Videos
Nicholas Mancuso | Variational Inference for Fun and Profit | CGSI 2024
Francesco Paolo Casale | ML-enabled Genetic Association Studies of High-Content Phenotypes | CGSI 2024
Xinjun Zhang | Promises and Pitfalls of Scaling in Population Genetic Simulations | CGSI 2024
Pavel Skums | Harnessing Computational Genomics for Predicting Viral Evolution | CGSI 2024
Chongzhi Zang | Epigenomics Data Analysis: A Tutorial | CGSI 2024
Wei Wang | Information Retrieval in the Era of Large Language Models | CGSI 2024
Ritambhara Singh | Spatial modeling of single-cell data using deep learning | CGSI 2024
Mohammed El-Kebir | Introduction to mRNA Design | CGSI 2024
Tandy Warnow | Tutorial on Phylogenomic Tree Estimation | CGSI 2024
Paul Spellman | Constraints on Tumor Development | CGSI 2024
Loes Olde Loohuis | Using biobanks to study people that are not in it | CGSI 2024
Loes Olde Loohuis | Psychiatric phenotyping from EHR, yes, we can! | CGSI 2024
Mohammed El-Kebir | Introduction to Integer Linear Programming | CGSI 2024
Pavel Pevzner | Uni-alignment: A Parameter-free Framework for Fast and Accurate Sequence Alignment | CGSI 2024
Xinzhu (APRIL) Wei | Genotype Representation Graph/ Enabling Efficient Analysis of Biobank-Scale Data | CGSI 2024
Timothy Chang | Modeling Alzheimer’s disease Risk in Real World Data | CGSI 2024
Smita Krishnaswamy | Uncovering Cellular dynamics and metabolism with Geometric deep learning and optimal transport | CGSI 2024
Shaojie Zhang | PBWT-based Algorithms for Large Cohort Genetics | CGSI 2024
Saharon Rosset | Using Classical Algorithms for Modern Applications/ MCMC for Tail Calculations, EM for PET reconstruction | CGSI 2024
Sagiv Shifman | Using pooled CRISPR screens to study biology | CGSI 2024
Rahul Krishnan | Bridging the gap: Deep Learning and Causality | CGSI 2024
Pavel Pevzner | Uni-alignment: A Parameter-free Framework for Fast and Accurate Sequence Alignment | 2024
Nandita Garud | Inference of the selective effects and demographic histories of human gut commensals | CGSI 2024
Lisa Bastarache | The real world phenotypic presentation of Mendelian disease | CGSI 2024
Haoyu Cheng | Reconstructing Every Haplotype with De Novo Assembly | CGSI 2024
Haky Im | On the problem of inflation in TWAS and other xWAS | CGSI 2024
Jingyi Jessica Li | Categorization of 31 computational methods to detect spatially variable genes from spatially resolved transcriptomics data | CGSI 2024
Mohammed El-Kebir | Introduction to Integer Linear Programming | CGSI 2024
Irene Chen | Leveraging Large Datasets and Large Language Models for Healthcare | CGSI 2024
Ahmed Alaa | Applications of Conformal Prediction in Medicine | CGSI 2024
Matthew Stephens | Empirical Bayes and its applications: shrinkage, hypothesis testing, and more | CGSI 2024
Rayan Chikhi | A Chalk Talk on Applications of K-mers | CGSI 2024
Rayan Chikhi | Project Logan Assembling all public sequencing data | CGSI 2024
Eleazar Eskin | Challenges in Developing a Universal Metagenomic Diagnostic Test | 2024
Jo Hardin | Fitting time-dependent models using sicegar with applications to the timing of transcription of RpoS-dependent genes in E-coli | CGSI 2024
David Knowles | Using the Pyro probabilistic programming language for statistical genomics | CGSI 2024
Harold Pimentel | Hierarchical Models for Deep Mutational Scans | CGSI 2024
Brian Browning | Bref4 compression: increasing the analyses that can be performed directly on compressed sequence data | CGSI 2024
Jing Zhang | Dissecting the Gene Regulatory Grammer at a Single cell Resolution | CGSI 2024
Jason Ernst | Computational Methods for Modeling and Analyzing Epigenomic Data | CGSI 2024
Alex Zelikovsky | SARS CoV 2 Saltations and Punctuational Evolution | CGSI 2024
Julia Salzman | SPLASH: Statistical signal extraction for unified genomic discovery | CGSI 2024
Tandy Warnow | Statistically consistent estimation of level-1 phylogenetic networks from SNPs | CGSI 2024
Juan Gutiérrez | The Flaws of Others: Large Language Models in Biomedical Research | CGSI 2024
Can Alkan | Acceleration of bioinformatics workloads through hardware-algorithm co-design and processing-in-memory technologies | CGSI 2024
Vineet Bafna | ecDNA and Breakage Fusion Bridge: two facets of oncogene amplification in cancer | CGSI 2024
Stefano Lonardi | How to “Squeeze” the Best Genome Assembly From Your HiFi Reads | CGSI 2024
Sushmita Roy | Matrix factorization and applications to bulk and single cell omic datasets | CGSI 2024
Ritambhara Singh | An introduction to graph neural networks | CGSI 2024
Vikas Bansal | Detection of genetic variation in highly homologous genes using short read sequencing | CGSI 2024
Han Chen | StocSum: a reference panel free summary statistics framework for diverse populations | CGSI 2024
Wenyi Wang | A Guide to Perform Transcriptomic Deconvolution in Cancer | CGSI 2024
Brian Browning | Compression of Phased Sequence Data | CGSI 2024
Christina Leslie | New Machine Learning Models for Single-cell and Regulatory Genomics | CGSI 2024
David Koslicki | YACHT: an ANI-based statistical test to detect microbial presence or absence in metagenomes | CGSI 2024
Sriram Sankararaman | Methods for Analyzing Biobank Data: Statistical, Computational, and Privacy Challenges | CGSI 2024
Hua Zhou | Statistical and Computational Algorithms for Analyzing Biobank Data | CGSI 2024
Kris Sankaran | Topic Models for Multiscale Analysis | CGSI 2024
Kenneth Lange | Examples of MM Algorithms | CGSI 2024
Sagi Snir | Assembling the Tree of Life in Light of Conflicting Signals | CGSI 2024
Jason Xu | Improving k means clustering via simple iterative optimization | CGSI 2024
Rajesh Ranganath | Understanding the Role of Causality in AI for Healthcare | CGSI 2024
Christoph Lippert | Conservation of Historic Patient Records from Walter Kempner’s Rice Diet for Hypertension | CGSI 2024
Gamze Gürsoy | Privacy-preserving techniques for precision medicine | CGSI 2024
Casey Greene | Some issues with deconvolution using single-cell profiles | CGSI 2024
Matthew Stephens | Empirical Bayes Matrix Factorization and Parts-based Representations | CGSI 2024
Julia Vogt | Echoes Over Time: Detecting Heart Defects in Newborns | CGSI 2024
Jazlyn Mooney | Using dogs as a model system in genomics | CGSI 2024
Jeffrey Chiang | Towards foundation models for Electronic Health Records | CGSI 2024
Rajesh Ranganath | Digging into the foundations of generative AI for healthcare | CGSI 2024
Jason Ernst | Computational Methods for Cross-species Epigenomic Analyses | CGSI 2024
Daniel Tward | Classical and Deep Learning Approaches to Longitudinal Modeling in Neuroimages | CGSI 2024
Kayhan Batmanghelich | Synthetic Data In Medical Imaging: Are we there yet? | CGSI 2024
Iman Hajirasouliha | AI Models in Reproductive Medicine | CGSI 2024
Corey Arnold | Applications of AI in Healthcare: From the EHR to Imaging | CGSI 2024
Jingyi Jessica Li | Controlling False Discoveries in Genomics Data Analysis: What is the Null Hypothesis? | CGSI 2023
Ben Raphael | Models and Methods for Spatial Transcriptomics | CGSI 2023
Ben Raphael | Evolutionary Models for Cancer and Lineage Tracing | CGSI 2023
Shalmali Josh | Observational Causal Inference for Improving and Auditing ML for Healthcare | CGSI 2023
James Zou | Leveraging Medical Twitter to Build a Visual Language AI Model for Pathology | CGSI 2023
Kris Sankaran | Selective Inference for Computational Genomics | CGSI 2023
Layla Oesper | Tumor Evolution: Methods for Comparing, Summarizing and Visualizing Clonal Trees | CGSI 2023
Mohammed El-Kebir | Inferring Parsimonious Migration Histories for Metastatic Cancers | CGSI 2023
Na Cai | Polygenic Means To Test And Refine Depression Disease Models | CGSI 2023
Nicholas Mancuso | Computationally Scalable Approaches for Characterizing Genetic Architectures in Diverse Ancestries | CGSI 2023
Steven Gazal | The Functional Architectures of Human Diseases and Complex Traits: From Polygenicity to Variant Function | CGSI 2023
Vasilis Ntranos | Genome wide Prediction of Disease Variants with a Deep Protein Language Model | CGSI 2023
Teresa Prztycka | From Mutagenic Processes to Mutational Signatures and Back | CGSI 2023
Jeffrey Chiang | Strategies for Integrating Deep Learning with Current Biomedical Research | CGSI 2023
Nancy Cox | Confounding sneaks into biobanks in myriad ways… | CGSI 2023
Lisa Bastarache | From Population to Person How to Help a Single, Actual Person with Data Science | CGSI 2023
Pengtao Xie | Training Highly Generalizable Biomedical Image Segmentation Models with Very Few Annotations | CGSI 2023
Rajesh Ranganath | Revisiting Out of Distribution Generalization | CGSI 2023
Ron Shamir | Methods for Disease Analysis Using Multiomic Data | CGSI 2023
Rayan Chikhi | Living in the Future of Genomics | CGSI 2023
Iman Hajirasouliha | Applications of Deep Learning in Digital Pathology and Embryology | CGSI 2023
Nancy Cox | Ways to Find Confounding in Biobanks | CGSI 2023
Francesco Paolo Casale | Computational Analysis of Liver Whole slide Images Empowers Genomic Analyses of Historical Traits | CGSI 2023
Christoph Lippert | Recent Advances in Normalizing Flows | CGSI 2023
Christoph Lippert | Performing GWAS of Images by Combining Deep Transfer Learning with Statistical Testing | CGSI 2023
Wei Li | Computational Biomedicine Epigenetics Liquid Biopsy and Alternative Polyadenylation Therapy | CGSI 2023
Can Alkan | Characterization of Genomic Structural Variation Using Various Sequencing Technologies | CGSI 2023
Sagi Snir | Harnessing Genome Dynamics for Phylogenetic Reconstruction | CGSI 2023
Wenyi Wang | Statistical Methods for Cancer Risk Prediction Models | CGSI 2023
Kenneth Lange | MM Principle of Optimization | CGSI 2023
Tandy Warnow | Advances in Large scale Multiple Sequence Alignment | CGSI 2023
Stefano Lonardi | How to “Squeeze” the Best Genome Assembly From Your HiFi Reads | CGSI 2023
Or Zuk | Independence Tests and Dependence Measures, for Unbiased and Biased Samples | CGSI 2023
Mark Chaisson | Design, Construction, and Usage of the Draft Pangenome | CGSI 2023
Teresa Prztycka | From Mutagenic Processes to Mutational Signatures and Back | CGSI 2023
Ilan Gronau | Generating Realistic Chromosome Scale Simulations for Population Genomics Studies | CGSI 2023
Chongzhi Zang | BART A Transcriptional Regulator Prediction Method for Functional Genomics | CGSI 2023
Aly Azeem Khan | Computational Insights into Cancer Immunology | CGSI 2023
Saharon Rosset | Intuition and Paradoxes in Probability and Statistics | CGSI 2023
Eleazar Eskin | SwabSeq Sequencing based Detection of Pathogens | CGSI 2023
Christina Leslie | Machine Learning Models for Single Cell and Regulatory Genomics | CGSI 2023
Casey Greene | Why is this so hard It should be easy | CGSI 2023
Smita Krishnaswamy | Machine Learning via Graph Signal for Complex Biological Data | CGSI 2023
Smita Krishnaswamy | Graph and Algebraic Signal Processing Basics for Computational Biology | CGSI 2023
Mark Chaisson | Genotyping Allele specific Copy Number Variants Using Pangenomes | CGSI 2023
Jason Ernst | Computational Methods for Modeling and Analyzing Epigenomic Data | CGSI 2023
Julia Salzman | Statistical Reference free Genomics Solves Myriad Problems in Bioinformatics | CGSI 2023
Julia Palacios | Inference from Single Cell Lineage Tracing Data Generated via Genome Editing | CGSI 2023
Jason Ernst | Leveraging High-throughput Functional Characterization Data to Dissect and Annotate Human Regulatory Regions | CGSI 2023
Simon Gravel | Population Genetics in Large Genealogies | CGSI 2023
Saharon Rosset | Multiple Testing: Methods for Low- and High-Dimensional Testing Problems in Biomed, and Some Optimality Results | CGSI 2023
Ritambhara Singh | Single cell Data Integration Using Optimal Transport | CGSI 2023
Rayan Chikhi | mDBG and Alignment The Tumultuous Fate of Sequence Bioinformatics Ideas | CGSI 2023
Nandita Garud | Detection of Hard and Soft Sweeps from Population Genomic Data | CGSI 2023
Jo Hardin | Selecting Between-sample ChIP-Seq Normalization Methods From The Perspective of Their Assumptions | CGSI 2023
James Zou | Modeling Spatial Omics and Cellular Niches with Graph Neural Networks | CGSI 2023
Valerie Arboleda | Biobanks from a Pathologist’s Viewpoint | CGSI 2023
Melissa Gymrek | Dissecting the Contribution of the Repeat ome to Complex Traits | CGSI 2023
Kayhan Batmanghelich | Understanding Spurious Feature Learning Through the Lens of Task Difficulty | CGSI 2023
Sumit Chopra | Less is More Learning Signals to Learn Representations in Healthcare | CGSI 2023
Lisa Bastarache | Fun with Phecodes! | CGSI 2023
Kayhan Batmanghelich | Divide and Conquer: Carving Out Symbolic Models out of BlackBox for More Efficient Domain Adaptation | CGSI 2023
Jason Moore | Automated Quantitative Trait Locus Analysis | CGSI 2023
Haky Im | Predicting the Epigenome from DNA Sequence, Are you there yet | CGSI 2023
Daniel Tward | Familywise Error Rate Control for Statistical Testing in Brain Image Ontologies | CGSI 2023
Rajesh Ranganath | Deep Generative Models in Medicine | CGSI 2023
Rahul Krishnan | Reliable Machine Learning in Healthcare | CGSI 2023
Loes Olde Loohuis | Combining Biobanks and Cohort Studies. The Best of Both Worlds | CGSI 2023
Francesco Paolo Casale | Mixed Models in Genomic Analyses and Imaging Studies | CGSI 2023
Jian Ma | Large Language Models for Computational Biology A Primer | CGSI 2023
Irene Chen | Fairness and Equity in Machine Learning for Healthcare | CGSI 2023
Kirk Lohmueller | The Poisson Random Field model in population genetics | CGSI 2022
Daniel Tward | Multiscale metrics for comparing spatial transcriptomics datasets | CGSI 2022
Iman Hajirasouliha | Applications of Deep Learning to Genomics and Digital Pathology | CGSI 2022
Sriram Sankararaman | Machine learning for Biobank-scale data | CGSI 2022
Jason Ernst | A Tutorial on Computational Methods for Modeling and Analyzing Epigenomic Data | CGSI 2022
Kayhan Batmanghelich | Bridging ML Models with Medical Insights for Learning, Inference, and Model Explanation for Radiology Applications | CGSI 2022
Smita Krishnaswamy | Harnessing Data Geometry for Biomedical Insights | CGSI 2022
Bogdan Pasaniuc | Personalized genomic medicine using large-scale biobanks linked with medical records | CGSI 2022
Loic Yengo | Lessons from the Largest Genome-Wide Association Study of Human Height | CGSI 2022
Chris Gignoux | Applying polygenic scores at biobank scale | CGSI 2022
Eimear Kenny | Population Genetics in an Era of Genomic Health | CGSI 2022
Paul Boutros | Computational Methods to Quantify Lethal Cancer Evolution | CGSI 2022
Rajesh Ranganath | Interpretability and Out of Distribution Generalization in Deep Predictive Models | CGSI 2022
Sushmita Roy | Inference of Gene Regulatory Networks from bulk and single cell omic datasets | CGSI 2022
Xihong Lin | Overview of Rare Variant Analysis of Whole Genome Sequencing Association Studies | CGSI 2022
Harold Pimentel | Inference methods for high-throughput CRISPR screens | CGSI 2022
Loes Olde Loohuis | Disease trajectories of severe mental illness | CGSI 2022
Nancy Cox | How Genetics Can Help Untangle Institutionalized Health Inequity | CGSI 2022
Jingyi Jessica Li | Statistical Rigor in Genomics Data Science | CGSI 2022
James Zou | How to perform in silico clinical trials using EHR | CGSI 2022
Haky Im | Integrating multiple omic data to improve mechanistic understanding and prediction | CGSI 2022
Lisa Bastarache | EHR Data quality: Why you should worry & what you can do about it | CGSI 2022
Rajesh Ranganath | Out of Distribution Generalization | CGSI 2022
Rayan Chikhi | Hands-on introduction to pangenome graphs | CGSI 2022
Itsik Pe’er | Stochastic dynamics of the microbiome | CGSI 2022
Sagi Snir | Horizontal Gene Transfer Phylogenetics: A Random Walk Approach | CGSI 2022
Johanna Hardin | onlineFDR control with applications to RNA-Seq data | CGSI 2022
Ilan Gronau | The Case for Genetic Genealogies in Population Genomics | CGSI 2022
Nanyun Violet Peng | Discourse-level Natural Language Understanding for Scientific Literature | CGSI 2022
Nick Mancuso | Variational Inference for large-scale genomic data | CGSI 2022
Na Cai | Phenotype integration improves power and preserves specificity in biobank-based genetic studies of Major Depressive Disorder | CGSI 2022
Alex Zelikovsky | Analysis of SARS-CoV-2 Sequencing Data | CGSI 2022
Pier Palamara | Large-scale inference of ancestral recombination graphs enables genealogy-based association of complex traits | CGSI 2022
Pejman Mohammadi | Quantitative models of genetic variation in cis-regulation | CGSI 2022
David Knowles | Determining the molecular intermediates between genotype and phenotype | CGSI 2022
Tandy Warnow | Tutorial | Multiple Sequence Alignment | CGSI 2022
Sasha Gusev | Tutorial | Understanding GWAS mechanisms with Transcriptome-Wide Association Studies | CGSI 2022
Nandita Garud | How do we detect evolution from microbiome data? | CGSI 2022
Karen Conneely | Clonal hematopoiesis of indeterminate potential and DNA methylation in aging and disease | CGSI 2022
Eleazar Eskin | Swab-Seq: COVID-19 Testing leveraging Computational Genomics and Genomics Technology | CGSI 2022
Jonathan Flint | Tutorial | Genetics basis of depression | CGSI 2022
Jazlyn Mooney | On the number of genealogical ancestors tracing to the source groups of an admixed population | CGSI 2022
Or Zuk | Evaluating the potential benefits of embryo screening using polygenic scores for multiple continuous and disease traits | CGSI 2022
Brian Browning | Haplotype phasing: methods and accuracy | CGSI 2022
Teresa Przytycka | Mutational Signatures – form methods to mechanisms | CGSI 2022
Valerie Arboleda | Integration of monogenic and common variants in human disease | CGSI 2022
Jian Ma | Machine Learning for Single-Cell 3D Epigenomics | CGSI 2022
Melissa Gymrek | A practical guide to performing genome-wide analyses of tandem repeats | CGSI 2022
Siavash Mirarab | Distance-based phylogenetics: past, present, and (perhaps) future | CGSI 2022
Ben Raphael | Alignment, Integration, and Modeling of Spatial Transcriptomics Data | CGSI 2022
Jaehee Kim | Bayesian Inference of Dependent Population Dynamics in Coalescent Models | CGSI 2022
Wenyi Wang | Computational deconvolution of cancer genomes/transcriptomes | CGSI 2022
Rayan Chikhi | Recent progress towards petabase-scale genomics | CGSI 2022
Casey Greene | Integrating -omic data across datasets and layers | CGSI 2022
John Novembre | Lessons in human genetic variation and the impact of divergence, gene flow, and selection: Sardinia population history and complex trait variation | CGSI 2022
Sohini Ramachandran | Leveraging linkage disequilibrium to gain insights into human complex trait architecture | CGSI 2021
Siavash Mirarab | Phylogenetic placement: from traditional methods to deep learning | CGSI 2021
Nicholas Mancuso | Integrative analyses identify susceptibility genes underlying COVID-19 related hospitalization | CGSI 2020
Nancy Cox | Fun with Phenome: Ways of Using Phenome to Enhance Genome Discovery |CGSI 2020
CGSI 2020 | RECOMB
stopcovid19together.org | CBSN Interview
Sriram Sankararaman | Signals of Ghost Archaic DNA in Present-Day West African Populations
Can Alkan | Characterization of Genome Structural Variation using Various Sequencing Technologies | CGSI 2019
Alex Zelikovsky | Analysis of Viral Sequencing Data | CGSI 2019
Saharon Rosset | Markov Chain Monte Carlo (MCMC) – How to Sample if You Must | CGSI 2019
Faraz Hach | Detection of Genomic Variants using Liquid Biopsy | CGSI 2019
Sushmita Roy | Computational Methods for Inference of Cell Type Specific Networks | CGSI 2019
Itsik Pe’er | Variational Inference in Population Genetics | CGSI 2019
Sagi Snir | Using Small Trees to Construct the Big Tree of Life | CGSI 2019
Sriram Sankararaman | Scalable Probabilistic Inference for Large-scale Genomic Data | CGSI 2019
Pejman Mohammadi | Quantitative Analysis of Genetic Variation in Cis-Regulation | CGSI 2019
Eimear Kenny | Population Genetics in an Era of Precision Medicine | CGSI 2019
Karen Conneely | Analysis of Whole-Genome Bisulfite Sequencing Data: A Tutorial | CGSI 2019
Saharon Rosset | The Genetics of Kidney Disease in African Americans: A Genetic Soap Opera | CGSI 2019
Iuiana Ionita Laza | Integrative Statistical Approaches for the Analysis of Whole-Genome Sequencing Data | CGSI 2019
Simon Gravel | Inferring Demographic History using Moments | CGSI 2019
Na Cai | Using Different Definitions of Depression to Understand its Heterogeneity | CGSI 2019
Casey Greene | If I have seen Further it is by Standing on the Sholders [sic] of Giants | CGSI 2019
Dan Benjamin | The Strength of Evidence from Statistical Significance and P Values | CGSI 2019
Rob Brown | The Resource you Never Knew you Needed | CGSI 2019
Or Zuk | Predicting Protein Contacts from Sequence Information | CGSI 2019
David Anasatsiu | Improving Open Modification Spectral Library Search Through Exact Filtering | CGSI 2019
Layla Oesper | Computational Approaches for Tumor Evolution Inference and Analysis | CGSI 2019
David Koslicki | Leveraging Biomedical Repositories to Discover New Uses for Drugs | CGSI 2019
Sharon Aviran | Sparse Reconstruction of RNA Structure Landscapes from Genomic Data | CGSI 2019
Haky Im | Mediating Role of the Transcriptome in the Genetic Control of Complex Traits | CGSI 2019
Sagiv Shifman | Why are some Genes Intolerant to Mutations and How do we Identify them? | CGSI 2019
Hyun Min Kang | Population-scale Single-cell Genomics via Genetic Multiplexing | CGSI 2019
Jason Ernst | Computational Approaches for Understanding the Non-coding Human Genome | CGSI 2019
Jae Hoon Sul | Rare Variant Analysis for Extended Pedigrees and its Application to Severe Bipolar Disorder | CGSI 2019
Fereydoun Hormozdiari | Mapping-free Genome Analysis | CGSI 2019
Jo Hardin | Assumptions in Normalizing RNA-Seq Data | CGSI 2019
David Koslicki | Tips for Asserting (Metagenomic) Computational Tools | CGSI 2019
Gillian Belbin | Leveraging Identity-by-Descent for Biomedical Discovery in Large-Scale Biobanks | CGSI 2019
Yanjun Qi | Joint Learning of Multiple Related Gaussian Graphical Models from Heterogenous Samples: Tasks, Estimators and Variations | CGSI 2019
Bogdan Pasaniuc | Heritability Estimation in the Biobank Era | CGSI 2019
Naomi Wray | Analysis of Case-Control DNAm Data | CGSI 2019
Smita Krishnaswamy | Manifold Learning Yields Insight into Cellular State Space under Complex Experimental Conditions | CGSI 2019
Itsik Pe’er | Truth among Multiple Tests | CGSI 2019
Jonathan Flint | Depression | CGSI 2019
Yi Xing | Elucidating Alternative Isoform Variation using Massive RNA-Seq Data | CGSI 2019
Cenk Sahinalp | Sketching Algorithms for Genomic Data Analysis and Querying in a Secure Enclave | CGSI 2019
Fabio Vandin | Algorithms in Discvoer Alterations with Functional Association in Cancer | CGSI 2019
Siavash Mirarab | Learning Phenotypic Traits from Microbiome: Can Phylogenetics help? | CGSI 2019
Jingyi Jessica Li | Neyman-Pearson Classification Paradigm | CGSI 2019
Rayan Chikhi | Recent Advances in Data Structures for Storing Sets of K-mer Sets | CGSI 2019
James Zou | What is your Data Worth? | CGSI 2019
Nancy Cox | How Pleiotropy can be used to Facilitate Discovery in a Biobank: Iterating Between Genetic and Phenomic Datasets | CGSI 2019
Quaid Morris | A Field Guide to AI in Cancer Genomics | CGSI 2019
Michael Schatz | Seeing into the Dark: Cryptic Structural Variations Revealed by Long Read Sequencing | CGSI 2019
Michael Gandal | Integrative Genomic Approaches for Mechanistic Dissection of Complex Psychiatric Traits | CGSI 2019
Su In Lee | Explainable Artificial Intelligence in Biology and Medicine | CGSI 2019
Shai Carmi | How Useful is Screening Human Embryos for Polygenic Traits? | CGSI 2019
Nandita Garud | Population Genetics in the Microbiome | CGSI 2019
Peter Visscher | From Galton to GWAS and Beyond: The Estimation of Genetic Variance in Human Popultations | CGSI 2019
Rayan Chikhi | Question: Is de novo Genome Assembly a Solved Problem with Long Reads, yet? | CGSI 2019
Lisa Bastarache | Phenotyping in the EHR: Trust but Verify | CGSI 2019
John Novembre | Population Structure in Human Genetic Data: A Basic Introduction and some Challenges | CGSI 2019
Ben Ralphael | Inferring Cancer Evolution from Single-Cell DNA Sequencing Data | CGSI 2019
Nicholas Mancuso | A Framework for Integrating eQTLs and GWAS Summary Data to Identify Causal Genes | CGSI 2019
Vineet Bafna | Identifying the Allele Favored in a Selective Sweep | CGSI 2019
Jian Ma | Comparing 3D Genome Organization | CGSI 2019
Dana Pe’er | Single-Cell RNA-sequencing | CGSI 2019
Opening Remarks with Eleazar Eskin, and Jayathi Murthy | CGWI 2019
Kelsey Martin |Making Memories Last | Neurons, Genes and Synapses | CGWI 2019
Eran Halperin “Recovering Hidden Genomic Signal in the Analysis of Heterogeneous Tissue” | CGWI 2019
Leonid Kruglyak | Massively Parallel Genome Engineering with CRISPR | CGWI 2019
Jennifer Listgarten | Machine Learning for Protein Engineering | CGWI 2019
Jonathan Flint | Genetics of Depression | CGWI 2019
Ben Raphael | Clonal Evolution in Tumors and Metastases | CGWI 2019
AWS/UCLA Computational Medicine Scientific Symposium | CGWI 2019
Shai Carmi | Hidden Markov Models for pre-implantation genetic testing and ancient DNA | CGSI 2018
A. Murat Eren | From characterizing genomic heterogeneity within single populations to investigating evolutionary forces acting on environmental microbes​ | CGSI 2018
Ben Raphael | Inferring Cellular Migrations in Metastatic Cancers | CGWI 2019 | CGSI 2018
Jason Ernst | Computational approaches for understanding the noncoding human genome | CGSI 2018
Saharon Rosset | Speciation without Isolation | The Future of Humans? | CGSI 2018
Ilan Gronau | Using the ancestral recombination graph to investigate species evolution | CGSI 2018
Sayan Mukherjee | Mapping epistatic traits using kernel methods and variance component models | CGSI 2018
Jonathan Flint | Genetic architecture of psychiatric disorders | CGSI 2018
Sagi Snir | Constructing the Microbial Tree of Life Using Quartet Based Approaches | CGSI 2018
David Koslicki | Multi-resolutionk-mer classification of metagenomic samples | CGSI 2018
John Novembre | Inference of haplotype (or community) composition in pooled sequence data | CGSI 2018
Or Zuk | Inferences of Selection from Intra-Species and Inter-Species Variation | CGSI 2018
Vineet Bafna | Extrachromosomal DNA and complex structural variation in tumor genomes | CGSI 2018
Daniel Wegmann | Incorporating genotype uncertainty in population genetics | general concepts and applications to ancient DNA | CGSI 2018
James Zou | Tutorial of optimal transport with applications in genomics | CGSI 2018
Siavash Mirareb | Genome-wide species tree reconstruction despite gene tree discordance | CGSI 2018
John Novembre | Methods to characterize geographic structure in genetic variation | CGSI 2018
Thomas Sharpton | Imputing the functional capacity of microbiomes through metagenome annotation | CGSI 2018
Emilia Huerta Sanchez | The impact of admixture on patterns of human genetic variation | CGSI 2018
Nicholas Chia | Understanding the interface between microbial metabolism and colon cancer | CGSI 2018
Ran Blekhman | Genetics, Cell Biology, and Developmental Ecology, Evolution and Behavior | CGSI 2018
Sharon Aviran | Automated recognition of functional RNA elements by their SHAPE data signatures | CGSI 2018
Sohini Ramachandra | Applications of Latent Dirichlet Allocations in Genomics | CGSI 2018
James Zou | Contrastive learning with applications to biomedical data | CGSI 2018
Eleazar Eskin | Discovering the Causal Variants Involved in GWAS Studies | CGSI 2018
Pavel Pevzner | Estimating metagenome diversity by hybrid sequencing by short and long reads | CGSI 2018
Rayan Chikhi | Methods for metagenome assembly (de Bruijn graphs) | CGSI 2018
Eytan Ruppin | Harnessing genetic interactions to advance whole genome precision oncology | CGSI 2018
Ben Langmead | Using huge public sequencing datasets to answer scientific questions | CGSI 2018
Jae Hoon Sul | Contribution of common and rare variants to bipolar disorder susceptibility in population isolates | CGSI 2018
Rayan Chikhi | Data structures for k-mers (applications | reference-free sequencing data analysis) | CGSI 2018
Or Zuk | improved Deep-Learning Methods for Enhanceras Identification and Interpretation | CGSI 2018
Lior Pachter | (Computational and experimental) methods for multiplexed single-cell RNA -Seq | CGSI 2018
Mark Chaisson | Resolving multicopy duplications using assembly by phasing | CGSI 2018
Vikas Bansal | Haplotyping human genomes using whole-genome sequencing | CGSI 2018
Michael Schatz | Advances in Genome Sequencing and Assembly | CGSI 2018
William (Xiaoquan) Wen | Bayesian integrative analysis of molecular QTL and GWAS data | CGSI 2018
Jason Ernst | Computational Epigenomic Approaches for Interpreting the Non-coding Human Genome | CGSI 2018
Sagi Snir | Non Linearity of Epigenetic Aging is Detected via the Universal Pacemaker | CGSI 2018
Eran Halperin | Methods for Deconvolution of Methylation Signals | CGSI 2018
Brian Browning | Genotype imputation with large reference panels in the cloud | CGSI 2018
Cenk Sahinalp | Tumor evolution modeling through the use of single cell and bulk sequencing data | CGSI 2018
Ilan Gronau | Re-examining demography inference from genomic data | CGSI 2018
Mark Chaisson | Detecting variation using single-molecule sequencing | CGSI 2018
Iuliana Ionita | Statistical methods for the integration of functional genomics data and whole exome/genome sequencing data for improved gene discovery | CGSI 2018
Bogdan Pasaniuc | How to identify susceptibility genes in post-GWASstudies | CGSI 2018
Sriram Sankararaman | Probabilistic modeling and inference in genomics | CGSI 2018
Sagiv Shiffman | Essential genes linked to neurodevelopmental disorders | CGSI 2018
Jian Ma | Algorithms for studying nuclear genome organization and evolution | CGSI 2018
Sayan Mukherjee | Compositional models for microbiome data and time series models for microbiome data | CGSI 2018
Can Alkan | Characterization of genomic structural variation using various sequencing technologies | CGSI 2018
Jingyi Jessica Li | Statistical Methods for Bulk and Single-cell RNA-seq data | CGSI 2018
Fereydoun Hormozdiari | Contribution of structural variation to genome structure | CGSI 2018
Kirk Lohmueller | Methods for inference of purifying selection and dominance coefficients from genomic data | CGSI 2018
David Koslicki | IndieCut | Evaluating performance of motif discovery algorithms | CGSI 2018
Lior Pachter | What is CCA, why you should care, and how to use it | CGSI 2018
Saharon Rosset | The Multivariate Normal Distribution | Linear Mixed Models and Beyond | CGSI 2018
Michael Schatz | Advances in Genome Sequencing and Assembly | CGSI 2017
Su-In Lee | Interpretable Machine Learning for Precision Medicine | CGWI 2018
Sushmita Roy | Regulatory network inference on developmental and evolutionary lineages | CGWI 2018
Casey Greene | Deep learning | privacy preserving data sharing along with some hints and tips | CGWI 2018
Manuel Rivas | Large-scale inference across population biobanks | CGWI 2018
Noah Zaitlen | A Short Tutorial on Linear Mixed Model Association Testing in Genetics | CGWI 2018
Hae Kyung Im | Prediction and Dissection of Complex Traits | CGWI 2018
William Noble | Machine learning methods for making sense of big genomic data | CGWI 2018
Yanjun Qi | Making Deep Learning Interpretable for Analyzing Sequential Data about Gene Regulation | CGWI 2018
John Novembre | Computational tools for understanding geographic structure in genetic variation data | CGWI 2018
Alexis Battle | Methods for analysis of rare genetic variants | CGWI 2018
Melissa Gymrek | Interpreting the role of short tandem repeats in human phenotypes | CGWI 2018
Peter Kharchenko | Single-cell analysis of heterogeneity in normal and disease tissues | CGWI 2018
David Knowles | Probabilistic programming for genomics | CGWI 2018
Alex Zelikovsky | Modeling and Simulating Evolution and Spread of RNA Viruses | CGWI 2018
Smita Krishnaswamy | Manifold-Learning Yields Insights into Single Cell Data Analysis | CGWI 2018
Geoffrey Schiebinger | Analyzing Developmental Processes with Optimal Transport | CGWI 2018
Kayhan Batmanghelich | Imaging as High-Dimensional Endophenotype | CGWI 2018
Roger Piqué-Regí | Tools for identifying gene regulatory variants and GxE interactions for molecular phenotypes | CGWI 2018
Po-Ru Loh | Detecting mosaic chromosomal alterations using long-range phasing | CGWI 2018
Roel Ophoff | Genomic Studies of Psychiatric Disorders | CGSI 2017
Jonathan Flint | Genes can “Influence” Personality and Behavior | CGSI 2017
Nelson Freimer | The Depression Grand Challenge | UCLA’s Big Data Initiative for Brain Health | CGSI 2017
Barbara Engelhardt | Joint analysis of gene expression levels and histological images identifies genes associated with tissue morphology | CGSI 2017
Noah Zaitlen | Covariate adjustment in genetics and genomics | CGSI 2017
Fereydoun Hormozdiari | Discovery of genetic variants and modules in neurodevelopmental disorders | CGSI 2017
Kirk Lohmueller | Variation in positive and negative selection across the Tree of Life | CGSI 2017
Sriram Sankararaman | Probabilistic PCA for large-scale genetic data | CGSI 2017
Fabio Vandin | Computational methods for survival analysis in genome-wide cancer studies | CGSI 2017
Jingyi Jessica Li | Neyman-Pearson (NP) classification algorithms and NP Receiver Operating Characteristic (NP-ROC) curves | CGSI 2017
Bogdan Pasaniuc | Genetic correlations to gain insights into relations between traits | CGSI 2017
Sagiv Shifman | Genomics approaches to study neurodevelopmental disorders | CGSI 2017
Francesca Chiaromonte | Statistics for large, complex data and its role in “Omics” research | CGSI 2017
David Koslicki | Using the Earth-mover’s Distance to compare microbial communities | CGSI 2017
Fabio Vandin | Computational discovery of significantly mutated genes and pathways in cancer | CGSI 2017
Jae-Hoon Sul | Large-scale genetic studies of human complex traits | CGSI 2017
Or Zuk | Estimating gene-specific selection parameters from human variation data | CGSI 2017
Ben Raphael | Inferring tumor evolution | CGSI 2017
John Novembre | Computational tools for understanding population structure in genetic variation data | CGSI 2017
Ilan Gronau | Inferring a complex network of interbreeding between modern and archaic humans | CGSI 2017
Jo Hardin | Prediction intervals for random forests with applications to high throughput data | CGSI 2017
Kin Fai Au | Transcriptome analysis at the gene isoform level using hybrid sequencing | CGSI 2017
Saharon Rosset | Quality preserving databases for statistically sound “big data” analysis on public databases | CGSI 2017
David Tse | Maximally correlation and principal component analysis | CGSI 2017
Sagi Snir | A universal PaceMaker as a better explanation of evolution and aging | CGSI 2017
Cenk Sahinalp | HIT’nDRIVE | Patient-Specific Multi-Driver Gene Prioritization for Precision Oncology | CGSI 2017
Alex Zelikovsky | Inference of metabolic pathway activity from metatranscriptomic reads | CGSI 2017
Jason Ernst | Computational approaches for deciphering the non-coding human genome | CGSI 2017
Saharon Rosset | Stochastic process models for mutations, their estimation from data, and their uses | CGSI 2017
Elhanan Borenstein | Multi-omic and model-based analysis of the human microbiome | CGSI 2017
Leonid Kruglyak | Complex Traits and Simple Systems | CGSI 2017
Melissa Gymrek | Analyzing complex repeat variation from high throughput sequencing data | CGSI 2017
Lior Pachter | Differential analysis of count data in genomics | CGSI 2017
Itsik Pe’er | Identity by descent in medical and population genomics | CGSI 2017
Or Zuk | Co-evolution analysis | Methods and applications | CGSI 2017
Brian Browning | Genotype phasing with large sample sizes | CGSI 2017
Daniel Wegmann | Tracing the spread of farming using ancient DNA | Bioinformatic challenges and population genetic insights | CGSI 2017
Ran Blekhman | Human genomic control of the microbiome | CGSI 2017
David Tse | How to solve NP-hard assembly problems in linear time | CGSI 2017
David Koslicki | The CAMI Project | Assessment of computational techniques in metagenomics | CGSI 2017
Can Alkan | Next-generation sequence characterization of complex genome structural variation | CGSI 2017
James Zou | Deep learning in genomics | Introduction and examples | CGSI 2017
William (Xiaoquan) Wen | Bayesian approaches for integrative genetic association analysis | Data integration and scalable computation | CGSI 2017
Alexander Schönhuth | Assembling polyploid genomes | CGSI 2017
Dana Pe’er | Imputation in Single Cell RNA-seq Data | CGSI 2017
Jennifer Listgarten | Machine learning for CRISPR gene editing | CGSI 2017
Ilan Gronau | Demography inference | From parameter estimation to model selection | CGSI 2017
Lior Pachter | An introduction to pseudoalignment | CGSI 2017
Loes Olde Loohuis: Transcriptome analysis in whole blood reveals increased microbial diversity in schizophrenia
Nikita Alexeev: Estimation of the rate of transpositions and the true evolutionary distance
YoSon Park: Large, diverse population cohorts of hiPSCs and derived hepatocyte-like cells reveal functional genetic variation at blood lipid-associated loci
Anil Ori: Integration of longitudinal gene expression with polygenic disease risk establishes human neuronal differentiation as a model to study schizophrenia
David Koslicki: Improving Min Hash for Metagenomic Classification
Marzia Cremona: Functional data analysis testing and linear modeling for high-resolution “omics” data
Na Cai: Heterogeneity in depression
Ilan Gronau: Population phylogenomics: A genealogical perspective
Andy Dahl: Adjusting for principal components of molecular phenotypes induces replicating false positives
Serghei Mangul: Squeezing the last drop out of next generation sequencing data
Joel Mefford | Linear Mixed Models – and their Equivalents | CGSI 2016
Jason Ernst | Functional Genomics Time-series Analysis | CGSI 2016
David Koslicki | Bacterial Community Reconstruction via Compressed Sensing | CGSI 2016
Kin Fai Au (External, non-CGSI Event)
Jonathan Flint | Quantitative Trait Locus Detection | CGSI 2016
Jo Hardin | Assumptions in Normalizing RNASeq Data | CGSI 2016
Kenneth Lange | Next Generation Statistical Genetics: Modeling, Penalization, and Optimization in High-dimensional Data | CGSI 2016
Barbara Engelhardt | Exploring Covariation in Gene Expression Data | CGSI 2016
Sriram Sankararaman | Challenges in Genomic Privacy | CGSI 2016
Barbara Engelhardt | Dimension Reduction Methods to identify Latent Structure in Genomic Data | CGSI 2016
Sriram Sankararaman | Inferring the Structure of Archaic Admixture in Modern Humans | CGSI 2016
Kirk Lohmueller | Comparison of the Distribution of Fitness Effects across Species using the Poisson Random Field Framework | CGSI 2016
Sagi Snir | Research Talk on reconstructing Evolution from the Tiniest Fractions | CGSI 2016
Sagi Snir | Tutorial on reconstructing Evolution from the Tiniest Fractions | CGSI 2016
Noah Zaitlen | Conditioning in Association Studies | CGSI 2016
Bogdan Pasaniuc | Integrative Fine-mapping for Causal Variants | CGSI 2016
Emilia Huerta-Sanchez | Evolutionary Adaptation in Humans | CGSI 2016
Jason Ernst | Epigenome Imputation | CGSI 2016
Yi Xing | Elucidating the Complexity of the Mammalian m⁶A Epitranscriptome | CGSI 2016
Jonathan Flint | The Genetics of Depression | CGSI 2016
Saharon Rosset | Mixed Modeling for Case-control Genome-wide Studies | CGSI 2016
Kenneth Lange | MM Algorithms | CGSI 2016
Noah Rosenberg | Mathematical Bounds on Population-Genetic Statistics | CGSI 2016
John Novembre | Models and Methods for Detecting Population Structure in Humans | CGSI 2016
Paul Medvedev | Applying CS Tools to Biological Questions: A Case Study in Genome Assembly | CGSI 2016
Sriram Sankararaman: Evolutionary Models in Population Genomics
Kirk Lohmueller | The Interplay Between Demography and Selection in Dogs, Wolves, and Foxes | CGSI 2016
Jingyi Jessica Li | NMFP – Identifying mRNA Isoforms from RNASeq Data | CGSI 2016
Wei Wang | Alignment-free RNASeq Analysis | CGSI 2016
Sriram Sankararaman | Evolutionary Models in Population Genomics | CGSI 2016
Dan Geschwind | Integrative Genomics in Neuropsychiatric Diseases | CGSI 2016
Brian Browning | Genotype Imputation with Millions of Reference Samples | CGSI 2016
Noah Zaitlen | Variances and Covariances in Recently Admixed Populations | CGSI 2016
Saharon Rosset | Bootstrap – The Statistician’s Magic Wand | CGSI 2016
Jennifer Listgarten | Structured Populations in Genetics | CGSI 2016
Alexander Schönhuth | Quantifying Uncertainties in Big Genome Data | CGSI 2016
Ben Raphael| Computational Analysis of Somatic Mutations in Cancer | CGSI 2016
Bogdan Pasaniuc | Methods to understand the Polygenic Architecture of Complex Traits | CGSI 2016
Jason Ernst | Deciphering the Non-coding Human Genome | CGSI 2016
Fereydoun Hormozdiari | Detecting Structural Variation | CGSI 2016
Alex Zelikovsky | High-Throughput Sequencing Applications to Molecular Epidemiology | CGSI 2016
Sohini Ramachandran | Genomic Reconstructions of Deep Human History | CGSI 2016
Jo Hardin | Tutorial on RNASeq Normalization and Differential Expression | CGSI 2016
Alexander Schönhuth | Snakemake: Reproducible and Scalable Data Analysis | CGSI 2016
Carlos Bustamante | Interpreting Human Variation in the Personal Genome Era | CGSI 2016
Leonid Kruglyak | Genetic Basis of Complex Traits | CGSI 2016
William (Xiaoquan) Wen | Bayesian Statistics and its Application to Integrative Statistical Genomics | CGSI 2016
Brian Browning | An Introduction to Genotype Imputation | CGSI 2016