TITLE: “AI and the Healthcare Safety Net” Hosted by William Hsu for Medical Informatics
Spatial transcriptomics is an emerging field that bridges molecular biology and anatomy. Over the last decade, a battery of assays have been developed that profile gene expression in-situ, i.e, measuring the abundances of mRNA molecules in cells and tissues while retaining information about their spatial locations. This workshop will introduce the basic concepts, major techniques, […]
TITLE: "Metabolic Reprogramming during Epithelial Crowding Underlies Jamming Transition" ABSTRACT: Jamming, crucial for maintaining tissue integrity during morphogenesis and wound healing, becomes dysregulated in carcinoma metastasis and asthma. Despite its pathological significance, the molecular mechanisms governing jamming remain poorly understood. In this study, we utilized time-course transcriptome analysis and isotopologue metabolomics to elucidate the metabolic […]
TITLE: "Evolutionary Consequences of Tumor Initiation in Hereditary Leiomyomatosis and Renal Cell Cancer" ABSTRACT: Hereditary leiomyomatosis and renal cell cancer (HLRCC ) is a rare hereditary condition with individuals at risk of developing renal cell carcinoma (RCC) associated with poor prognosis. Although RCC risk and cancer penetrance of this condition has been studied, whole genome […]
TITLE: TBD Hosted by Grace Xiao for Bioinformatics
Mergeomics is a computational tool designed to elucidate the underlying pathways, networks, and key regulators of complex diseases by integrating multi-omics data (genomics, transcriptomics, epigenomics, proteomics, etc). With use of integrative omics concepts and network modeling methods, this tool can uncover disease-associated gene sets and biological pathways across omics layers and can identify key drivers […]
This workshop aims to provide skills needed to address principles of the assay, quality assessment, sequencing depth, data processing and functional downstream analyses of ChIP-seq datasets. Students will have opportunities to practice hands-on with state-of-the-art analytical tools.
TITLE: “The genetics of pediatric surgical epilepsy disorders: successes, challenges and future avenues” Hosted by Saitta Sulagna for Genetics & Genomics
Learn how to make your applications ready for production and distribution. This workshop will give you your introduction to setting up version control and containerization for your applications to ensure that changes are tracked and dependencies are documented and automatically installed. Git and Docker allow developers and users to quickly replicate code and computing environments […]
This workshop will cover the basis of Next-Gen Sequencing Library Preparation for Illumina Sequencers. Different Library Preparation Techniques (DNA-seq, ChIP-seq, RNA-seq, Methyl-seq) are explained the first and second day in class. The third day, Quality Control steps of the starting input material and final libraries are performed in the Lab (TapeStation). Purification from Primer Dimers […]
TITLE: “AI-based multimodal data fusion in oncology” Hosted by William Hsu for Medical Informatics and UCLA JCCC
High-throughput sequencing technologies have allowed researchers to extract DNA at the individual, population, and species levels. In this workshop, students will learn how to analyze and interpret population-level genetic information with PLINK and R. Students will also be exposed to the literature on the different topics, followed by hands-on exercises and paper discussion.
RNA-seq I aims to provide an introduction and the basics tools to process raw RNA-seq data on a cluster machine (Hoffman2). The workshop can serve also as a starting point to develop a gene expression project. This workshop is divided in three days that will cover major steps of processing RNA-seq. To facilitate learning, the […]
RNA-seq II aims to provide tools for analysis of gene expression data from read counts to biology using R. To facilitate learning, the workshop will use a real case study based approach appropriate for Illumina read data (same as RNA-seq I).
TITLE: "Designing synthetic circuits for biological understanding and therapeutic applications"