Interfaces of malignant and immunologic clonal dynamics in ovarian cancer AW Zhang, A McPherson, K Milne, DR Kroeger, PT Hamilton, A Miranda, ... Cell 173 (7), 1755-1769. e22, 2018 | 299 | 2018 |
Systematic analysis of somatic mutations impacting gene expression in 12 tumour types J Ding, MK McConechy, HM Horlings, G Ha, F Chun Chan, T Funnell, ... Nature communications 6 (1), 8554, 2015 | 104 | 2015 |
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 | 70 | 2022 |
Integrated structural variation and point mutation signatures in cancer genomes using correlated topic models T Funnell, AW Zhang, D Grewal, S McKinney, A Bashashati, YK Wang, ... PLoS computational biology 15 (2), e1006799, 2019 | 58 | 2019 |
CLK-dependent exon recognition and conjoined gene formation revealed with a novel small molecule inhibitor T Funnell, S Tasaki, A Oloumi, S Araki, E Kong, D Yap, Y Nakayama, ... Nature Communications 8 (1), 7, 2017 | 52 | 2017 |
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 | 47 | 2022 |
Cancer phylogenetic tree inference at scale from 1000s of single cell genomes S Salehi, F Dorri, K Chern, F Kabeer, N Rusk, T Funnell, MJ Williams, ... Peer Community Journal 3, 2023 | 13 | 2023 |
Efficient Bayesian inference of phylogenetic trees from large scale, low-depth genome-wide single-cell data F Dorri, S Salehi, K Chern, T Funnell, M Williams, D Lai, M Andronescu, ... bioRxiv, 2020.05. 06.058180, 2020 | 13 | 2020 |
Integrated single-nucleotide and structural variation signatures of DNA-repair deficient human cancers T Funnell, A Zhang, YJ Shiah, D Grewal, R Lesurf, S McKinney, ... bioRxiv, 267500, 2018 | 8 | 2018 |
Evolutionary tracking of cancer haplotypes at single-cell resolution MJ Williams, T Funnell, CH O’Flanagan, A McPherson, S Salehi, ... Biorxiv, 2021.06. 04.447031, 2021 | 7 | 2021 |
Immune and malignant cell phenotypes of ovarian cancer are determined by distinct mutational processes I Vázquez-García, F Uhlitz, N Ceglia, JLP Lim, M Wu, N Mohibullah, ... bioRxiv, 2021.08. 24.454519, 2021 | 6 | 2021 |
The impact of mutational processes on structural genomic plasticity in cancer cells T Funnell, CH O’Flanagan, MJ Williams, A McPherson, S McKinney, ... Biorxiv, 2021.06. 03.446999, 2021 | 6 | 2021 |
Integrated single-nucleotide and structural variation signatures of dna-repair deficient human cancers. bioRxiv T Funnell, A Zhang, YJ Shiah, D Grewal, R Lesurf, S McKinney, ... | 6 | 2018 |
Pilot trial of homebound hematopoietic cell transplantation HJ Landau, E Orlando, ES Rodriguez, A Applebaum, HR Mitchell, ... Transplantation and cellular therapy 28 (12), 832. e1-832. e7, 2022 | 2 | 2022 |
Accurate determination of CRISPR-mediated gene fitness in transplantable tumours P Eirew, C O’Flanagan, J Ting, S Salehi, J Brimhall, B Wang, J Biele, ... Nature Communications 13 (1), 4534, 2022 | 2 | 2022 |
The interface of malignant and immunologic clonal dynamics in high-grade serous ovarian cancer AW Zhang, A McPherson, K Milne, DR Kroeger, PT Hamilton, A Miranda, ... bioRxiv, 198101, 2017 | 2 | 2017 |
Scalable Log-ratio Lasso Regression Enhances Microbiome Feature Selection for Predictive Models. T Fei, T Funnell, NR Waters, SS Raj, SM Devlin, A Dai, O Miltiadous, ... Biorxiv: the Preprint Server for Biology, 2023 | 1 | 2023 |
A REPRODUCIBLE INFLAMMATORY BIOMARKER SIGNATURE IDENTIFIES NON-HODGKIN LYMPHOMA PATIENTS AT HIGH RISK OF CAR-T TREATMENT FAILURE ACROSS DIFFERENT COHORTS S Raj, MA Perales, T Fei, J Fein, A Alarcon Tomas, ... BONE MARROW TRANSPLANTATION 58 (SUPP 1), 41-42, 2023 | | 2023 |
Inflammatory Biomarker Clusters Are Predictive of Response and Toxicity in Large B-Cell Lymphoma Treated with CD19 CAR-T Cell Therapy S Raj, MA Perales, JA Fein, A Alarcon Tomas, CL Batlevi, ... Blood 140 (Supplement 1), 648-650, 2022 | | 2022 |
Characterization of genomic diversity in high grade serous ovarian and triple negative breast cancer at single cell resolution MJ Williams, T Funnell, CH O'Flanagan, A McPherson, S Aparicio, ... Cancer Research 82 (12_Supplement), 1597-1597, 2022 | | 2022 |