Past Seminars
Parse Biosciences Presents, “Simplify Your Data Analysis with Trailmaker”
Single-cell RNA sequencing (scRNA-seq) offers researchers comprehensive insights into biological systems and finds applications in diverse fields such as developmental biology, oncology, and immunology. Yet analyzing single cell data – and generating biological insights from these data – can be challenging because of the data processing and expertise required. Trailmaker, our user-friendly cloud platform for single cell data analysis, is a simple tool designed to help you process and share your data in just a few clicks, with no coding experience required. Plus, Trailmaker is free for all existing Parse customers and academic researchers
Attendance is free, but registration is required.
Genetics, Biomedical Computing and Genomics Seminar Series – “Harnessing alternative polyadenylation and tandem repeat to understand the genetic basis of human diseases”
Dr. Ya (Allen) Cui is a research assistant professor in Prof. Wei Li’s lab in the Department of Biological Chemistry at the University of California Irvine. Dr. Cui will open his own lab early next year. Dr. Cui’s research is focused on understanding the genetic association of tandem repeat (TR) and alternative polyadenylation (APA) association with complex traits and diseases, such as cancer, neurological, cardiovascular, and metabolic diseases. Dr. Cui will present his recently developed alternative polyadenylation transcriptome-wide association method (3′aTWAS) to identify APA-linked susceptibility risk genes (Nature Communications 2023) and an extremely exciting new research direction: TR-gnomAD, now known as TR-Atlas, a biobank-scale TR reference map for diverse ancestries (Cell 2024 and Nature Genetics accepted).
Genetics, Biomedical Computing and Genomics Seminar – Presentations from Drs. Jose Abdenur and Ray Wang from CHOC
Title
“Deficient bioenergetics and antioxidant status in DARS2 deficient fibroblasts and the potential therapeutic effect of aminolevulinate/iron“
Bio
Dr. Jose Abdenur is the Director of the Metabolic Laboratory at CHOC Children’s Hospital (CHOC) in Orange, CA, USA. He is a clinical professor of Pediatrics at the University of California, Irvine, and program director for Clinical Biochemical Genetics in the UCLA Intercampus Medical Genetics Training Program. He is director of the National Organization for Rare Diseases (NORD) CHOC-UCI Center of Excellence for Rare Diseases. His expertise ins in the Diagnosis and treatment of Inborn Errors of Metabolism involving small molecules, specially mitochondrial diseases.
Title
“Genome Editing for Treatment of Rare Lysosomal Storage Diseases”
Bio
Raymond Wang, MD is a board-certified clinical geneticist and biochemical genetics specialist, director of the Campbell Foundation Multidisciplinary Lysosomal Storage Disorder Program at CHOC Children’s, Orange, CA, USA, the CHOC California Institute of Regenerative Medicine Alpha Stem Cell Program, and Associate Clinical Professor of Pediatrics at the University of California-Irvine School of Medicine. Dr. Wang earned his medical degree from the University of California, Los Angeles (UCLA), where he was a member of the Alpha Omega Alpha honors society. He completed his internship and residency in medical genetics and pediatrics at Cedars-Sinai Medical Center, a fellowship in biochemical genetics at the UCLA Intercampus Training Program in 2007, and the UCLA K30 Graduate Program in Translational Investigation in 2008. Dr. Wang oversees clinical care of more than 150 patients with lysosomal storage diseases, including Neuronal Ceroid Lipofuscinoses as a part of the Batten Disease Centers of Excellence Program. His National Institutes of Health / California Institute of Regenerative Medicine-funded and Campbell Foundation Endowed Clinical / Translational Research Program aims to provide hope to patients and families with lysosomal diseases, via access to clinical trials or by conducting groundbreaking translational research to develop new therapies.
PARSE Biosciences – Getting Started with Single Cell Sequencing
SAVE YOUR SPOT!
Single Cell RNA Sequencing (scRNA-seq) is helping researchers uncover new insights in ways not possible with traditional bulk RNA sequencing methods. For researchers interested in learning more or just getting started, we’ve developed a series of four educational webinars focused on demystifying scRNA-seq. – Registration Required
In our first webinar of the series, we’ll explore the fundamentals of single cell RNA sequencing and what research questions it can help you answer.
What You Will Learn:
– Learn about the history and evolution of scRNA-seq
– Understand how it could be used in your research
– Gain an understanding of the technologies available
– Receive a high level overview of the scRNA-seq workflow and important considerations before getting started
Genetics, Biomedical Computing and Genomics Monthly Seminar
Emerging Genetic Drivers of Human Diseases: A genome-wide spectrum of tandem repeat expansions in 338,963 humans
In this talk, Dr. Li will present an extremely exciting new research direction: the Tandem Repeat Genome Aggregation Database (UCI TR-gnomAD; Cell 2024). This groundbreaking project has positioned UCI as a leader in human and medical genetics. TR-gnomAD provides the first genetic reference maps for approximately 0.8 million Tandem Repeat (TR) expansions, such as the CAG expansion in Huntington’s disease, across 340,000 humans. It revolutionizes TR-based disease-association studies, health disparity research, and clinical diagnostics. The international research and medical communities, including scientists, physicians, and genetic counselors, will heavily rely on TR-gnomAD for interpreting TR expansions in genetic diseases,
Explore the Next Dimension of Spatial Biology
Introducing Plexa, the world’s most powerful 3D in-situ multi-omics analysis technology – Speaker: Jay Nakamura Clark, Market Development Manager, Stellaromics
Join us to be one of the first to learn about Stellaromics 3D spatial biology technology. The Stellaromics Plexa system captures high resolution 3D multi-omic information from thick tissue samples with intact tissue architecture.
Plexa is based on the 3D spatial transcriptomic STARmap and spatial translatomics RIBOmap technologies. Applications include 3D cell mapping, multi-layer differential gene expression, therapeutic delivery analysis, organoid-based drug discovery, CRISPR optical screening, and much more!
For questions, please email jay.clark@stellaromics.com
Genetics, Biomedical Computing and Genomics Monthly Meeting – “Translational Science at CFCCC-Opportunities for Collaboration and Clinical Trials”, Farshid Dayyani, MD, PhD
Dr. Dayyani is a Professor of Clinical Medicine in the Division of Hematology/Oncology at University of California Irvine and board certified in Medical Oncology. He is also the Associate Director for Translational Science and the Medical Director of the Clinical Trials Unit at the Chao Family Comprehensive Cancer Center at UC Irvine.
Dr. Dayyani performs clinical and translational research in gastrointestinal and hepatobiliary carcinomas. He manages a wide portfolio of investigator initiated, NCI funded and industry sponsored clinical trials to develop novel treatment options and establish new biomarkers. He obtained his MD/PhD from LMU Munich, Germany, followed by a research fellowship and residency in internal medicine at Harvard Medical School, Boston. He then completed a combined clinical and research fellowship in medical oncology at the UT MD Anderson Cancer Center, Houston, TX. Dr. Dayyani also has industry experience as Global Clinical Lead for Oncology at Roche Diagnostics, Int. in Rotkreuz, Switzerland, prior to joining UC Irvine.
Translational Science at CFCCC-Opportunities for Collaboration and Clinical Trials – Video
Curio Seminar on High-Resolution Spatial Biology – Join us to learn how Curio Seeker and Trekker are redefining the single-cell spatial transcriptomics world!
Curio Trekker (NEW – in early access) As the first true single-cell mapping kit, you no longer need to wonder how your cells are spatially organized.
Curio Seeker
Single Cell Scale (10μm)
Unbiased Whole-Transcriptome
Flexible and Easy with No Optimization
Fast and Affordable
Any organism
Experimental Design Sessions with 10x-perts – An invitation to an Experimental Design Session with 10x Genomics
The vast complexities of biology require approaches to build a complete picture, starting from single cells to tissues and beyond. At 10x Genomics, we provide single cell, spatial, and in situ technologies that fuel scientific discoveries and drive exponential progress. Unravel highly complex biological systems, while bringing into focus the details that matter most.
Join us to learn how Chromium Single Cell, Visium Spatial, and Xenium In Situ platforms from 10x Genomics can help you push the boundaries of your research. Uncover molecular insights, dissect cell-type differences, investigate the adaptive immune system, detect novel subtypes and biomarkers, and map the epigenetic landscape cell by cell. Enabling deeper insight into cancer, immunology, neuroscience, and developmental biology, 10x Genomics gives researchers the ability to see biology in new way.
Please email christine.kao@10xgenomics.com to schedule an appointment.
UCI Spatial Omics Symposium
The Genomics Research and Technology Hub and Precision Health are excited to bring you “UCI Spatial Omics”, an afternoon of recent progress in spatial omics research. Please join us for lively discussions of progress, challenges, and future applications of these technologies
Agenda
Time Presenter Topic 1:00 – 1:15 PM Michael Hicks Spatial transcriptomics combined with CRISPR/Cas9 to interrogate cell-niche interactions 1:15 – 1:30 PM Matt Rose Customizing the slide-seq platform 1:30 – 1:45 PM Matt Blurton Jones Peripherally-derived human monocytes induce a chronic proinflammatory state within the brains of chimeric mice 1:45 – 2:00 PM Yingzi Liu Spatial transcriptomics genomics in skin using the 10x Genomics Visium platform 2:00 – 2:10 PM Q&A Session 1 Q&A 2:10 – 2:30 PM Break 2:30 – 2:45 PM Bogi Anderson Skin spatial transcriptomic on the Resolve Molecular Cartography platform 2:45 – 3:00 PM Madi Tetzlaff Spatial transcriptomics of the paraventricular thalamus in mouse and human: considering a possible node of enduring emotional memory 3:00 – 3:15 PM Zhiqun Tan Application of Vizgen MERFISH to brain circuitry discovery 3:15 – 3:30 PM Vivek Swarup Spatial transcriptomics approaches to neuroscience: opportunities and challenges 3:30 – 3:45 PM Kim Green Nanostring CosMx for single cell spatial transcriptomic and proteomic exploration of the mouse brain 3:45 – 4:00 PM Devon Lawson Exploring breast cancer development using 10X Genomics Visium and Xenium platforms 4:00 – 4:15 PM Mara Burns Spatiotemporal transcriptomics analysis of the R6/2 HD mouse brain reveals distinct and early molecular signatures 4:15 – 4:30 PM Q&A Session 2 Q&A 4:30 – 4:45 PM Vanessa Scarfone Spatial proteomics using imaging mass cytometry 4:45 – 5:00 PM Felix Grun Spatial metabolomics, lipidomics and peptidomics by IMS 5:00 – 5:15 PM Q&A Session 3 Q&A 5:30 – 6:00 PM Reception 
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