S. Stephen Yi
A5063496035- Bioinformatics and Genomic Networks
- MicroRNA in disease regulation
- RNA Research and Splicing
- RNA modifications and cancer
- Cancer Immunotherapy and Biomarkers
- Cancer Genomics and Diagnostics
- CRISPR and Genetic Engineering
- Immunotherapy and Immune Responses
- Single-cell and spatial transcriptomics
- RNA and protein synthesis mechanisms
- Genomics and Rare Diseases
- Computational Drug Discovery Methods
- Epigenetics and DNA Methylation
- DNA Repair Mechanisms
- Gene Regulatory Network Analysis
- T-cell and B-cell Immunology
- Genetic Associations and Epidemiology
- Cancer-related molecular mechanisms research
- Parkinson's Disease Mechanisms and Treatments
- Immune Cell Function and Interaction
- Genetics, Bioinformatics, and Biomedical Research
- PARP inhibition in cancer therapy
- Advanced Biosensing Techniques and Applications
- Ferroptosis and cancer prognosis
- Cancer Research and Treatments
The University of Texas at Austin
2018-2025
Baylor University
2023-2025
Baylor College of Medicine
2025
Guangdong Pharmaceutical University
2025
Livestrong Foundation
2020-2024
Xinxiang Medical University
2024
Dana-Farber Cancer Institute
2014-2023
Austin College
2023
The University of Texas MD Anderson Cancer Center
2016-2023
Cancer Research Foundation
2023
Granzyme A from killer lymphocytes cleaves gasdermin B (GSDMB) and triggers pyroptosis in targeted human tumor cells, eliciting antitumor immunity. However, GSDMB has a controversial role been linked to both anti- protumor functions. Here, we found that splicing variants are functionally distinct. Cleaved N-terminal (NT) fragments of isoforms 3 4 caused pyroptosis, but 1, 2, 5 did not. The nonfunctional have deleted or modified exon 6 therefore lack stable belt motif. likely contributes the...
Host anti-viral factors are essential for controlling SARS-CoV-2 infection but remain largely unknown due to the biases of previous large-scale studies toward pro-viral host factors. To fill in this knowledge gap, we perform a genome-wide CRISPR dropout screen and integrate analyses multi-omics data screen, association studies, single-cell RNA-Seq, host-virus proteins or protein/RNA interactome. This study uncovers many that currently underappreciated, including components V-ATPases, ESCRT,...
Increased risk for autism spectrum disorders (ASD) is attributed to hundreds of genetic loci. The convergence ASD variants have been investigated using various approaches, including protein interactions extracted from the published literature. However, these datasets are frequently incomplete, carry biases and limited a single splicing isoform, which may not be expressed in disease-relevant tissue. Here we introduce new interactome mapping approach by experimentally identifying between...
Sequencing of exomes and genomes has revealed abundant genetic variation affecting the coding sequences human transcription factors (TFs), but consequences such remain largely unexplored. We developed a computational, structure-based approach to evaluate TF variants for their impact on DNA binding activity used universal protein-binding microarrays assay sequence-specific across 41 reference 117 variant alleles found in individuals diverse ancestries families with Mendelian diseases. 77 28...
We can now routinely identify coding variants within individual human genomes. A pressing challenge is to determine which disrupt the function of disease-associated genes. Both experimental and computational methods exist predict pathogenicity genetic variation. However, a systematic performance comparison between them has been lacking. Therefore, we developed exploited panel 26 yeast-based functional complementation assays measure impact 179 (101 disease- 78 non-disease-associated variants)...
Abstract High‐throughput binary protein interaction mapping is continuing to extend our understanding of cellular function and disease mechanisms. However, we remain one or two orders magnitude away from a complete map for humans other major model organisms. Completion will require screening at substantially larger scales with many complementary assays, requiring further efficiency gains in proteome‐scale mapping. Here, report Barcode Fusion Genetics‐Yeast Two‐Hybrid ( BFG ‐Y2H), by which...
Gene regulatory networks (GRNs) comprising interactions between transcription factors (TFs) and loci control development physiology. Numerous disease-associated mutations have been identified, the vast majority residing in non-coding regions of genome. As current GRN mapping methods test one TF at a time require use cells harboring mutation(s) interest, they are not suitable to identify TFs that bind wild-type mutant loci. Here, we gene-centered yeast one-hybrid (eY1H) assays interrogate...
To realize the full potential of immunotherapy, it is critical to understand drivers tumor infiltration by immune cells. Previous studies have linked with neoantigen levels, but broad applicability this concept remains unknown. Here, we find that while observation true across cancers characterized recurrent mutations, does not hold for driven copy number alterations, such as breast and pancreatic tumors. invasion in these cancers, developed an integrative multi-omics framework, identifying...
Dementia is a complex syndrome with various presentations depending on the underlying pathologies. Low emission of transcranial near-infrared (tNIR) light can reach human brain parenchyma and be beneficial to number neurological neurodegenerative disorders. We hereby examined safety potential therapeutic benefits tNIR stimulations in treatment dementia. Patients mild moderate dementia were randomized into active sham groups at 2:1 ratio. Active consisted low power an photobiomodulation for 6...
Abstract Fusion oncoproteins (FOs) arise from chromosomal translocations in ~17% of cancers and are often oncogenic drivers. Although some FOs can promote oncogenesis by undergoing liquid-liquid phase separation (LLPS) to form aberrant biomolecular condensates, the generality this phenomenon is unknown. We explored question testing 166 HeLa cells found that 58% formed condensates. The condensate-forming displayed physicochemical features distinct those condensate-negative segregated into...
The heterogeneity of protein-rich inclusions and its significance in neurodegeneration is poorly understood. Standard patient-derived iPSC models develop neither reproducibly nor a reasonable time frame. Here, we developed screenable "inclusionopathy" utilizing piggyBac or targeted transgenes to rapidly induce CNS cells that express aggregation-prone proteins at brain-like levels. Inclusions their effects on cell survival were trackable single-inclusion resolution. Exemplar cortical neuron...
Discovering effective therapies is difficult for neurological and developmental disorders in that disease progression often associated with a complex interactive mechanism. Over the past few decades, drugs have been identified treating Alzheimer's (AD), especially impacting causes of cell death AD. Although drug repurposing gaining more success developing therapeutic efficacy diseases such as common cancer, complications behind AD require further study. Here, we developed novel prediction...