Star Protocols: Protocol to benchmark gene expression signature scoring techniques for single-cell RNA sequencing data in cancer (Zheng Lab)
January 4, 2023Nighat Noureen123 Xiaojing Wang12 Siyuan Zheng124 • Protocol for benchmarking signature scoring techniques in scRNAseq data analysis • Comparing single-cell and bulk-based approaches in sensitivity and specificity • Using down sampling to simulate the …
Molecular Cancer Theraputics: Sensitization to Ionizing Radiation by MEK Inhibition Is Dependent on SNAI2 in Fusion-Negative Rhabdomyosarcoma (Ignatius, Vaseva, Houghton Labs)
January 3, 2023Nicole R. Hensch, Kathryn Bondra, Long Wang, Prethish Sreenivas, Xiang R. Zhao, Paulomi Modi, Angelina V. Vaseva, Peter J. Houghton, Myron S. Ignatius Abstract In fusion-negative rhabdomyosarcoma (FN-RMS), a pediatric malignancy with skeletal muscle ch …
Genes & Cancer: Slit2 signaling stimulates Ewing sarcoma growth (Shiio Lab)
December 19, 2022Kruthi Suvarna1, Panneerselvam Jayabal1, Xiuye Ma1 and Yuzuru Shiio1,2,3 1 Greehey Children’s Cancer Research Institute, The University of Texas Health Science Center, San Antonio, TX 78229-3900, USA 2 Cancer Therapy and Research Center, The University …
Luiz Penalva, PhD to Receive Mike Hogg Fund Award
December 15, 2022Luiz O.F. Penalva, PhD to receive an award from the Mike Hogg Fund in support of his study, “Preventing Senescence Scape to Overcome Tumor Recurrence in Glioblastoma.” Learn more about Dr. Penalva’s research
Computers in Biology and Medicine: Omics-based identification of an NRF2-related auranofin resistance signature in cancer: Insights into drug repurposing (Bishop Lab)
December 12, 2022Marcelo Falchettia Marina Delgoboa Helena Zancanaroa Karoline Almeidaa Raquel Nascimentodas Nevesac Barbarados Santosa Natália Marcéli Stefanes Alexander Bishop Maria Cláudia Santos-Silvab AlfeuZanotto-Filhoa Highlights • A 29-gene auranofin resistance …
Genomics, Proteomics & Bioinformatics: Genome of White-blotched River Stingray Provides Novel Clues for Niche Adaptation and Skeleton Formation (Zheng Lab)
December 8, 2022Jingqi Zhoua Ake Liub Funan He Yunbin Zhang Libing Shenef JunYugh XiangZhangi Abstract The white-blotched river stingray (Potamotrygon leopoldi) is a cartilaginous fish native to the Xingu River, a tributary of the Amazon River system. As a rare freshw …
Nature Communications: Genomic disparities between cancers in adolescent and young adults and in older adults (Wang, Langevin, Houghton, & Zheng)
December 6, 2022Xiaojing Wang, Anne-Marie Langevin, Peter J. Houghton & Siyuan Zheng Cancers cause significant mortality and morbidity in adolescents and young adults (AYAs), but their biological underpinnings are incompletely understood. Here, we analyze clinical …
Cancers: Inhibition of LIFR Blocks Adiposity-Driven Endometrioid Endometrial Cancer Growth (Chen, Lai, Zheng)
November 15, 2022by Logan Blankenship Uday P. Pratap Xue Yang Zexuan Liu Kristin A. Altwegg Bindu Santhamma Kumaraguruparan Ramasamy Swapna Konda Yidong Chen Zhao Lai Siyuan Zheng Gangadhara R. Sareddy Philip T. Valente Edward R. Kost Hareesh B. Nair Rajeshwar R. …
Cancers MDPI: Transformer for Gene Expression Modeling (T-GEM): An Interpretable Deep Learning Model for Gene Expression-Based Phenotype Predictions (Chen Lab)
October 14, 2022Ting-He Zhang, Md Musaddaqul Hasib, Yu-Chiao Chiu, Zhi-Feng Han, Yu-Fang Jin, Mario Flores, Yidong Chen and Yufei Huang Simple Summary Cancer is the second leading cause of death worldwide. Predicting phenotype and understanding makers that define the …
Hepatology: Melanoma Differentiation Associated Gene-9/Syndecan Binding Protein (MDA-9/SDCBP) Promotes Hepatocellular Carcinoma (HCC) [Lai]
September 22, 2022Debashri Manna,Saranya Chidambaranathan Reghupaty,Maria Del Carmen Camarena,Rachel G. Mendoza,Mark A. Subler,Jennifer E. Koblinski,Rebecca Martin,Mikhail G. Dozmorov,Nitai D. Mukhopadhyay,Jinze Liu,Xufeng Qu,Swadesh K. Das,Zhao Lai,Jolene J. Windle,Pau …