Plenary Session: Using Single Cell and Spatial Technologies to Fuel the Century of Biology
Dina Finan, PhD Product Manager, 10x Genomics
Imagine accessing the full richness of biological complexity all at once, instead of one small piece at a time. Join us to learn how you can uncover molecular insights, dissect cell-type differences, detect novel cell subtypes and biomarkers, define gene regulatory interactions, and decipher spatiotemporal gene expression patterns. See biology at true resolution.
October 5
1:30PM - 2:00PM PDT
Discussion (concurrent): Single Cell and Spatial Multiomics to Advance Basic and Translational Cancer Research
Discover how single cell and spatial multiomics are transforming our understanding of the complex interplay between tumor, microenvironment, and immune compartments - from cancer progression to therapeutic resistance.
October 8
9:00AM - 9:45AM PDT
Keynote: Determining the Role of Tumor Cell and Immune Cell Interactions Through Single Cell Technologies and Matrix Factorization
Elana J. Fertig, PhD Associate Professor of Oncology, Applied Mathematics & Statistics, and Biomedical Engineering Assistant Director of the Research Program in Quantitative Sciences Johns Hopkins University
Single cell technologies, including notably spatially resolved extensions through Visium, provide unprecedented characterization of the molecular and cellular states reflecting tumor heterogeneity. We highlight how matrix factorization techniques provide a robust toolset to use these data to interpret immune cell and cancer cell interactions across single cell measurement technologies.
October 8
10:00AM - 10:30AM PDT
Discussion: Visium Spatial Gene Expression Solution: Software & Data Analysis
Anne Monahan Staff Field Applications Scientist - New England, 10x Genomics
Find out how Visium Spatial Gene Expression Solution software tools can help you analyze and visualize your spatial gene expression data.
October 15
9:00AM - 9:45AM PDT
Keynote: Multi-Modal and Multi-Tissue Profiling of GBM Patients Treated with CAR T-Cell Therapy at Single Cell Resolution
Nicholas Banovich, PhD Assistant Professor, Integrated Cancer Genomics Division, Translational Genomics Research Institute
Using single cell RNA-sequencing and simultaneous quantification of nearly 200 cell surface proteins, we comprehensively profiled the cellular phenotypes and signaling pathways within tumor and circulating immune cells that are associated with treatment response in patients undergoing CAR T cell therapy for the treatment of GBM.
October 22
12:30PM - 1:15PM PDT
Plenary Session: Spatially Resolved Molecular Investigation of Triple Negative Breast Cancer
Daphne Cooper, PhD Field Application Scientist, 10x Genomics
Explore advanced spatial analysis with gene expression data from a Triple Negative Breast Cancer sample. Learn how to use the Visium data analysis pipelines and visualization software to review correlations between pathologist annotations and cell clustering profiles identified through the Visium Spatial Gene Expression Solution.
October 5
9:00AM - 9:45AM PDT
Keynote: Mapping the Landscape of Anti-Viral Immunity by scRNA-seq
Adam Waickman, PhD Assistant Professor, Department of Microbiology and Immunology Laboratory Director and Translational Science Coordinator, Institute for Global Health and Translational Sciences State University of New York Upstate Medical University
In this talk, Dr. Waickman will discuss applications for scRNAseq in assessing both the innate and adaptive immune response to viral infection, as well as techniques for detecting and quantifying cell-associated viral RNA/DNA.
October 5
10:00AM - 10:30AM PDT
Discussion: Redefine Immunology with Single Cell and Spatial Multiomics
Learn how to resolve heterogeneous and diverse functional states of the immune system, enabling biomarker discovery and therapeutic development with 10x Genomics technology.
October 5
12:30PM - 1:15PM PDT
Plenary Session: Using Single Cell and Spatial Technologies to Fuel the Century of Biology
Dina Finan, PhD Product Manager, 10x Genomics
Imagine accessing the full richness of biological complexity all at once, instead of one small piece at a time. Join us to learn how you can uncover molecular insights, dissect cell-type differences, detect novel cell subtypes and biomarkers, define gene regulatory interactions, and decipher spatiotemporal gene expression patterns. See biology at true resolution.
October 9
9:00AM - 9:45AM PDT
Keynote: Identification of SARS-CoV-2 Inhibitors Using Lung and Colonic Organoids
Shuibing Chen, PhD Kilts Family Associate Professor (tenured) and the Director of Diabetes Program in the Department of Surgery Weill Cornell Medical College
There is an urgent need to create novel models using human disease-relevant cells to study SARS-CoV-2 biology and to facilitate drug screening. As SARS-CoV-2 primarily infects the respiratory tract, we developed a lung organoid model using human pluripotent stem cells (hPSC-LOs). The hPSC-LOs, particularly alveolar type II-like cells, are permissive to SARS-CoV-2 infection, and showed robust induction of chemokines upon SARS-CoV-2 infection, similar to what is seen in COVID-19 patients. Nearly 25% of these patients also have gastrointestinal manifestations, which are associated with worse COVID-19 outcomes1. We therefore also generated complementary hPSC-derived colonic organoids (hPSC-COs) to explore the response of colonic cells to SARS-CoV-2 infection. We found that multiple colonic cell types, especially enterocytes, express ACE2 and are permissive to SARS-CoV-2 infection. Using hPSC-LOs, we performed a high throughput screen of FDA-approved drugs and identified entry inhibitors of SARS-CoV-2, including imatinib, mycophenolic acid (MPA), and quinacrine dihydrochloride (QNHC). Treatment at physiologically relevant levels of these drugs significantly inhibited SARS-CoV-2 infection of both hPSC-LOs and hPSC-COs. Together, these data demonstrate that hPSC-LOs and hPSC-COs infected by SARS-CoV-2 can serve as disease models to study SARS-CoV-2 infection and provide a valuable resource for drug screening to identify candidate COVID-19 therapeutics.
Discussion: Immune Profiling at the Single Cell Level with Multiomics
Spence Fast Science & Technology Advisor, 10x Genomics
A review of vaccination, antibody discovery, and other studies conducted with single cell immune profiling.
October 15
12:30PM - 1:15PM PDT
Plenary Session: The Next Generation of Cytometry
Spence Fast Science & Technology Advisor, 10x Genomics
Immunophenotyping by sequencing, including cell surface protein analysis, intracellular gene expression, and more.
October 5
12:30PM - 1:15PM PDT
Plenary Session: Using Single Cell and Spatial Technologies to Fuel the Century of Biology
Dina Finan, PhD Product Manager, 10x Genomics
Imagine accessing the full richness of biological complexity all at once, instead of one small piece at a time. Join us to learn how you can uncover molecular insights, dissect cell-type differences, detect novel cell subtypes and biomarkers, define gene regulatory interactions, and decipher spatiotemporal gene expression patterns. See biology at true resolution.
October 5
1:30PM - 2:00PM PDT
Discussion (concurrent): Resolve the Complexities of the Brain with Single Cell and Spatial Multiomics
Kelly R. Miller, PhD Senior Manager, Neuroscience Segment Marketing, 10x Genomics
Learn about 10x Genomics' latest product portfolio and how it can be used to uncover new insights into normal brain function and neurological disease.
October 12
9:00AM - 9:45AM PDT
Keynote: 10x Genomics RNA-seq and ATAC-seq Reagents for Characterizing the Mouse and Human Pituitary Cells
Frederique Ruf-Zamojski, PhD Assistant Professor - Neurology Department, Sealfon Laboratory Icahn School of Medicine at Mount Sinai
As the “master gland” of the endocrine system, the pituitary gland controls many key functions including growth, sexual maturation, reproduction, and lactation. A detailed characterization of pituitary cell populations and their underlying gene regulatory programs is needed to better understand cellular functions in this structurally complex tissue. We generated a single nucleus (sn) multi-omics atlas of the murine pituitary by assaying transcriptome and chromatin accessibility jointly in six individual animals, and DNA methylation in a pool of thirty male pituitaries1,2. Latent variable pathway analysis detected coordinated gene expression and chromatin accessibility programs showing both inter-sexual and inter-individual variation. Multi-omics analysis of gene regulatory networks identified cell type-specific regulons that were shaped by the promoter accessibility of their targets. We are currently extending our study to human pituitaries using joint snRNAseq and snATACseq assays to characterize human pituitary cell types and to compare human and mouse results. These nuclear multi-omics pituitary maps are a resource studying cell types in the pituitary, for identifying cell type-specific cis-regulatory elements and for understanding epigenetic control of transcriptional programs.
October 22
9:00AM - 9:45AM PDT
Keynote: Interrogating the Molecular Basis of Alzheimer’s Disease Susceptibility by Spatial Transcriptomics
Simon Gregory, PhD Director of Genomics and Epigenetics, Duke Molecular Physiology Institute
Alzheimer’s disease (AD) is the leading cause of dementia, affecting more than 6 million people in the US. Differences in AD susceptibility are observed between brain regions that become affected during disease development. We hypothesize that region specific molecular and cellular responses underlie differential AD pathologic changes. To understand these mechanisms we are using 10x Genomics’ Visium technology to profile the transcriptional changes in four brain regions that develop neurofibrillary tangles at different stages of AD. Our results will provide further insight into AD susceptibility and may guide future therapeutic strategies aimed at preventing AD progression.
October 5
10:00AM - 10:30AM PDT
Discussion: Redefine Immunology with Single Cell and Spatial Multiomics
Learn how to resolve heterogeneous and diverse functional states of the immune system, enabling biomarker discovery and therapeutic development with 10x Genomics technology.
October 5
12:30PM - 1:15PM PDT
Plenary Session: Using Single Cell and Spatial Technologies to Fuel the Century of Biology
Dina Finan, PhD Product Manager, 10x Genomics
Imagine accessing the full richness of biological complexity all at once, instead of one small piece at a time. Join us to learn how you can uncover molecular insights, dissect cell-type differences, detect novel cell subtypes and biomarkers, define gene regulatory interactions, and decipher spatiotemporal gene expression patterns. See biology at true resolution.
October 5
1:30PM - 2:00PM PDT
Discussion (concurrent): Resolve the Complexities of the Brain with Single Cell and Spatial Multiomics
Kelly R. Miller, PhD Senior Manager, Neuroscience Segment Marketing, 10x Genomics
Learn about 10x Genomics' latest product portfolio and how it can be used to uncover new insights into normal brain function and neurological disease.
October 5
1:30PM - 2:00PM PDT
Discussion (concurrent): Single Cell and Spatial Multiomics to Advance Basic and Translational Cancer Research
Discover how single cell and spatial multiomics are transforming our understanding of the complex interplay between tumor, microenvironment, and immune compartments - from cancer progression to therapeutic resistance.
October 8
9:00AM - 9:45AM PDT
Keynote: Determining the Role of Tumor Cell and Immune Cell Interactions Through Single Cell Technologies and Matrix Factorization
Elana J. Fertig, PhD Associate Professor of Oncology, Applied Mathematics & Statistics, and Biomedical Engineering Assistant Director of the Research Program in Quantitative Sciences Johns Hopkins University
Single cell technologies, including notably spatially resolved extensions through Visium, provide unprecedented characterization of the molecular and cellular states reflecting tumor heterogeneity. We highlight how matrix factorization techniques provide a robust toolset to use these data to interpret immune cell and cancer cell interactions across single cell measurement technologies.
October 8
10:00AM - 10:30AM PDT
Discussion: Visium Spatial Gene Expression Solution: Software & Data Analysis
Anne Monahan Staff Field Applications Scientist - New England, 10x Genomics
Find out how Visium Spatial Gene Expression Solution software tools can help you analyze and visualize your spatial gene expression data.
October 8
11:00AM - 11:30AM PDT
Software Spotlight: Software Demo: Spatial Gene Expression Data
10x-Pert Team
Join us at the 10x Genomics Interactive Hub to watch the demo.
October 8
12:30PM - 1:15PM PDT
Plenary Session: Visium Spatial Solutions from 10x Genomics
Jason F. Kim Science & Technology Advisor, 10x Genomics
Learn how Visium Spatial Solutions are enabling researchers to map the whole transcriptome with morphological context to discover novel insights into normal development, disease pathology, and clinical translational research.
October 8
1:30PM - 2:00PM PDT
Discussion (concurrent): Discussion: Service and Core Facility Enablement
Spontaneous Russell Senior Product Manager, Visium Spatial Solutions, 10x Genomics
The Visium Spatial Gene Expression workflow is designed to be managed in one working day, but many labs also utilize services from one or more local core facilities. Let’s explore scenarios and success stories from service providers supporting core facility engagement in the Visium workflow.
October 8
1:30PM - 2:00PM PDT
Discussion (concurrent): Q&A: Spatial Workflow, Sample Prep, and Handling
Neil Winegarden Staff Field Application Scientist, 10x Genomics
In this discussion and Q&A session we’ll take a detailed look at what you need to prepare to work with Visium Spatial Gene Expression solutions, including considerations for setting up your first experiments, reagent kits, and sequencing support recommendations.
October 9
12:30PM - 1:15PM PDT
Plenary Session: 10x Genomics' Many Different Flavors of Multiomic Analysis
Learn about the wide range of multiomic offerings that 10x provides to enable researchers to expand their studies, including: combining single cell and spatial gene expression, spatial proteogenomics, multiomic cytometry, and our recently launched Single Cell Multiome ATAC + Gene Expression solution.
Bring your questions about multiomic immune profiling, and have them answered in a roundtable discussion with our experts.
October 22
9:00AM - 9:45AM PDT
Keynote: Interrogating the Molecular Basis of Alzheimer’s Disease Susceptibility by Spatial Transcriptomics
Simon Gregory, PhD Director of Genomics and Epigenetics, Duke Molecular Physiology Institute
Alzheimer’s disease (AD) is the leading cause of dementia, affecting more than 6 million people in the US. Differences in AD susceptibility are observed between brain regions that become affected during disease development. We hypothesize that region specific molecular and cellular responses underlie differential AD pathologic changes. To understand these mechanisms we are using 10x Genomics’ Visium technology to profile the transcriptional changes in four brain regions that develop neurofibrillary tangles at different stages of AD. Our results will provide further insight into AD susceptibility and may guide future therapeutic strategies aimed at preventing AD progression.
October 22
11:00AM - 11:30AM PDT
Software Spotlight: Software Demo: Spatial with Protein Data
10x-Pert Team
Join us at the 10x Genomics Interactive Hub to watch the demo.
October 22
12:30PM - 1:15PM PDT
Plenary Session: Spatially Resolved Molecular Investigation of Triple Negative Breast Cancer
Daphne Cooper, PhD Field Application Scientist, 10x Genomics
Explore advanced spatial analysis with gene expression data from a Triple Negative Breast Cancer sample. Learn how to use the Visium data analysis pipelines and visualization software to review correlations between pathologist annotations and cell clustering profiles identified through the Visium Spatial Gene Expression Solution.
October 22
1:30PM - 2:00PM PDT
Discussion (concurrent): Discussion: Visium with Immunofluorescence Application
Get staged for success with Visium Spatial Gene Expression Solutions. Join us to learn how to combine your current methods and reagents for immunofluorescent protein detection with whole transcriptome analysis for new insights on your tissues of interest.
October 22
1:30PM - 2:00PM PDT
Discussion (concurrent): Bioinformatics: Integrated Analysis of Single Cell and Spatial Gene Expression Data
Stephen Williams, PhD Senior Scientist, Computational Biology, 10x Genomics
Engage with bioinformatics experts to learn how to integrate and analyze single cell and spatial gene expression data using 10x software and open source tools.
October 5
9:00AM - 9:45AM PDT
Keynote: Mapping the Landscape of Anti-Viral Immunity by scRNA-seq
Adam Waickman, PhD Assistant Professor, Department of Microbiology and Immunology Laboratory Director and Translational Science Coordinator, Institute for Global Health and Translational Sciences State University of New York Upstate Medical University
In this talk, Dr. Waickman will discuss applications for scRNAseq in assessing both the innate and adaptive immune response to viral infection, as well as techniques for detecting and quantifying cell-associated viral RNA/DNA.
October 5
10:00AM - 10:30AM PDT
Discussion: Redefine Immunology with Single Cell and Spatial Multiomics
Learn how to resolve heterogeneous and diverse functional states of the immune system, enabling biomarker discovery and therapeutic development with 10x Genomics technology.
October 5
11:00AM - 11:30AM PDT
Software Spotlight: Software Demo: Single Cell Gene Expression Data
10x-pert Team
Join us at the 10x Genomics Interactive Hub to watch the demo.
October 5
12:30PM - 1:15PM PDT
Plenary Session: Using Single Cell and Spatial Technologies to Fuel the Century of Biology
Dina Finan, PhD Product Manager, 10x Genomics
Imagine accessing the full richness of biological complexity all at once, instead of one small piece at a time. Join us to learn how you can uncover molecular insights, dissect cell-type differences, detect novel cell subtypes and biomarkers, define gene regulatory interactions, and decipher spatiotemporal gene expression patterns. See biology at true resolution.
October 5
1:30PM - 2:00PM PDT
Discussion (concurrent): Resolve the Complexities of the Brain with Single Cell and Spatial Multiomics
Kelly R. Miller, PhD Senior Manager, Neuroscience Segment Marketing, 10x Genomics
Learn about 10x Genomics' latest product portfolio and how it can be used to uncover new insights into normal brain function and neurological disease.
October 5
1:30PM - 2:00PM PDT
Discussion (concurrent): Single Cell and Spatial Multiomics to Advance Basic and Translational Cancer Research
Discover how single cell and spatial multiomics are transforming our understanding of the complex interplay between tumor, microenvironment, and immune compartments - from cancer progression to therapeutic resistance.
October 9
9:00AM - 9:45AM PDT
Keynote: Identification of SARS-CoV-2 Inhibitors Using Lung and Colonic Organoids
Shuibing Chen, PhD Kilts Family Associate Professor (tenured) and the Director of Diabetes Program in the Department of Surgery Weill Cornell Medical College
There is an urgent need to create novel models using human disease-relevant cells to study SARS-CoV-2 biology and to facilitate drug screening. As SARS-CoV-2 primarily infects the respiratory tract, we developed a lung organoid model using human pluripotent stem cells (hPSC-LOs). The hPSC-LOs, particularly alveolar type II-like cells, are permissive to SARS-CoV-2 infection, and showed robust induction of chemokines upon SARS-CoV-2 infection, similar to what is seen in COVID-19 patients. Nearly 25% of these patients also have gastrointestinal manifestations, which are associated with worse COVID-19 outcomes1. We therefore also generated complementary hPSC-derived colonic organoids (hPSC-COs) to explore the response of colonic cells to SARS-CoV-2 infection. We found that multiple colonic cell types, especially enterocytes, express ACE2 and are permissive to SARS-CoV-2 infection. Using hPSC-LOs, we performed a high throughput screen of FDA-approved drugs and identified entry inhibitors of SARS-CoV-2, including imatinib, mycophenolic acid (MPA), and quinacrine dihydrochloride (QNHC). Treatment at physiologically relevant levels of these drugs significantly inhibited SARS-CoV-2 infection of both hPSC-LOs and hPSC-COs. Together, these data demonstrate that hPSC-LOs and hPSC-COs infected by SARS-CoV-2 can serve as disease models to study SARS-CoV-2 infection and provide a valuable resource for drug screening to identify candidate COVID-19 therapeutics.
Learn about the wide range of multiomic offerings that 10x provides to enable researchers to expand their studies, including: combining single cell and spatial gene expression, spatial proteogenomics, multiomic cytometry, and our recently launched Single Cell Multiome ATAC + Gene Expression solution.
Rea Dabelic, PhD Senior Field Application Scientist, 10x Genomics
How to prepare samples that require upstream handling steps, including antibody staining and flow sorting or bead-based enrichment.
October 9
1:30PM - 2:00PM PDT
Discussion (concurrent): Bioinformatics: Best Practices in Single Cell Gene Expression Data Analysis
Anushka Brownley Senior Product Manager, Informatics, 10x Genomics Li Wang, PhD Senior Computational Biologist, 10x Genomics Michael DeRan, PhD Scientific Consultant, Diamond Age
Engage with bioinformatics industry experts about best practices methods and tools for analyzing and interpreting single cell gene expression data.
October 12
9:00AM - 9:45AM PDT
Keynote: 10x Genomics RNA-seq and ATAC-seq Reagents for Characterizing the Mouse and Human Pituitary Cells
Frederique Ruf-Zamojski, PhD Assistant Professor - Neurology Department, Sealfon Laboratory Icahn School of Medicine at Mount Sinai
As the “master gland” of the endocrine system, the pituitary gland controls many key functions including growth, sexual maturation, reproduction, and lactation. A detailed characterization of pituitary cell populations and their underlying gene regulatory programs is needed to better understand cellular functions in this structurally complex tissue. We generated a single nucleus (sn) multi-omics atlas of the murine pituitary by assaying transcriptome and chromatin accessibility jointly in six individual animals, and DNA methylation in a pool of thirty male pituitaries1,2. Latent variable pathway analysis detected coordinated gene expression and chromatin accessibility programs showing both inter-sexual and inter-individual variation. Multi-omics analysis of gene regulatory networks identified cell type-specific regulons that were shaped by the promoter accessibility of their targets. We are currently extending our study to human pituitaries using joint snRNAseq and snATACseq assays to characterize human pituitary cell types and to compare human and mouse results. These nuclear multi-omics pituitary maps are a resource studying cell types in the pituitary, for identifying cell type-specific cis-regulatory elements and for understanding epigenetic control of transcriptional programs.
October 12
10:00AM - 10:30AM PDT
Discussion: 10x-pert Panel: Increasing your Power of Discovery Using Single Cell Epigenomics
Laura DeMare, PhD Product Manager, Strategic Marketing, 10x Genomics Zuly Peralta, PhD Senior Support Scientist, 10x Genomics Hank Tu, MS Staff Scientist, Applied Bioinformatics, 10x Genomics
Learn more about single cell ATAC-seq and how it can be combined with single cell RNA-seq for deeper biological insights. Bring your questions and have them answered in a roundtable discussion with our experts.
October 12
11:00AM - 11:30AM PDT
Software Spotlight: Software Demo: ATAC Data
10x-Pert Team
Join us at the 10x Genomics Interactive Hub to watch the demo.
October 12
12:30PM - 1:15PM PDT
Plenary Session: Getting Started with Single Cell Gene Expression
Go beyond traditional gene expression analysis to characterize cell populations, cell types, cell states, and more on a cell-by-cell basis.
October 12
1:30PM - 2:00PM PDT
Discussion (concurrent): Single Cell Gene Expression Experimental Considerations
Nicole Eckart, PhD Senior Field Application Scientist, 10x Genomics
Learn how to design your single cell gene expression experiments, optimize experimental parameters, and identify the computational tools to best analyze your single cell gene expression data.
October 12
1:30PM - 2:00PM PDT
Discussion (concurrent): Increase Laboratory Productivity with Chromium Connect
Explore how Chromium Connect can shorten your hands-on time while increasing your efficiency and productivity.
October 15
9:00AM - 9:45AM PDT
Keynote: Multi-Modal and Multi-Tissue Profiling of GBM Patients Treated with CAR T-Cell Therapy at Single Cell Resolution
Nicholas Banovich, PhD Assistant Professor, Integrated Cancer Genomics Division, Translational Genomics Research Institute
Using single cell RNA-sequencing and simultaneous quantification of nearly 200 cell surface proteins, we comprehensively profiled the cellular phenotypes and signaling pathways within tumor and circulating immune cells that are associated with treatment response in patients undergoing CAR T cell therapy for the treatment of GBM.
October 15
10:00AM - 10:30AM PDT
Discussion: Immune Profiling at the Single Cell Level with Multiomics
Spence Fast Science & Technology Advisor, 10x Genomics
A review of vaccination, antibody discovery, and other studies conducted with single cell immune profiling.
October 15
11:00AM - 11:30AM PDT
Software Spotlight: Software Demo: V(D)J Data
10x-Pert Team
Join us at the 10x Genomics Interactive Hub to watch the demo.
October 15
1:30PM - 2:00PM PDT
Discussion (concurrent): Q&A Panel on Multiomic Immune Profiling
Bring your questions about multiomic immune profiling, and have them answered in a roundtable discussion with our experts.
October 15
1:30PM - 2:00PM PDT
Discussion (concurrent): Bioinformatics: Analyzing CRISPR Screening Data
Mark Gerber, PhD Senior Field Application Scientist, 10x Genomics Andrew Hill, PhD Computational Biologist, 10x Genomics Niranjan Srinivas, PhD Senior Computational Biologist, 10x Genomics
See how to use 10x's Cell Ranger and Loupe Browser software and engage with bioinformatics experts about how to analyze CRISPR Screening data.
October 16
11:00AM - 11:30AM PDT
Software Spotlight: Software Demo: Targeted Gene Expression Data
10x-Pert Team
Join us at the 10x Genomics Interactive Hub to watch the demo.
October 16
12:30PM - 1:15PM PDT
Keynote: Functional Genomics Screening by Single Cell Perturbation Technologies
Russell Xie, PhD Scientist (Technology), Discovery Oncology, Genentech
In this talk, Dr. Xie will discuss how Mosaic-seq enables high-throughput, multiplexed interrogation of endogenous enhancers and also present on rational reprogramming of cellular states by Reprogram-seq.
October 16
1:30PM - 2:00PM PDT
Discussion (concurrent): How to Get Started with Single Cell CRISPR Screening
Jason Koth Associate Product Manager, Single Cell, 10x Genomics
Single Cell CRISPR screens produce rich gene expression phenotype information by directly linking to each CRISPR perturbation at Single Cell resolution. In this presentation, we will provide details on how to get started with this innovative new technique.
October 16
1:30PM - 2:00PM PDT
Discussion (concurrent): Advanced Applications Using 10x Genomics Feature Barcode Technology
Feature Barcode technology enables higher scale and resolution for multimodal measurements of single cells. This talk will cover examples of 1) Cell surface protein 2) CRISPR and 3) antigen specificity experiments that achieve high scale, and will highlight workflow considerations to ensure successful data when designing these types of experiments.
October 19
9:00AM - 9:45AM PDT
Keynote: Mapping the Liver Microenvironment in Health and Disease Using Single Cell Technologies
Sonya MacParland, PhD Assistant Professor, University of Toronto Scientist, Toronto General Hospital Research Institute
Single cell transcriptomics has enabled examination of the cellular makeup of the liver with impressive detail. We describe approaches to create transcriptional maps of human and animal livers as a framework to understand, model and target liver disease.
October 19
10:00AM - 10:45AM PDT
Keynote: Reconstruction of Developmental Landscapes by Optimal-Transport Analysis of Single Cell Genomics Data
Jian Shu, PhD Helen Hay Whitney Fellow, Eric Lander Lab, Broad Institute of MIT and Harvard, Rudolf Jaenisch Lab, Whitehead Institute for Biomedical Research
Reconstructing the circuits that control how cells adopt specific fates and engineering these circuits to reprogram cellular functions are major challenges in biology. I will introduce “Waddington-OT”, a computational framework for reconstructing lineages, trajectories, and cell-cell interactions with Single Cell genomics. I will show how we can use these approaches to decode the cellular and molecular mechanisms governing reprogramming to iPSCs and fetomaternal immune tolerance in the placenta.
October 19
11:00AM - 11:30AM PDT
Software Spotlight: Software Demo: Multiome Single Cell ATAC + Gene Expression Data
10x-Pert Team
Join us at the 10x Genomics Interactive Hub to watch the demo.
October 19
12:30PM - 1:15PM PDT
Plenary Session: Advanced Applications: Deciphering Epigenetic Regulation at Single Cell Resolution
Profiling the chromatin landscape at single cell resolution has yielded important biological discoveries. Come learn how single cell ATAC-seq has been applied to gain deeper insights into health and disease and how it can transform your research.
October 19
1:30PM - 2:00PM PDT
Discussion (concurrent): Getting Started with Targeted Gene Expression
Dina Finan, PhD Product Manager, 10x Genomics
Learn how you can perform Targeted Gene Expression on single cells or spatial libraries. Explore our pre-designed panels, or learn how to customize them to focus on the transcripts that really matter.
October 19
1:30PM - 2:00PM PDT
Discussion (concurrent): Single Cell Multiome ATAC + Gene Expression Data Analysis and Visualization
Paul Cherng Product Manager, 10x Genomics
Find out how the Cell Ranger ARC and Loupe Browser software tools can help you analyze and visualize your Chromium Single Cell Multiome ATAC + Gene Expression data.
October 22
1:30PM - 2:00PM PDT
Discussion (concurrent): Bioinformatics: Integrated Analysis of Single Cell and Spatial Gene Expression Data
Stephen Williams, PhD Senior Scientist, Computational Biology, 10x Genomics
Engage with bioinformatics experts to learn how to integrate and analyze single cell and spatial gene expression data using 10x software and open source tools.