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RegGen COSI Track Presentations

Attention Conference Presenters - please review the Speaker Information Page available here
Decoding transcriptional regulation in Drosophila
Date: Saturday, July 22
Time: 10:00 AM - 10:50 AM
Room: Meeting Hall IA
  • Alexander Stark, , Austria
Accurate prediction of in-vivo transcription factor binding across cell types
Date: Saturday, July 22
Time: 10:50 AM - 11:10 AM
Room: Meeting Hall IA
  • Jan Grau, Institute of Computer Science, Martin Luther University Halle-Wittenberg, Germany
  • Stefan Posch, Institute of Computer Science, Martin Luther University Halle-Wittenberg, Germany
  • Jens Keilwagen, Julius Kühn-Institut (JKI) - Federal Research Centre for Cultivated Plants, Germany
Direct AUC Optimization of Regulatory Motifs
Date: Saturday, July 22
Time: 11:10 AM - 11:30 AM
Room: Meeting Hall IA
  • Lin Zhu, Tongji University, China
  • Hong-Bo Zhang, Tongji University, China
  • De-Shuang Huang, Tongji University, China
On the importance of modeling diversity in regulation when working with cross-linking-based high-throughput experiments
Date: Saturday, July 22
Time: 11:30 AM - 11:50 AM
Room: Meeting Hall IA
  • Sneha Mitra, Duke University, United States
  • Anushua Biswas, National Chemical Laboratory, India
  • Leelavati Narlikar, National Chemical Laboratory, India
Deconvolving sequence features associated with transcription factor binding dynamics during direct motor neuron programming
Date: Saturday, July 22
Time: 11:50 AM - 12:10 PM
Room: Meeting Hall IA
  • Akshay Kakumanu, Pennsylvania State University, United States
  • Silvia Velasco, New York University, United States
  • Esteban Mazzoni, New York University, United States
  • Shaun Mahony, Pennsylvania State University, United States
Advancing the functional interpretation of high-throughput gene regulatory data
Date: Saturday, July 22
Time: 12:10 PM - 12:30 PM
Room: Meeting Hall IA
  • Maureen Sartor, University of Michigan, United States
  • Christopher Lee, University of Michigan, United States
  • Raymond Cavalcante, University of Michigan, United States
  • Shuze Wang, University of Michigan, United States
  • Heming Yao, University of Michigan, United States
  • Peter Orchard, University of Michigan, United States
  • Tingting Qin, University of Michigan, United States
  • Tsung-Yeh Tsai, University of Michigan, United States
TADs are ancient features that coincide with Metazoan clusters of extreme noncoding conservation
Date: Saturday, July 22
Time: 2:00 PM - 2:40 PM
Room: Meeting Hall IA
  • Boris Lenhard, , United Kingdom
Denoising Genome-wide Histone ChIP-seq with Convolutional Neural Networks
Date: Saturday, July 22
Time: 2:40 PM - 3:00 PM
Room: Meeting Hall IA
  • Pang Wei Koh, Stanford University, United States
  • Emma Pierson, Stanford, United States
  • Anshul Kundaje, Stanford University, United States
Exploiting sequence-based features for predicting enhancer-promoter interactions
Date: Saturday, July 22
Time: 3:00 PM - 3:20 PM
Room: Meeting Hall IA
  • Yang Yang, Carnegie Mellon University, United States
  • Ruochi Zhang, Tsinghua University, China
  • Shashank Singh, Carnegie Mellon University, United States
  • Jian Ma, Carnegie Mellon University, United States
Distal CpG islands can serve as alternative promoters to transcribe genes with silenced proximal-promoters
Date: Saturday, July 22
Time: 3:20 PM - 3:40 PM
Room: Meeting Hall IA
  • Shrutii Sarda, University of Maryland, United States
  • Avinash Das, University of Maryland, United States
  • Charles Vinson, National Cancer Institute, United States
  • Sridhar Hannenhalli, UMD, United States
Predicting gene silencing dynamics during X chromosome inactivation with Random Forests
Date: Saturday, July 22
Time: 3:40 PM - 4:00 PM
Room: Meeting Hall IA
  • Lisa Barros de Andrade E Sousa, Max Planck Institute for Molecular Genetics, Germany
  • Annalisa Marsico, Max Planck Institute for Molecular Genetics, Germany
TITER: predicting translation initiation sites by deep learning
Date: Saturday, July 22
Time: 4:30 PM - 4:50 PM
Room: Meeting Hall IA
  • Sai Zhang, Institute for Interdisciplinary Information Sciences, Tsinghua University, China
  • Hailin Hu, School of Medicine, Tsinghua University, China
  • Tao Jiang, Department of Computer Science and Engineering, University of California, Riverside, China
  • Lei Zhang, School of Medicine, Tsinghua University, China
  • Jianyang Zeng, Institute for Interdisciplinary Information Sciences, Tsinghua University, China
A Deep Learning Approach to Predict miRNA Targets by Analyzing Whole miRNA & isomiR Transcripts
Date: Saturday, July 22
Time: 4:50 PM - 5:10 PM
Room: Meeting Hall IA
  • Albert Pla, University of Oslo, Norway
  • Xiangfu Zhong, University of Oslo, Norway
  • Fatima Heinicke, University of Oslo, Norway
  • Simon Rayner, University of Oslo, Norway
Model-based transcriptome engineering promotes a fermentative transcriptional state in yeast
Date: Saturday, July 22
Time: 5:10 PM - 5:30 PM
Room: Meeting Hall IA
  • Drew Michael, Washington University, United States
  • Ezekiel Maier, Washington University, United States
  • Michael R. Brent, wustl, United States
RegGen One minute flash talks by poster presenters
Date: Saturday, July 22
Time: 5:30 PM - 6:00 PM
Room: Meeting Hall IA
  • Poster Presenters, NA, NA
Powering quantitative models of gene regulation in development with single-cell genomics
Date: Sunday, July 23
Time: 10:00 AM - 10:50 AM
Room: Meeting Hall IA
  • Cole Trapnell, , United States
scTree: reconstructing complex cellular lineage trees from single-cell RNA-seq data
Date: Sunday, July 23
Time: 10:50 AM - 11:10 AM
Room: Meeting Hall IA
  • R. Gonzalo Parra, Quantitative and Computational Biology Group, Max Planck Institute for Biophysical Chemistry, Germany
  • Nikolaos Papadopoulos, Max Planck Institute for Biophysical ChemistryQuantitative and Computational Biology Group, Max Planck Institute for Biophysical Chemistry, Germany
  • Laura Ahumada-Arranz, Max Planck Institute for Biophysical ChemistryQuantitative and Computational Biology Group, Max Planck Institute for Biophysical Chemistry, Germany
  • Jakob El Kholtei, Quantitative and Computational Biology Group, Max Planck Institute for Biophysical Chemistry, Germany
  • Johannes Soeding, Quantitative and Computational Biology Group, Max Planck Institute for Biophysical Chemistry, Germany
Unraveling Cortical Development Using Population and Single-cell RNA-Seq Data
Date: Sunday, July 23
Time: 11:10 AM - 11:30 AM
Room: Meeting Hall IA
  • Zahra Karimaddini, ETH Zürich, Switzerland
  • Tanzila Mukhtar, University of Basel, Switzerland
  • Verdon Taylor, University of Basel, Switzerland
  • Dagmar Iber, ETH Zürich, Switzerland
Gene regulatory network analysis in single cells
Date: Sunday, July 23
Time: 11:30 AM - 11:50 AM
Room: Meeting Hall IA
  • Sara Aibar, VIB-KU Leuven Center for Brain and Disease Research. Leuven, Belgium, Belgium
  • Carmen Bravo González-Blas, VIB-KU Leuven Center for Brain and Disease Research. Leuven, Belgium, Belgium
  • Jasper Wouters, VIB-KU Leuven Center for Brain and Disease Research. Leuven, Belgium, Belgium
  • Thomas Moerman, KU Leuven ESAT/STADIUS VDA-lab; and IMEC Smart Applications and Innovation Services. Leuven, Belgium, Belgium
  • Vân Anh Huynh-Thu, University of Liège, Department of Electrical Engineering and Computer Science, Liège, Belgium, Belgium
  • Hana Imrichova, VIB-KU Leuven Center for Brain and Disease Research. Leuven, Belgium, Belgium
  • Zeynep Kalender Atak, VIB-KU Leuven Center for Brain and Disease Research. Leuven, Belgium, Belgium
  • Gert Hulselmans, VIB-KU Leuven Center for Brain and Disease Research. Leuven, Belgium, Belgium
  • Michael Dewaele, VIB-KU Leuven Center for Cancer Biology, Laboratory for Molecular Cancer Biology, Leuven, Belgium, Belgium
  • Florian Rambow, VIB-KU Leuven Center for Cancer Biology, Laboratory for Molecular Cancer Biology, Leuven, Belgium, Belgium
  • Jean-Christophe Marine, VIB-KU Leuven Center for Cancer Biology, Laboratory for Molecular Cancer Biology, Leuven, Belgium, Belgium
  • Pierre Geurts, University of Liège, Department of Electrical Engineering and Computer Science, Liège, Belgium, Belgium
  • Jan Aerts, KU Leuven ESAT/STADIUS VDA-lab; and IMEC Smart Applications and Innovation Services. Leuven, Belgium, Belgium
  • Joost van den Oord, KU Leuven, Department of Imaging and Pathology, Translational Cell and Tissue Research, Leuven, Belgium, Belgium
  • Stein Aerts, VIB-KU Leuven Center for Brain and Disease Research. Leuven, Belgium, Belgium
Integrative analysis of single-cell expression data reveals distinct regulatory states in bidirectional promoters
Date: Sunday, July 23
Time: 11:50 AM - 12:10 PM
Room: Meeting Hall IA
  • Fatemeh Behjati Ardakani, Max Planck Institute for Informatics, Germany
  • Marcel Schulz, Max Planck Institute for Informatics, Germany
Determining the Mechanism of 5-Azacytidine Resistance in Myeloid Malignancies Using Single-cell DNA Methylation Sequencing Paired With Flow Cytometry
Date: Sunday, July 23
Time: 12:10 PM - 12:30 PM
Room: Meeting Hall IA
  • Kieran O'Neill, BC Cancer Agency, Canada
  • Tony Hui, University of British Columbia, Canada
  • Yu Deborah Deng, University of British Columbia, Canada
  • Jeremy Parker, BC Cancer Agency, Canada
  • Michelle Moksa, University of British Columbia, Canada
  • Martin Hirst, University of British Columbia, Canada
  • Aly Karsan, Michael Smith Genome Sciences Centre, Canada
miniMDS: 3D structural inference from high- resolution Hi-C data
Date: Sunday, July 23
Time: 2:00 PM - 2:20 PM
Room: Meeting Hall IA
  • Lila Rieber, Pennsylvania State University, United States
  • Shaun Mahony, Pennsylvania State University, United States
Reducing Noise in Hi-C Interaction Matrices at Restriction Fragment Resolution
Date: Sunday, July 23
Time: 2:20 PM - 2:40 PM
Room: Meeting Hall IA
  • Christopher Cameron, McGill University, Canada
  • Josée Dostie, McGill University, Canada
  • Mathieu Blanchette, McGill University, Canada
High-resolution analysis of short-range chromatin interactions reveals small topologically associating domains
Date: Sunday, July 23
Time: 2:40 PM - 3:00 PM
Room: Meeting Hall IA
  • Fei Ji, Massachusetts General Hospital/ Harvard Medical School, United States
  • Sharmistha Kundu, Massachusetts General Hospital/ Harvard Medical School, United States
  • Robert Kingston, Massachusetts General Hospital/ Harvard Medical School, United States
  • Ruslan Sadreyev, Massachusetts General Hospital/ Harvard Medical School, United States
Comparative Chromosomal Folding Analysis
Date: Sunday, July 23
Time: 3:00 PM - 3:20 PM
Room: Meeting Hall IA
  • Monica Nicolau, University of California, Davis, United States
  • Janine Erler, University of Copenhagen, Denmark
  • Kim Theilgaard-Mönch, University of Copenhagen, Denmark
  • Javier Arsuaga, University of California, Davis, United States
Genetic and epigenetic variation in regulatory elements across individuals
Date: Sunday, July 23
Time: 3:20 pm - 4:00 PM
Room: Meeting Hall IA
  • Judith Zaugg, , Germany
Genome Architecture Mapping: an orthogonal approach to 3C technologies
Date: Sunday, July 23
Time: 4:30 PM - 4:50 PM
Room: Meeting Hall IA
  • Robert A. Beagrie, Max-Delbrück Centre for Molecular Medicine, Germany
  • Markus Schueler, Max-Delbrück Centre for Molecular Medicine, Germany
  • Christoph J. Thieme, Max-Delbrück Centre for Molecular Medicine, Germany
  • Antonio Scialdone, Università di Napoli Federico II, Italy
  • Paul A.W. Edwards, University of Cambridge, United Kingdom
  • Mario Nicodemi, Università di Napoli Federico II, Italy
  • Ana Pombo, Max-Delbrück Centre for Molecular Medicine, Germany
Regulatory topic modelling on single-cell ATAC-seq data
Date: Sunday, July 23
Time: 4:50 PM - 5:10 PM
Room: Meeting Hall IA
  • Carmen Bravo González-Blas, VIB-KU Leuven, Belgium
  • Kristofer Davie, VIB-KU Leuven, Belgium
  • Stein Aerts, VIB-KU Leuven, Belgium
Genetic Variation Mediates the Epigenetic Response to Corticosteroids in Mice
Date: Sunday, July 23
Time: 5:10 PM - 5:30 PM
Room: Meeting Hall IA
  • Catrina Spruce, The Jackson Laboratory, United States
  • Anna Tyler, The Jackson Laboratory, United States
  • Robyn Ball, The Jackson Laboratory, United States
  • Wendy Pitman, The Jackson Laboratory, United States
  • Narayanan Raghupahty, The Jackson Laboratory, United States
  • Michael Walker, The Jackson Laboratory, United States
  • Kenneth Paigen, The Jackson Laboratory, United States
  • Petko Petkov, The Jackson Laboratory, United States
  • Greg Carter, The Jackson Laboratory, United States
Therapeutic Targeting of Tumors as Informed by Oncogenic Enhancer Profiling
Date: Sunday, July 23
Time: 5:30 PM - 5:50 PM
Room: Meeting Hall IA
  • Stephen Mack, Cleveland Clinic, United States
  • Kristian Pajtler, German Cancer Reserach Center, Germany
  • Lukas Chavez, German Cancer Reserach Center, Germany
RegGen One minute flash talks by poster presenters
Date: Sunday, July 23
Time: 5:50 PM - 6:00 PM
Room: Meeting Hall IA
  • Poster Presenters, NA, NA