Recent Publications

Edwards N, Dillard C, NM Prashant, Liu H, Yang M, Ulianova, E, Horvath A. (2023) SCExecute: custom cell barcode-stratified analyses of scRNA-seq data. Bioinformatics. 1;39(1):btac768. doi: 10.1093/bioinformatics/btac768. https://pubmed.ncbi.nlm.nih.gov/36448703/

Lee J, Olivieri C, Ong C, Masterson LR, Gomez S, Lee B-S, Lorenz K, Veglia G, and Rosner MR. (2022) Raf-kinase inhibitory protein (RKIP) regulates the cAMP-dependent protein kinase signaling pathway through a positive feedback loop. Proceedings of the National Academy of Sciences of the United States of America. 119(25): e2121867119 https://pubmed.ncbi.nlm.nih.gov/35696587/

Padilla J, Lee B-S, Zhai K, Rentz B, Bobo T, Dowling N.M, and Lee J. (2022) A heme-binding transcription factor BACH1 regulates lactate catabolism in triple-negative breast cancer. Cells. 11(7):1177 https://pubmed.ncbi.nlm.nih.gov/35406740/

Wu B, Zhang X, Chiang H-C, Pan, H, Yuan B, Mitra P, Qi L, Simonyan H, Young CN, Yvon E, Hu Y, Zhang N, Li R. (2022) RNA polymerase II pausing factor NELF in CD8 + T cells promotes antitumor immunity. Nature Communications 13:2155. https://pubmed.ncbi.nlm.nih.gov/35444206/

Sun X, Wu B, Chiang H-C, Deng H, Zhang X, Xiong W, Liu J, Rozeboom AM, Harris B, Blommaert E, Gomez A, Garcia RE, Zhou Y, Mitra P, Prevost M, Zhang D, Banik D, Isaacs C, Berry D, Lai C, Chaldekas K, Latham PS, Brantner CA, Popratiloff A, Jin VX, Zhang N, Hu Y, Pujana MA, Curiel TJ, An Z, Li R. (2021) Tumour DDR1 Promotes Collagen Fibre Alignment to Instigate Immune Exclusion. Nature 599:673. https://pubmed.ncbi.nlm.nih.gov/34732895/

Li Z, Li Z, Cheng X, Wang S, Wang X, Ma S, Lu Z, Zhang H, Zhao W, Chen Z, Yao Y, Zhang C, Chao L, Li W, Fei T. (2023) Intrinsic RNA targeting constrains the utility of CRISPR-Cas13 systems. In press, Nature Biomedical Engineering.

Cheng X, Li Z, Shan R, Li Z, Wang S, Zhou W, Zhang H, Chao L, Peng J, Fei T, Li W. (2023) Modeling CRISPR-Cas13d on-target and off-target effects using machine learning approaches. Nature Communications 2023, 14 (752). https://pubmed.ncbi.nlm.nih.gov/36765063/

Dai W, Wu F, McMyn N, Song B, Walker-Sperling V, Varriale J, Zhang H, Barouch D, Siliciano J, Li W, Siliciano R. (2022) Genome-wide CRISPR screens identify combinations of candidate latency reversal agents for targeting the latent HIV-1 reservoir. Science Translational Medicine 14 (667) abh3351.https://pubmed.ncbi.nlm.nih.gov/36260688/

Dahlin M, Singleton SS, David JA, Basuchoudhary A, Wickström R, Mazumder R, Prast-Nielsen S. (2022) Higher levels of Bifidobacteria and tumour necrosis factor in children with drug-resistant epilepsy are associated with anti-seizure response to the ketogenic diet. eBioMedicine (part of The Lancet discovery science). PMID: 35598439. https://pubmed.ncbi.nlm.nih.gov/35598439/

Lyman DF, Bell A, Black A, Dingerdissen H, Cauley E, Gogate N, Liu D, Joseph A, Kahsay R, Crichton DJ, Mehta A, Mazumder R. (2022) Modeling and integration of N-glycan biomarkers in a comprehensive biomarker data model. Glycobiology. PMID: 35925813. https://pubmed.ncbi.nlm.nih.gov/35925813/

Elzarki AF, Nandula SR, Awal H, Simon GL, Sen S. (2022) Cardiovascular disease (CVD) risk assessment of HIV medication regimens using hematopoietic CD34+ progenitor cells. Stem Cell Res Ther. 13(1):103. doi: 10.1186/s13287-022-02775-6. PMID: 35255964. https://pubmed.ncbi.nlm.nih.gov/35255964/

Jared M. Gollie, Sen S. (2022)  Circulating Endothelial Progenitor and Mesenchymal Stromal Cells as Biomarkers for Monitoring Disease Status and Responses to Exercise. Rev. Cardiovasc. Med. 23(12), 396.https://doi.org/10.31083/j.rcm2312396

Nandula SR, Nylen ES, Sen S. (2023) Novel Therapeutics in Nonalcoholic Fatty Liver Disease: A Focus on Adult Stem Cells. Metab Syndr Relat Disord. doi: 10.1089/met.2022.0069. Epub ahead of print. PMID: 36625898. https://pubmed.ncbi.nlm.nih.gov/36625898/

Sen S, Khosla S, Awan O, Cohen S and Gollie JM (2023) Endothelial dysfunction in autoimmune, pulmonary, and kidney systems, and exercise tolerance following SARS-CoV-2 infection. Front. Med. 10:1197061. doi: 10.3389/fmed.2023.1197061. Epub ahead of print. https://pubmed.ncbi.nlm.nih.gov/37575987/

Bagchi RA, Robinson EL, Hu T, Cao J, Hong JY, Tharp CA, Qasim H, Gavin KM, da Silva JP, Major JL, McConnell BK, Seto E, Lin H, McKinsey TA. (2022) Reversible lysine fatty acylation of an anchoring protein mediates adipocyte adrenergic signaling. Proc Natl Acad Sci 119, e2119678119. https://pubmed.ncbi.nlm.nih.gov/35149557/

Ho T, Peng C, Seto E, Lin H. (2023) A Trapoxin A analog as a selective nanomolar inhibitor of HDAC11. ACS Chemical Biology https://doi.org/10.1021/acschembio.2c00840

Sweeney EE, Sekhri P, Telaraja D, Chen J, Chin SJ, Chiappinelli KB, Sanchez CE, Bollard CM, Cruz CRY, Fernandes R. (2023) Engineered tumor-specific T cells using immunostimulatory photothermal nanoparticles," Cytotherapy 2023 25(7), 718, doi: 10.1016/j.jcyt.2023.03.014. https://pubmed.ncbi.nlm.nih.gov/37278683/

Sekhri P, Ledezma DK, Shukla A, Sweeney EE, Fernandes R. (2022) The Thermal Dose of Photothermal Therapy Generates Differential Immunogenicity in Human Neuroblastoma Cells Cancers, 2022, doi: 10.3390/cancers14061447. https://pubmed.ncbi.nlm.nih.gov/35326601/

Young IC, Wu B, Andricovich J, Chuang ST, Li R, Tzatsos A, Wu RC, Wu MY. (2021) Differentiation of Fetal Hematopoietic Stem Cells Requires ARID4B to Restrict Autocrine KITLG/KIT-Src Signaling. Cell Reports 37(8):110036. doi: 10.1016/j.celrep.2021.110036. PMID: 34818550 PMCID: PMC8722094 https://pubmed.ncbi.nlm.nih.gov/34818550/

Zhang, Y., J. Li, Y. Zhou, Z. Li, C. Peng, H. Pei and Zhu W. (2022) And-1 coordinates with FANCM complex to regulate Fanconi anemia signaling and cisplatin resistance. Cancer Res. 2022. Jul 22; doi: 10.1158/0008-5472.CAN-22-0769. https://pubmed.ncbi.nlm.nih.gov/35867033/