Regulatory Genomics Special Interest Group (RegGenSIG)
Special Interest Group (SIG) at ISMB 2016 https://www.iscb.org/ismb2016
July 9, 2016, Swan and Dolphin Hotel, Orlando, Florida
Regulatory genomics involves the study of the genomic "control system", which determines how, when and where to activate the "blueprint" encoded in the genome. Regulatory genomics is the topic of much research activity worldwide. Since computational methods are important in the study of gene regulation, the RegGenSIG meeting focuses on bioinformatics for regulatory genomics. An important goal of the meeting is to foster a collaborative community wherein scientists convene to solve difficult research problems in all areas of computational regulatory genomics.
RegGenSIG is an activity of the ISCB Special Interest Group for Regulatory Systems Genomics, a community of shared interest that has multiple activities and interactions throughout the year, rather than solely meeting during the ISMB conference. An important goal of the SIG is to foster a topically-focused collaborative community wherein scientists communicate with one another on research problems and/or opportunities in the area of computational biology as it pertains to regulatory and systems genomics. The SIG holds two meetings per year, (1) RegGenSIG and (2) The RECOMB/ISCB Conference on Regulatory and Systems Genomics and DREAM Challenges.
KEY DATES
April 18, 2016 Due date for abstracts for oral presentations
May 2, 2016 Author notification for oral presentations
May 9, 2016 Due date for abstracts for poster presentation only
May 23, 2016 Author notification for poster presentations
June 3, 2016 Early registration discount cut-off date
July 9, 2016 RegGenSIG meeting
Program for RegGenSIG 2016
Program (pdf)
RegGenSIG
Orlando, July 9th 2016
7:30 am – 8:45 am Registration
8:30 am – 10.15 am Session Regulatory genomics in development
Chair: Saurabh Sinha
Julia Zeitlinger (Stowers Institute) – “Elucidating enhancer mechanisms using genomics” (30 min) http://research.stowers.org/zeitlingerlab/
Chris Rushlow (NYU) – “Activation of the Drosophila genome by the pioneer factor Zelda” (30 min) http://biology.as.nyu.edu/object/ChristineRushlow.html
Vivekanandan Ramalingam (Stowers Institute)-“The promotor factor Lola regulates gene activation during embryogenesis by making promoters accessible over time” (20 min) Abstract
Sushmita Roy – “CMINT: Chromatin Module inference on cellular trajectories identifies poised epigenetic states in reprogramming to induced pluripotent stem cells” (20 min) Abstract
10:15 am – 10:45 am Morning Coffee Break
10.45 am – 12.05 pm Session Regulatory genomics and epigenomics
Chair: Jason Ernst
Anshul Kundaje (Stanford University) – “Interpretable, integrative deep learning models for regulatory genomics and epigenomics” (30 min) http://anshul.kundaje.net
Mathieu Blanchette (McGill University) – “Studying human gene regulation using paleogenomics” (30 min) http://www.cs.mcgill.ca/~blanchem/
Mathieu Lupien (University of Toronto) – “Chromatin context reveals the role of noncoding mutations in cancer” (30 min) https://www.pmgenomics.ca/lupienlab/index.html
12.05 am –12.15 pm Flash Talks
Marco-Antonio Mendoza-Parra – “A functional genomics explorer for visualizing and comparing large amounts of datasets retrieved in the public domain” Abstract
Maya Botzman – “POEM: Identifying joint additive effects on regulatory circuits” Abstract
12:30 pm - Lunch and poster session
2:00 pm – 3.30 pm Session Transcription factor specificity
Chair: Anshul Kundaje
Ning Shen – “Determinants of differential DNA binding specificity between closely related transcription factors” (20 min) Abstract
Yaron Orenstein – “DNA Shape Readout Specificities of Different TF Families” (20 min) Abstract
Shuxiang Ruan – “An EM Algorithm for Binding Energy Estimation Using HT-SELEX Data” (20 min) Abstract
Timothy Hughes (Universty of Toronto) – “Multiparameter network diversity of human C2H2 zinc finger transcription factors” (30 min) http://hugheslab.med.utoronto.ca/
3:30 pm – 4:00 pm Afternoon Coffee Break
4.00 pm – 6:00 pm Session New techniques - from enhancer assays to RNA splicing
Chair: Sushmita Roy
Vincent Drury FitzPatrick – “Discovering the autonomous rules by which sequence drives transcription using a novel massively parallel barcoded reporter assay” (20 in) Abstract
Jonathan Cairns – “Robust interaction detection in Capture Hi-C connects enhancers and disease SNPs to target genes” (20 min) Abstract
R. Taylor Raborn – “Promoter architecture and sex-specific gene expression in the microcrustacean Daphnia pulex revealed by large-scale profiling of 5'-mRNA ends” (20 min) Abstract
Logan Everett – “Deep Sequencing of Whole Transcriptomes Across the Drosophila Genetic Reference Panel” (20 min) Abstract
Joshua Welch – “Robust Detection of Alternative Splicing in a Population of Single Cells” (20 min) Abstract
Poster abstracts
Yuichi Aoki: Involvement of evolutionary age in transcription factor mediated gene regulatory network - AbstractInvited Speakers
Mathieu Blanchette
Timothy Hughes
Anshul Kundaje
Mathieu Lupien
Chris Rushlow
Julia Zeitlinger
Program Chairs
Stein Aerts, University of Leuven, Belgium, stein.aerts@med.kuleuven.be
Jason Ernst, University of California, Los Angeles, United States, jason.ernst@ucla.edu
Saurabh Sinha, University of Illinois Urbana, United States, sinhas@illinois.edu
Julia Zeitlinger, Stowers Institute for Medical Research, United States, jbz@stowers.org
Steering Committee Chairs
Finn Drablos, Norwegian University of Science and Technology, Norway, finn.drablos@ntnu.no
Lonnie Welch, Ohio University Athens, United States, welch@ohio.edu
Steering Committee
Tim Bailey, University of Queensland, Australia
Harmen Bussemaker, Columbia University, USA
Laura Elnitski, National Human Genome Research Institute, USA
Ana Teresa Freitas, Technical University of Lisbon, Portugal
Eileen Furlong, EMBL Heidelberg, Germany
Roderic Guigo, Centre for Genomic Regulation, Spain
Alexander Hartemink, Duke University, USA
Manolis Kellis, MIT, USA
Kathleen Marchal, Professor University of Ghent and K. U. Leuven, Belgium
Pierre Nicolas, INRA, France
Isidore Rigoutsos, Thomas Jefferson University, USA
Gustavo Stolovitzky, IBM, USA
Kai Tan, Children's Hospital of Philadelphia and University of Pennsylvania, USA
Andrei Thomas-Tikhonenko, University of Pennsylvania, USA
Esko Ukkonen, University of Helsinki, Finland
Martin Vingron, Max Planck Institute for Molecular Genetics, Germany
Weixiong Zhang, Washington University, USA
Igor Zwir, University of Granada, Spain