ENCODE 2019: Research Applications and Users Meeting
July 8th - 10th, 2019
Bell Harbor International Conference Center, Seattle, WA
Monday, July 8 | |
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8:00 AM – 8:30 AM | BREAKFAST / COFFEE |
8:30 AM – 8:40 AM | Welcome and Meeting Overview Dan Gilchrist, National Human Genome Research Institute |
8:40 AM – 9:35 AM |
KEYNOTE LECTURE Enhancing Genetically-Predicted Gene Expression Using ENCODE Data |
9:35 AM – 10:55 AM |
SESSION 1 — RNA / Transcriptomes Roles of RNA Binding Proteins and Chromatin in RNA Processing Analysis of ENCODE Long-Read RNA Transcriptome Data — Slides Single Cell and Ensemble RNA Transcriptomes Large-Scale Mapping and Analysis of Human RNA Binding Proteins — Slides |
10:55 AM – 11:10 AM | BREAK |
11:10 AM – 12:30PM |
SESSION 2 — Regulatory DNA & RNA Analysis of the Rapidly Expanding ENCODE Transcription Factor Maps Chromatin Partitioning Reveals the Nature of Non-Coding Mutations in Cancer Profiling Nascent RNA Transcription Using Bru-seq — Slides Index and vocabulary of accessible DNA elements in the human genome |
12:30 PM – 1:30 PM | LUNCH |
1:30 PM – 5:45 PM | WORKSHOPS I |
1:30 PM - 3:30 PM |
Accessing ENCODE's 15,000+ Datasets: Portal, API, & more — Workshop Materials Navigating the ENCODE Encyclopedia with SCREEN — Workshop Materials |
3:30 PM – 3:45 PM | BREAK |
3:45 PM - 5:45 PM |
Using ENCODE in the cloud: Uniform Processing Pipelines — Workshop Materials Using the GENCODE reference annotation of human and mouse genes and transcripts — Workshop Materials |
5:45 PM – 7:30 PM | SOCIAL / LITE BITES |
Tuesday, July 9 | ||
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8:00 AM – 8:40 AM | BREAKFAST / COFFEE | |
8:40 AM – 9:35 AM |
KEYNOTE LECTURE Genome-wide mapping of protein-DNA interaction dynamics — Slides |
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9:35 AM – 10:55 AM |
SESSION 3 — Technology Functional Studies of Candidate Enhancers Using CRISPR & Massively Parallel Reporter Assays Integrating Multi-Omic Single Cell Data Sets — Slides Large-Scale Structure-Function Studies Inferring the Epigenetic Landscape of Polygenic Disease — Slides |
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10:55 AM – 11:10 AM | BREAK | |
11:10 AM – 12:10 PM |
SESSION 4 — Functional Analysis Dissecting Genome Function and Drug-Responsive Regulation Leveraging ENCODE to Reveal the Role of Regulatory Variants in Neuropsychiatric Disorders — Slides ENCOTE - Encyclopedia of Transposable Elements |
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12:10 PM – 12:30 PM |
RAPID-FIRE TALKS I Jason Underwood, UW / PacBio (Abstract 05) Timothy Cherry, Harvard (Abstract 01) |
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12:30 PM – 1:30 PM | LUNCH | |
1:30 PM – 3:30 PM |
WORKSHOPS II Engaging ENCODE data using the WashU Epigenome Browser — Workshop Materials
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Neural Networks and Deep Learning: Applications to Genomics and Gene Regulation — Workshop Materials / Slides |
3:30 PM – 3:45 PM | BREAK | |
3:45 PM – 5:45 PM |
RAPID-FIRE TALKS II Dan Zhou, Vanderbilt (Abstract 02) Colin Shew, UC Davis (Abstract 07) Alison Paquette, ISB (Abstract 09) Stephanie Ni, UC Davis (Abstract 10) Michael Meers, FHCRC (Abstract 11) Alireza Lorzadeh, UBC (Abstract 12) Wei Zhou, UW (Abstract 22) James Thomas, FHCRC (Abstract 24) |
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5:45 PM – 7:30 PM | POSTERS / SOCIAL / LITE BITES |
Wednesday, July 10 | |
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8:30 AM – 9:00 AM | BREAKFAST / COFFEE |
9:00 AM – 10:00 AM |
SESSION 5 — Disease Genetics Genetic and epigenetic analyses of multiple sclerosis — Slides Sex differences in the human transcriptome Genetics and functional genomics of inflammatory diseases |
10:00 AM – 11:35 AM |
SESSION 6 — Regulation Regulatory interactions Mapping nuclear architecture |
10:45 AM – 10:55 AM | BREAK |
10:55 AM - 11:35 AM |
Mapping long-range regulatory interactions Footprinting the human genome |
11:35 AM – 12:35 PM |
SESSION 7 — AI / Machine Learning Imputation of epigenomic and transcriptomic experiments — Slides Using deep learning to gain insights into genome regulation — Slides Deciphering regulatory DNA codes using machine learning |
12:35 PM – 12:45 PM | WRAP UP |