Therapeutically increasing MHC-I expression potentiates immune checkpoint blockade SS Gu, W Zhang, X Wang, P Jiang, N Traugh, Z Li, C Meyer, B Stewig, ... Cancer Discovery 11 (6), 1524-1541, 2021 | 142 | 2021 |
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 | 120 | 2021 |
MYC drives aggressive prostate cancer by disrupting transcriptional pause release at androgen receptor targets X Qiu, N Boufaied, T Hallal, A Feit, A de Polo, AM Luoma, W Alahmadi, ... Nature Communications 13 (1), 1-17, 2022 | 91 | 2022 |
TISMO: syngeneic mouse tumor database to model tumor immunity and immunotherapy response Z Zeng, CJ Wong, L Yang, N Ouardaoui, D Li, W Zhang, S Gu, Y Zhang, ... Nucleic acids research 50 (D1), D1391-D1397, 2022 | 70 | 2022 |
Integrative Genomic Analysis Predicts Causative Cis-Regulatory Mechanisms of the Breast Cancer–Associated Genetic Variant rs4415084Regulatory Genomics of GWAS SNPs Y Zhang, M Manjunath, S Zhang, D Chasman, S Roy, JS Song Cancer research 78 (7), 1579-1591, 2018 | 41 | 2018 |
Molecular and cellular features of CTLA-4 blockade for relapsed myeloid malignancies after transplantation L Penter, Y Zhang, A Savell, T Huang, N Cieri, EM Thrash, S Kim-Schulze, ... Blood 137 (23), 3212-3217, 2021 | 36 | 2021 |
The cancer-associated genetic variant rs3903072 modulates immune cells in the tumor microenvironment Y Zhang, M Manjunath, J Yan, BA Baur, S Zhang, S Roy, JS Song Frontiers in Genetics, section Bioinformatics and Computational Biology, 2019 | 30 | 2019 |
Checkpoint blockade-induced CD8+ T cell differentiation in head and neck cancer responders L Zhou, Z Zeng, AM Egloff, F Zhang, F Guo, KM Campbell, P Du, J Fu, ... Journal for immunotherapy of cancer 10 (1), 2022 | 28 | 2022 |
Machine learning modeling of protein-intrinsic features predicts tractability of targeted protein degradation W Zhang, SSR Burman, J Chen, KA Donovan, Y Cao, C Shu, B Zhang, ... Genomics, Proteomics & Bioinformatics, 2022 | 22 | 2022 |
Topical therapy for regression and melanoma prevention of congenital giant nevi YS Choi, TH Erlich, M von Franque, I Rachmin, JL Flesher, EB Schiferle, ... Cell 185 (12), 2071-2085. e12, 2022 | 22 | 2022 |
Clonal tracing reveals diverse patterns of response to immune checkpoint blockade SS Gu, X Wang, X Hu, P Jiang, Z Li, N Traugh, X Bu, Q Tang, C Wang, ... Genome biology 21, 1-28, 2020 | 19 | 2020 |
Functional analysis of low-grade glioma genetic variants predicts key target genes and transcription factors M Manjunath, J Yan, Y Youn, KL Drucker, TM Kollmeyer, AM McKinney, ... Neuro-oncology 23 (4), 638-649, 2021 | 13 | 2021 |
MetaTiME integrates single-cell gene expression to characterize the meta-components of the tumor immune microenvironment Y Zhang, G Xiang, AY Jiang, A Lynch, Z Zeng, C Wang, W Zhang, J Fan, ... Nature Communications 14 (1), 2634, 2023 | 10 | 2023 |
ClusterEnG: an interactive educational web resource for clustering and visualizing high-dimensional data M Manjunath, Y Zhang, Y Kim, SH Yeo, O Sobh, N Russell, C Followell, ... PeerJ Computer Science 4, e155, 2018 | 9 | 2018 |
Tutorial: integrative computational analysis of bulk RNA-sequencing data to characterize tumor immunity using RIMA L Yang, J Wang, J Altreuter, A Jhaveri, CJ Wong, L Song, J Fu, L Taing, ... Nature Protocols, 1-11, 2023 | 8 | 2023 |
SequencEnG: an Interactive Knowledge Base of Sequencing Techniques Y Zhang, M Manjunath, Y Kim, J Heintz, JS Song Bioinformatics, bty794, 2018 | 8 | 2018 |
A community challenge to predict clinical outcomes after immune checkpoint blockade in non-small cell lung cancer M Mason, Ó Lapuente-Santana, AS Halkola, W Wang, R Mall, X Xiao, ... Journal of Translational Medicine 22 (1), 190, 2024 | 5 | 2024 |
Leveraging epigenomes and three-dimensional genome organization for interpreting regulatory variation BA Baur, J Shin, J Schreiber, S Zhang, Y Zhang, M Manjunath, JS Song, ... bioRxiv, 2021 | 5 | 2021 |
ABC-GWAS: Functional Annotation of Estrogen Receptor-Positive Breast Cancer Genetic Variants M Manjunath, Y Zhang, S Zhang, S Roy, P Perez-Pinera, JS Song Frontiers in genetics 11, 730, 2020 | 5 | 2020 |
scATAnno: automated cell type annotation for single-cell ATAC sequencing data Y Jiang, Z Hu, AW Lynch, J Jiang, A Zhu, Z Zeng, Y Zhang, G Wu, Y Xie, ... bioRxiv, 2023.06. 01.543296, 2023 | 2 | 2023 |