 | 2021 |
| Single-cell DNA replication dynamics in genomically unstable cancers AC Weiner, MJ Williams, H Shi, I Vázquez-García, S Salehi, N Rusk, ... bioRxiv, 2023 | 6 | 2023 |
| Single-cell mtDNA dynamics in tumors is driven by coregulation of nuclear and mitochondrial genomes M Kim, AN Gorelick, I Vàzquez-García, MJ Williams, S Salehi, H Shi, ... Nature Genetics, 1-11, 2024 | 5 | 2024 |
| Ongoing genome doubling promotes evolvability and immune dysregulation in ovarian cancer AW McPherson, I Vazquez-Garcia, MA Myers, M Zatzman, DH Al-Rawi, ... bioRxiv, 2024.07. 11.602772, 2024 | 2 | 2024 |
| Tracking clonal evolution of drug resistance in ovarian cancer patients by exploiting structural variants in cfDNA MJ Williams, I Vázquez-García, G Tam, M Wu, N Varice, E Havasov, H Shi, ... bioRxiv, 2024 | 1 | 2024 |
| Inferring replication timing and proliferation dynamics from single-cell DNA sequencing data AC Weiner, MJ Williams, H Shi, I Vázquez-García, S Salehi, N Rusk, ... Nature Communications 15 (1), 8512, 2024 | | 2024 |
| Abstract PR012: Evolutionary dynamics of whole-genome doubling in ovarian cancer I Vázquez-García, M Myers, MJ Williams, SS Freeman, J Li, H Shi, ... Cancer Research 84 (3_Supplement_2), PR012-PR012, 2024 | | 2024 |
| Transient chromosomal instability as a driver of ovarian cancer genome evolution I Vazquez-Garcia, F Uhlitz, MJ Williams, J Li, H Shi, S Freeman, M Myers, ... Cancer Research 83 (7_Supplement), 102-102, 2023 | | 2023 |
| Targeted sequencing of 2,138 bone and soft tissue sarcomas reveals commonly altered pathways, subtype-independent genetic clusters, and potential therapeutic targets. BA Nacev, F Sanchez-Vega, S Smith, C Antonescu, E Rosenbaum, H Shi, ... CLINICAL CANCER RESEARCH 28 (18), 9-10, 2022 | | 2022 |