Summer Seminar Series
This seminar series is intended to be a forum for BISB and BMI faculty to share their research and for incoming students to learn about the research opportunities available.
Each session will host two faculty members, where they will present their research in 20-25 minute and answer 5-10 minutes of guided Q&A. The BISB graduate program coordinator will notify the BISB Program mailing list in the days ahead of each seminar, including information about the presenters and a password-protected link to the Zoom meeting.
If you are unable to attend a seminar or you would like to rewatch a talk, we will post recordings here.
Schedule
Thursday, June 23 Flyer Recording
Wolfgang Busch, PhD
Professor, Hess Chair in Plant Science, Salk Institute
"Decoding Root Growth to Address Climate Change"
Research terms: Systems Genetics of Root Growth, Plant Based Carbon Sequestration
Graham McVicker, PhD
Assistant Professor, Rentschler Developmental Chair, Salk Institute
"Using genome perturbations to decipher genetic variants with associated with immune traits"
Research terms: CRISPR, genome perturbations, genetic variation, human genetics, bioinformatics
Thursday, June 30 Flyer Recording
Tsung-Ting (Tim) Kuo, PhD
Assistant Professor of Medicine, Department of Biomedical Informatics
"Biomedical Predictive Modeling on Blockchain"
Research terms: healthcare, blockchain, predictive modeling
Qi (Rose) Yu, PhD
Assistant Professor, Department of Computer Science and Engineering
"Mean aortic pressure forecasting with deep sequence models"
Research terms: cardiovascular, deep learning, time series, forecasting
Thursday, July 07 Flyer Recording
Yatish Turakhia, PhD
Assistant Professor, Department of Electrical and Computer Engineering
"Pandemic-scale Phylogenetics"
Research terms: COVID-19 Phylogenetics, Phylogenetic placement, Phylogenetic tree optimization, SARS-CoV-2 recombination
Vineet Bafna, PhD
Professor, Department of Computer Science & Engineering.
"Extrachromosomal DNA in cancer"
Research terms: Cancer genomics, Population genetics, algorithms for computational biology
Thursday, July 14 Flyer Recording
Kathleen (Kit) Curtius, PhD
Assistant Professor, Division of Biomedical Informatics, Department of Medicine
"Quantitative modeling of cancer evolution and early detection"
Research terms: mathematical modeling, pre-cancer evolution, translational bioinformatics
Chris Benner, PhD
Assistant Professor, Deptartment of Medicine
"Deciphering the cis-regulatory grammar of transcription initiation"
Research terms: transcription, TSS, motif finding, cis-regulatory grammar, transcription factors
Thursday, July 21 Flyer Recording
Nathan Lewis, PhD
Associate Professor, Departments of Pediatrics and Bioengineering
"Individuals can expose the social network of cells: Linking single cells to phenotypes with single cell omics"
Rob Knight, PhD
Professor, Departments of Pediatrics, Bioengineering, and Computer Science and Engineering
"Microbiome research in the Knight Lab and at the Center for Microbiome Innovation"
Research terms: microbiology, DNA sequencing, ecology and computer science
Thursday, July 28 Flyer Recording
Ferhat Ay, PhD
Associate Professor of Computational Biology, La Jolla Institute for Immunology (LJI)
"Computational methods for studying the 3D organization of the human genome"
Research terms: 3D genome, Hi-C, HiChIP, enhancers, genetic variants
Ron Evans, PhD
Professor, Head of Gene Expression Laboratory, Salk Institute
"A universal gut microbiome signature predicts non-alcoholic fatty liver disease (NAFLD)"
Thursday, August 04 Flyer Recording
Matteo D'Antonio, PhD
Assistant Professor, Division of Biomedical Informatics, Department of Medicine
"Understanding the associations between genetic variation and complex traits in diverse and admixed individuals"
Research terms: human genetics; genome-wide association studies; genetic variation
Christine Cheng, PhD
Associate Professor, Department of Psychiatry
"Single cell transcriptomics for opioid use disorder and Alzheimer's disease"
Research terms: single cell transcriptomics/epigenetics, 3D brain organoid, Alzheimer’s disease, opioid addiction, HIV
Thursday, August 11 Flyer Recording
Alon Goren, PhD
Assistant Professor, Department of Medicine
"Development of tools for interrogating the in vivo dynamic interactions of biomolecules"
Research terms: epigenomic mechanisms; basic and disease biology; technological innovations and computational analyses
Jill Mesirov, PhD
Professor, Department of Medicine
"Computational approaches to the understanding and treatment of cancer"
Research terms: cancer genomics, precision medicine, computational biology, software tools
Thursday, August 18 Flyer Recording
Eran Mukamel, PhD
Associate Professor, Department of Cognitive Science
"Neuronal epigenomes and cognitive diversity"
Research terms: Epigenome, Brain Development, DNA Methylation, Single cells
Bing Ren, PhD
Professor, Department of Cellular and Molecular Medicine
"Single cell epigenome analysis in health and disease"
Research terms: Epigenetics, Gene Regulation, 3D genome, Brain, Cancer
Thursday, August 25 Flyer Recording
Hannah Carter, PhD
Associate Professor, Department of Medicine, Division of Medical Genetics
"Variant interpretation for applications in precision cancer medicine"
Research terms: Precision cancer medicine, immunotherapy, variant interpretation, gene regulatory networks, machine learning
Christian Metallo, PhD
Professor, Salk Institute M-CBL and UCSD Department of Bioengineering (Adjunct)
"Exploring metabolic drivers of disease from gene to flux"
Research terms: amino acids, lipid, metabolic flux, enzyme promiscuity, cancer, neuropathy
Thursday, September 01 Flyer Recording
Gen-Sheng Feng, PhD
Professor of Pathology and Molecular Biology
"Bioinformatic analysis of liver development and cancer"
Research terms: Anti-oncogenic roles of classic oncoproteins, molecular mechanisms of liver cancer initiation, liver cancer immunotherapy
Abraham Palmer, PhD
Professor & Vice Chair for Basic Research, Department of Psychiatry
"Using outbred rats for genome-wide association studies"
Research terms: behavioral genetics, psychiatric genetics, substance abuse, impulsivity, human genetics, rat genetics, mouse genetics
Thursday, September 08 Flyer Recording
Vikas Bansal, PhD
Associate Professor, Division of Genome Information Sciences (Pediatrics), School of Medicine
"Variant calling in low-copy repeats in the human genome"
Research terms: variant calling, DNA sequencing technologies, long repeats, duplicated genes
Siavash Mirarab, PhD
Associate Professor, Department of Electrical and Computer Engineering
"Algorithmic methods for analyzing genome skimming and metagenomic data"
Research terms: Genome skimming, Metagenomics, Phylogenetics, Algorithmic development
Seminars will take place 12:00 PM-1:00 PM every Thursday from June 23rd until September 8th.
Questions?
If you’re having trouble setting up Zoom, follow instructions for downloading Zoom and associating it with your UCSD account.
Please contact the bootcamp instructors if you have any questions or if you are having difficulties accessing this seminar.