MAGeCK enables robust identification of essential genes from genome-scale CRISPR/Cas9 knockout screens W Li, H Xu, T Xiao, L Cong, MI Love, F Zhang, RA Irizarry, JS Liu, ... Genome Biology 15 (554), 2014 | 1936 | 2014 |
Genomic correlates of response to immune checkpoint therapies in clear cell renal cell carcinoma D Miao, CA Margolis, W Gao, MH Voss, W Li, DJ Martini, C Norton, ... Science 359 (6377), 801-806, 2018 | 1022 | 2018 |
Bioconda: sustainable and comprehensive software distribution for the life sciences B Grüning, R Dale, A Sjödin, BA Chapman, J Rowe, CH Tomkins-Tinch, ... Nature methods 15 (7), 475-476, 2018 | 853 | 2018 |
Sequence determinants of improved CRISPR sgRNA design H Xu, T Xiao, CH Chen, W Li, CA Meyer, Q Wu, D Wu, L Cong, F Zhang, ... Genome research 25 (8), 1147-1157, 2015 | 671 | 2015 |
Genome-scale deletion screening of human long non-coding RNAs using a paired-guide RNA CRISPR-Cas9 library S Zhu, W Li, J Liu, CH Chen, Q Liao, P Xu, H Xu, T Xiao, Z Cao, J Peng, ... Nature biotechnology 34 (12), 1279-1286, 2016 | 472 | 2016 |
Overcoming Therapeutic Resistance in HER2-Positive Breast Cancers with CDK4/6 Inhibitors S Goel, Q Wang, AC Watt, SM Tolaney, DA Dillon, W Li, S Ramm, ... Cancer cell 29 (3), 255-269, 2016 | 436 | 2016 |
Quality control, modeling, and visualization of CRISPR screens with MAGeCK-VISPR W Li, J Köster, H Xu, CH Chen, T Xiao, JS Liu, M Brown, XS Liu Genome biology 16 (1), 1-13, 2015 | 401 | 2015 |
High-content CRISPR screening C Bock, P Datlinger, F Chardon, MA Coelho, MB Dong, KA Lawson, T Lu, ... Nature Reviews Methods Primers 2 (1), 1-23, 2022 | 335 | 2022 |
Genome-wide CRISPR screen identifies HNRNPL as a prostate cancer dependency regulating RNA splicing T Fei, Y Chen, T Xiao, W Li, L Cato, P Zhang, MB Cotter, M Bowden, ... Proceedings of the National Academy of Sciences 114 (26), E5207-E5215, 2017 | 306 | 2017 |
Integrative analysis of pooled CRISPR genetic screens using MAGeCKFlute B Wang, M Wang, W Zhang, T Xiao, CH Chen, A Wu, F Wu, N Traugh, ... Nature protocols 14 (3), 756-780, 2019 | 295 | 2019 |
Allele-specific chromatin recruitment and therapeutic vulnerabilities of ESR1 activating mutations R Jeselsohn, JS Bergholz, M Pun, MI Cornwell, W Liu, A Nardone, T Xiao, ... Cancer cell 33 (2), 173-186. e5, 2018 | 248 | 2018 |
Isolasso: a lasso regression approach to RNA-seq based transcriptome assembly W Li, J Feng, T Jiang Research in Computational Molecular Biology, 168-188, 2011 | 237 | 2011 |
RAS/MAPK activation drives resistance to Smo inhibition, metastasis, and tumor evolution in Shh pathway–dependent tumors X Zhao, T Ponomaryov, KJ Ornell, P Zhou, SK Dabral, E Pak, W Li, ... Cancer research 75 (17), 3623-3635, 2015 | 156 | 2015 |
ARv7 Represses Tumor-Suppressor Genes in Castration-Resistant Prostate Cancer L Cato, J de Tribolet-Hardy, I Lee, J T. Rottenberg, I Coleman, D Melchers, ... Cancer Cell 35 (3), 401-413, 2019 | 154 | 2019 |
Inactivation of the PBRM1 tumor suppressor gene amplifies the HIF-response in VHL−/− clear cell renal carcinoma W Gao, W Li, T Xiao, XS Liu, WG Kaelin Proceedings of the National Academy of Sciences 114 (5), 1027-1032, 2017 | 153 | 2017 |
Synthetic lethal and resistance interactions with BET bromodomain inhibitors in triple-negative breast cancer S Shu, HJ Wu, YG Jennifer, R Zeid, IS Harris, B Jovanović, K Murphy, ... Molecular cell 78 (6), 1096-1113. e8, 2020 | 135 | 2020 |
Transcriptome Assembly and Isoform Expression Level Estimation from Biased RNA-Seq Reads W Li, T Jiang Bioinformatics, 2012 | 103 | 2012 |
In vivo CRISPR screens identify the E3 ligase Cop1 as a modulator of macrophage infiltration and cancer immunotherapy target X Wang, C Tokheim, SS Gu, B Wang, Q Tang, Y Li, N Traugh, Z Zeng, ... Cell 184 (21), 5357-5374. e22, 2021 | 101 | 2021 |
MethylPurify: tumor purity deconvolution and differential methylation detection from single tumor DNA methylomes X Zheng, Q Zhao, HJ Wu, W Li, H Wang, CA Meyer, QA Qin, H Xu, C Zang, ... Genome biology 15 (7), 1-13, 2014 | 96 | 2014 |
Inference of isoforms from short sequence reads J Feng, W Li, T Jiang Journal of computational biology 18 (3), 305-321, 2011 | 80 | 2011 |