| Unsupervised topological alignment for single-cell multi-omics integration K Cao, X Bai, Y Hong, L Wan Bioinformatics 36 (Supplement_1), i48-i56, 2020 | 112 | 2020 |
| Colorectal Cancer Metastases in the Liver Establish Immunosuppressive Spatial Networking between Tumor-Associated SPP1+ Macrophages and Fibroblasts A Sathe, K Mason, SM Grimes, Z Zhou, BT Lau, X Bai, A Su, X Tan, ... Clinical Cancer Research 29 (1), 244-260, 2023 | 42 | 2023 |
| DensityPath: an algorithm to visualize and reconstruct cell state-transition path on density landscape for single-cell RNA sequencing data Z Chen, S An, X Bai, F Gong, L Ma, L Wan Bioinformatics 35 (15), 2593-2601, 2019 | 24 | 2019 |
| Single-molecule methylation profiles of cell-free DNA in cancer with nanopore sequencing BT Lau, A Almeda, M Schauer, M McNamara, X Bai, Q Meng, M Partha, ... Genome Medicine 15 (1), 33, 2023 | 10 | 2023 |
| Joint inference of clonal structure using single-cell genome and transcriptome sequencing data X Bai, Z Duren, L Wan, LC Xia bioRxiv, 2020.02. 04.934455, 2020 | 6 | 2020 |
| A branch point on differentiation trajectory is the bifurcating event revealed by dynamical network biomarker analysis of single-cell data Z Chen, X Bai, L Ma, X Wang, X Liu, Y Liu, L Chen, L Wan IEEE/ACM Transactions on Computational Biology and Bioinformatics 17 (2 …, 2018 | 5 | 2018 |
| Single-cell multi-gene identification of somatic mutations and gene rearrangements in cancer SM Grimes, HS Kim, S Roy, A Sathe, CI Ayala, X Bai, ... NAR cancer 5 (3), zcad034, 2023 | 2 | 2023 |
| Single cell multi-omic mapping of subclonal architecture and pathway phenotype in primary gastric and metastatic colon cancers X Bai, B Lau, SM Grimes, A Sathe, HP Ji bioRxiv, 2022.07. 03.498616, 2022 | 2 | 2022 |
| GITR and TIGIT immunotherapy provokes divergent multicellular responses in the tumor microenvironment of gastrointestinal cancers A Sathe, C Ayala, X Bai, SM Grimes, B Lee, C Kin, A Shelton, ... Genome Medicine 15 (1), 100, 2023 | 1 | 2023 |
| Statistical test of structured continuous trees based on discordance matrix X Bai, L Ma, L Wan Bioinformatics 35 (23), 4962-4970, 2019 | 1 | 2019 |
| Densitypath: a level-set algorithm to visualize and reconstruct cell developmental trajectories for large-scale single-cell rnaseq data Z Chen, S An, X Bai, F Gong, L Ma, L Wan bioRxiv, 276311, 2018 | 1 | 2018 |
| A nanopore sequencing approach characterizes cell-free DNA methylation-fragmentomics profiles indicative of breast cancer in a large cohort X Bai, BT Lau, A Almada, S Grimes, T Chen, H Lee, HP Ji Cancer Research 84 (6_Supplement), 4920-4920, 2024 | | 2024 |
| Identifying cell free DNA methylation signatures in cerebrospinal fluids for the early detection of brain metastasis in non-small cell lung cancer T Chen, BT Lau, X Bai, MH Gephart, HP Ji Cancer Research 84 (6_Supplement), 7019-7019, 2024 | | 2024 |
| Single cell transcriptomic analysis of malignant peritoneal mesothelioma: finding the tumor cells? CI Ayala, A Sathe, X Bai, S Grimes, B Lee, HP Li ANNALS OF SURGICAL ONCOLOGY 31 (1), S236-S237, 2024 | | 2024 |
| Single cell transcriptomic analysis reveals differences between primary appendiceal tumors CI Ayala, A Sathe, X Bai, S Grimes, B Lee, HP Ji ANNALS OF SURGICAL ONCOLOGY 31 (1), S230-S230, 2024 | | 2024 |
| Joint inference of clonal structure using single-cell genome and transcriptome sequencing data X Bai, Z Duren, L Wan, LC Xia NAR Genomics and Bioinformatics 6 (1), lqae017, 2024 | | 2024 |
| A spatially mapped gene expression signature for intestinal stem-like cells identifies high-risk precursors of gastric cancer RJ Huang, IA Wichmann, A Su, A Sathe, MV Shum, SM Grimes, R Meka, ... bioRxiv, 2023 | | 2023 |
| Heterogenous cellular responses to GITR and TIGIT immunotherapy in the human gastrointestinal tumor microenvironment A Sathe, C Ayala, X Bai, SM Grimes, A Shelton, B Lee, C Kin, ... Cancer Research 83 (7_Supplement), 4121-4121, 2023 | | 2023 |
| Single molecule methylation sequencing of circulating DNA identifies individuals with breast cancer BT Lau, X Bai, A Notestine, B Parkinson, HP Ji, L Nadauld Cancer Research 83 (7_Supplement), 786-786, 2023 | | 2023 |
| Spatial single-cell atlas of stage III colorectal cancer A Su, M Tran, HJ Lee, A Sathe, X Bai, R Cruz, L Pflieger, Q Nguyen, HP Ji, ... Cancer Research 83 (7_Supplement), 3116-3116, 2023 | | 2023 |
