|
Presenting Author |
Abstract Title |
Talk/Poster |
|
Aerts, S. |
Multiplex enhancer-reporter assays reveal unsophisticated p53 enhancer logic |
talk |
|
Afek, A. |
Protein−DNA binding in the absence of specific base-pair recognition significantly affects transcriptional regulation |
poster |
|
Ahituv, N. |
Functional characterization of gene regulatory elements |
talk |
|
Ahringer, J. |
Properties and activities of enhancers |
talk |
|
Akhtar, A. |
Epigenetic regulation by MOF containing complexes—Old players, new facts |
talk |
|
Andrilenas, K. |
Characterizing the DNA-binding differences between IRF transcription factors |
poster |
|
Ansari, A.Z. |
Differential specificity and energy landscapes (Di-SEL) unmask sequence preferences of transcription factors that bind indistinguishably to consensus DNA motifs |
talk |
|
Arnosti, D.N. |
Dynamic action of repressors on non-target elements challenges assumptions for genome-wide identification of enhancers |
talk |
|
Azizi, E. |
Bayesian modeling of cell sub-populations using single-cell transcriptomic data |
poster |
|
Ballouz, S. |
AuPairWise—Biologically focused RNA-seq quality control using co-expression |
poster |
|
Baran-Gale, J. |
Dynamics of estrogen stimulated regulatory networks in breast cancer |
poster |
|
Batchelor, E.P. |
Systems-level analysis of the regulation and function of p53 dynamics |
talk |
|
Beer, M.A. |
Comparative assessment of training data and computational methods for predicting cell-type specific enhancer activity and the impact of regulatory mutations |
poster |
|
Bennett, C.G. |
Transcriptome-wide identification of Musashi-2 targets reveals novel regulatory mechanisms and functions |
poster |
|
Biette, K. |
Shadow enhancers control gene expression dynamics in Drosophila development |
poster |
|
Birnbaum, R.Y. |
Functional characterization of gene regulatory elements of epilepsy-associated genes |
poster |
|
Blumberg, A. |
Novel NGS-based approach to analyze mtDNA transcription initiation |
poster |
|
Brent, M.R. |
Exploiting sequence similarity between DNA binding domains significantly improves the accuracy of TF network mapping |
poster |
|
Campitelli, L.F. |
Multiparameter functional diversity of human C2H2 zinc finger proteins |
poster |
|
Celik, S. |
Unsupervised learning of features in multiple gene expression datasets reveals a potential driver for tumor-associated stroma |
poster |
|
Chaitankar, V. |
Gene network dynamics of mammalian rod photoreceptor |
poster |
|
Chasman, D. |
Predicting cell type-specific long-range regulatory interactions in rare cell types |
poster |
|
Chatterjee, S. |
Multiple enhancer-driven polymorphisms disrupt the entire RET Gene Regulatory Network (GRN) in Hirschsprung disease |
poster |
|
Chaudhari, H.G. |
Local sequence context determines AP-1 binding site activity |
talk |
|
Chen, L. |
Conservation of the enhancer sequence code across mammals |
poster |
|
Cho, H. |
Memory of inflammation in regulatory T cells |
poster |
|
Churchman, S. |
Synchronized translation programs across cellular compartments |
talk |
|
Combs, P.A. |
Genome-wide measurement of spatial expression in patterning mutants of Drosophila melanogaster |
talk |
|
Cramer, P. |
TT-Seq captures the human transient transcriptome |
talk |
|
Crow, M. |
Assessing the reproducibility of single cell RNA-seq co-expression |
poster |
|
Cui, M. |
Genomic control of endoderm-specifically expressed posterior Hox gene |
talk |
|
Danko, C.G. |
Widespread stabilizing and positive selection govern primate enhancer evolution |
talk |
|
Demchak, B. |
No more silos—The cytoscape CI enables best of breed functionality and improved productivity |
poster |
|
Diamanti, K. |
Genome-wide maps of putative regulatory regions and genomic signal interactions |
poster |
|
Dowell, R.D. |
RNA Pol II modeling predicts active transcription factors |
talk |
|
Dukler, N. |
Analyzing the interplay between enhancers and genes in the transcriptional response to celastrol |
poster |
|
Eddy, S. |
A statistical test of RNA base pair covariation applied to proposed lncRNA structures |
talk |
|
Engelhardt, B. |
Tissue-specific expression QTLs |
talk |
|
Engreitz, J. |
Many promoters of lncRNAs and mRNAs act as enhancers in local gene regulatory networks |
talk |
|
Favé, M. |
Integrating genomic and environmental features to map critical factors in individual development of chronic diseases |
talk |
|
Fish, A.E. |
Genomic context drives the conservation of enhancer activity across species |
poster |
|
FitzPatrick, V.D. |
Discovering the autonomous rules by which sequence drives transcription using a novel massively parallel barcoded reporter assay |
poster |
|
Friedman, N. |
Elucidating chromatin architecture by combinatorial co-immuneprecipitation (co-ChIP) |
talk |
|
Fuxman Bass, J.I. |
A transcription factor-wide protein-DNA interaction network for ~15% of C. elegans genes |
poster |
|
Gasch, A.P. |
Integrating signaling networks inferred from stress-induced transcriptomic and phospho-proteomic responses in yeast reveals an ancient signaling network linked to disease biology |
poster |
|
Gatto, S. |
Epigenomic mechanisms driving hESC conversion into skeletal muscle cells |
talk |
|
Ge, X. |
Speculations on gene regulation in early embryogenesis by exploratory bioinformatics |
poster |
|
Georgakopoulos-Soares, I. |
Combinatorial analysis of transcription factor binding sites identifies higher organization patterns at regulatory elements |
poster |
|
Gerard, D.P. |
Time-course analysis of gene regulatory network dynamics during mesenchymal lineage commitment |
poster |
|
Gerber, A. |
Cistrome profiling pinpoints cooperative regulation of anti-inflammatory nodes by the glucocorticoid receptor and NF-κB |
talk |
|
Gertz, J. |
Functional dissection of estrogen receptor α bound enhancers at their endogenous loci |
talk |
|
Gilad, Y. |
Mapping variation in gene regulation—From DNA to protein |
talk |
|
Gordan, R.M. |
How do closely related transcription factors target distinct genomic regions? |
talk |
|
Gray, J.M. |
High-throughput functional comparison of promoter and enhancer activities |
poster |
|
Greenleaf, W.J. |
Single-cell chromatin accessibility reveals principles of regulatory variation |
talk |
|
Gruber, A. |
A comprehensive analysis of 3' end sequencing data sets reveals novel polyadenylation signals and the repressive role of HNRNPC on cleavage and polyadenylation |
poster |
|
Hammell, C.M. |
A developmental oscillator and its importance in establishing sequential cell fate transitions in C. elegans |
talk |
|
Harrison, M.M. |
Programming chromatin accessibility for transcription factor binding and gene expression in the early embryo |
poster |
|
Hemberg, M. |
SC3—Consensus clustering of single-cell RNA-Seq data |
poster |
|
Hendrickson, D.G. |
Surveying chromatin accessibility and gene expression dynamics in response to DNA-binding protein activation |
poster |
|
Herzel, L. |
Capturing the kinetics of pre-mRNA splicing in vivo by single molecule RNA-Seq |
talk |
|
Hickey, S.L. |
FOXP2 modifies the chromatin landscape of developing neurons |
poster |
|
Higgins, G.A. |
High-throughput, genomewide detection of pharmacodynamic circuits in human brain using epigenome pathway analysis |
poster |
|
Ho, .E. |
Stress-dependent transcriptome changes serve to reallocate translational capacity during stress acclimation. |
talk |
|
Huang, D. |
Gene regulatory changes in carcinogenesis |
poster |
|
Huang, J. |
Dynamic control of enhancer repertoires drives lineage and stage-specific transcription during hematopoiesis |
poster |
|
Huang, S.C. |
Base-pair resolution atlases of the Arabidopsis cistrome and epicistrome |
talk |
|
Huang, Y. |
A scalable framework for inferring fitness consequences of noncoding mutations in the human genome |
poster |
|
Hughes, K.J. |
Gene fusions in cancer—Determining the oncogenic potential of a fusion event and its regulatory effect on pathway neighbors |
poster |
|
Hughes, T.R. |
RNAcompete-S—Complex RNA sequence/structure models derived from a single-step in vitro selection |
talk |
|
Hwang, T. |
Dynamic regulation of RNA editing in human brain development and disease |
poster |
|
Ibrahim, M. |
Integration and modeling of genome-wide time-course data reveals principles of directed motor neuron programming |
poster |
|
Jaimovich, A. |
A slow activator outcompetes a fast suppressor to robustly delay the transition from quiescence to proliferation |
talk |
|
Ji, H. |
Global prediction of chromatin accessibility using RNA-seq from small number of cells |
poster |
|
Jothi, R. |
Transcription at intragenic enhancers attenuate gene expression |
poster |
|
Kaminski, J.J. |
The epigenetic landscape of T cell exhaustion |
poster |
|
Kaplan, T. |
Finding hierarchical topological domains using a unified probabilistic model of Hi-C data |
talk |
|
Kapoor, A. |
Identification of functional enhancers at SCN5A that modulate QT interval variation |
talk |
|
Karimzadeh, M. |
Transcription factor binding variability in human cell types and association with cooperative motifs |
poster |
|
Katou, Y. |
RNA dependent protein binding revealed by ChIP-seq |
poster |
|
Katz, S. |
Using a network and pathway centric model for the comprehensive and unbiased hit selection from genome-wide genetic screens in human and mouse macrophages to infer comprehensive regulatory landscapes |
poster |
|
Kaya, K.D. |
Ret-SEQ—A retina centric online platform empowering discovery by integration of Next Generation Sequencing resources |
poster |
|
Keenan, J.L. |
A high-throughput approach for designing novel cell-based signal integrators |
poster |
|
Kim, J. |
Phylogenetic and epigenetic footprinting of the putative enhancers of the Peg3 domain |
poster |
|
Knaack, S.A. |
Evolution of modular organization of chromatin states |
poster |
|
Komorowski, J. |
Mutated motifs for CTCF and other transcription factors affect nearby cancer genes |
poster |
|
Kreimer, A. |
The regulatory landscape of early neural differentiation |
poster |
|
Kribelbauer, J.F. |
Structural insight into adaptive DNA binding by a multi-protein Hox complex obtained through SELEX-seq analysis |
talk |
|
Kugler, H. |
Synthesizing a gene regulatory network for sea urchin development |
poster |
|
Kundaje, A.B. |
Integrative, interpretable deep learning frameworks for regulatory genomics and epigenomics |
talk |
|
Kurland, J.V. |
Survey of variation in human transcription factors reveals prevalent DNA binding changes |
talk |
|
Kuzu, G. |
Expansion of GA dinucleotide repeats on the X-chromosome promotes the evolution of Drosophila dosage compensation |
poster |
|
Lahesmaa, R. |
Genome-wide analysis of human Th17 differentiation reveals novel human specific factors and regulatory regions that co-localise with immune disease associated SNPs |
talk |
|
Lazar, J. |
Genomic mechanisms of LSD1 inhibitors |
talk |
|
Lee, R.E.C. |
Cell fate decisions in response to a short pulse of TNF |
talk |
|
Lee, D. |
Sequence-based predictions of cis-regulatory DNA elements active in the human heart |
poster |
|
Lee, S. |
A machine learning technique to learn the biomarker potential identifies novel markers for sensitivity to chemotherapy drugs |
poster |
|
Lee, T.A. |
How protein and promoter differences contribute to the divergence of the yeast transcription factor family members Met31 and Met32 |
poster |
|
Levens, D.L. |
RNA polymerase II stimulates topoisomerase 1 activity to promote efficient transcription |
talk |
|
Li, S. |
Fragile enhancers and stable enhancers together define lineage-specifcity |
poster |
|
Liu, G. |
A wave-like model for gene regulatory networks in Drosophila embryos |
poster |
|
Liu, Y. |
Systematic identification of predictive causal GWAS SNPs within transcription factor binding sites that control chromatin landscape |
poster |
|
Ljungman, M. |
Roles of gene length and H3K79me2 modifications in establishing temporal gene expression |
poster |
|
Lu, Y. |
High-throughput assays reveal miR-155’s context-specific regulation of immune system |
poster |
|
Luca, F. |
High-throughput allele-specific expression across 250 environmental conditions |
talk |
|
Lunt, B.J. |
Deep learning methods predict chromatin accessibility from genome annotation of putative pioneer factor binding sites |
poster |
|
Lyon, G.J. |
A rare genetic "transcriptomopathy" syndrome leading to insights into more common neurologic disorders |
poster |
|
Mahony, S. |
Cooperative transcription factor binding dynamics underlie direct motor neuron programming |
talk |
|
Martini, G. |
Distinct specificities of the androgen and glucocorticoid receptors revealed using feature-based recognition model analysis of SELEX data |
poster |
|
Maurano, M. |
Sequence variation affecting transcription factor occupancy in highly diverged mouse strains |
talk |
|
McIsaac, S. |
Mapping causal regulatory interactions on a global scale through dynamic perturbations in a eukaryotic system |
talk |
|
Mitra, R.D. |
Recording Olig 2 binding during the motor-neuron/glia cell fate decision |
talk |
|
Momen-Roknabadi, A. |
Transcriptional timers regulating mitosis in early Drosophila embryos |
poster |
|
Murray, J.I. |
Decoding animal development at single cell resolution |
poster |
|
Nakaki, R. |
Hetero-DGF—A novel algorithm to decompose heterogeneous binding footprints of transcription factors |
poster |
|
Nakato, R. |
Integrative epigenome profiling reveals tissue-specific gene regulations of human vascular endothelial cells |
poster |
|
Nguyen, K.T. |
Discovery and characterization of an epigenomic signature of late-stage differentiation |
poster |
|
Nikolov, M. |
Functional analysis of Drosophila core promoter architecture using synthetic promoters |
poster |
|
Nord, A.S. |
Basal ganglia development through the lens of transcription factor profiling, enhancer activity, and single-cell transcriptomics |
poster |
|
Oikonomou, P. |
Revealing functional regulatory elements controlling the maternal to zygotic transition during zebrafish development |
poster |
|
Oki, S. |
ChIP-Atlas—Comprehensive and integrative database for visualizing and mining all published ChIP-seq data |
poster |
|
Pai, A.A. |
Widespread shortening of 3' UTRs and increased exon inclusion are evolutionarily conserved features of innate immune response to infection |
talk |
|
Pe'er, D. |
MAGIC |
talk |
|
Penvose, A.R. |
Decoding genomic regulation by the type II nuclear receptors |
poster |
|
Pinello, L. |
CRISPResso—Sequencing analysis toolbox for CRISPR-Cas9 genome editing |
poster |
|
Pique-Regi, R. |
Characterizing condition specific transcription factor binding with ATAC-seq |
poster |
|
Pique-Regi, R. |
Gene expression networks of transcriptional response to 78 cellular environment perturbations |
poster |
|
Pott, S. |
Simultaneous measurement of chromatin accessibility and DNA methylation in single cells |
talk |
|
Prescott, S. |
Cellular anthropology can be used to identify cis-regulatory divergence in the human and chimp neural crest |
talk |
|
Pritykin, Y. |
Computational analysis of mRNA-seq in multiple mutants and genome-wide Ago2 binding profiles provides detailed view of miR-17~92 activity in mouse embryonic development |
poster |
|
Przytycka, T.M. |
AptaTRACE—Elucidating sequence-structure binding motifs by uncovering selection trends in HT-SELEX experiments |
poster |
|
Pujato, M.A. |
Non-coding genetic variants result in allele-dependent binding of transcription factors in autoimmune diseases |
poster |
|
Qu, W. |
Identification of splicing eQTLs in lead-treated Drosophila model |
poster |
|
Rajagopal, N. |
High-throughput mapping of regulatory DNA |
talk |
|
Rastogi, C. |
A versatile framework for learning feature-based protein-DNA recognition models directly from SELEX data |
poster |
|
Reimand, J. |
Network-driven discovery and interpretation of cancer driver mutations |
poster |
|
Riley, T.R. |
The Affinity Data Bank—An online suite of tools for investigation of protein-nucleic acid affinity models and biophysical analysis of regulatory sequences |
poster |
|
Rohs, R. |
Deciphering the role of various mechanisms in transcription factor-DNA binding on a protein family-specific basis |
talk |
|
Roy, S. |
Computational approaches to study dynamics of long-range gene regulation |
poster |
|
Sadeh, R. |
Ubiquitin-mediated degradation of histone H3 promotes nucleosome turnover at gene promoters to regulate gene expression |
poster |
|
Sakurai, K. |
SHOGoiN Database: a database to integrate standardized data and diverse knowledge of cells |
poster |
|
Schmid, A.K. |
An archaeal histone functions as a transcription factor regulating cell shape |
talk |
|
Scholes, C. |
Integration of regulatory information at promoters through combinatorial control of the transcriptional cycle |
talk |
|
Schubeler, D. |
Reading and writing DNA methylation |
talk |
|
Sethi, A. |
Tissue and developmental time stage specific enhancer prediction using pattern recognition |
poster |
|
Setty, M. |
Wishbone identifies bifurcating developmental trajectories from single cell data |
poster |
|
Siebenthall, K. |
The regulatory landscape of endocrine disruptor exposure |
poster |
|
Singh, I. |
Non-coding isoforms of coding genes in B cell development and malignancies |
talk |
|
Starmer, J. |
singleCellQuest!—Easy to use single-cell-RNA-seq software for exploring and visualizing data |
poster |
|
Stubbington, M. |
Exploring T cell fate choices at single-cell resolution |
talk |
|
Sureshchandra, S. |
The impact of pre-gravid obesity on neonatal monocyte gene regulation and expression |
poster |
|
Tang, M. |
Transcriptional networks of M2 macrophages derived from recruited monocytes or tissue resident macrophage lineages |
poster |
|
Thomas, L.D. |
Differentially co-expressed genes are critical regulators in co-expression networks |
poster |
|
Tsutsumi, S. |
A bias-correcting Capture Hi-C analysis revealed the interactions between p53 binding sites and the target genes |
poster |
|
Tyssowski, K.M. |
Transient elevations in neuronal activity induce a subset of the neuronal activity-regulated gene program defined by MAPK/ERK-dependent enhancers |
poster |
|
Udatha, D. |
Systems analysis of the autoimmune response in primary sclerosing cholangitis |
poster |
|
Van Steensel, B. |
Unraveling human promoter regulation by an ultra-high throughput functional assay. |
talk |
|
Vejnar, C.E. |
Uncovering the RNA-protein interaction network that control vertebrate embryogenesis |
talk |
|
Vinson, C.R. |
Double stranding Agilent DNA microarrays with 5mC and 5hmC—Effects on transcription factor binding |
talk |
|
Wang, B. |
Gene similarity network reveals sub-populations of cells in single-cell RNA-seq data |
poster |
|
Wang, D. |
DREISS—Using state-space models to infer the dynamics of gene expression driven by external and internal regulatory networks |
poster |
|
Wang, J. |
De-novo inference of enhancer-gene networks in diverse cellular contexts reveals the long-range regulatory impact of disease-associated variants |
poster |
|
Welch, L.R. |
The coverage-based paradigm for cistrome discovery |
poster |
|
White, M.A. |
A simple regulatory grammar distinguishes activating from repressing cis-regulatory elements in photoreceptors |
poster |
|
Wu, H. |
A computational strategy to adjust for copy number in tumor Hi-C data |
poster |
|
Wu, S. |
New strategies to identify transcription factor regulatory relationships important for organ system development |
talk |
|
Xu, J. |
Random mono-allelic regulation in diploid genome by allelic specific ATAC-seq |
talk |
|
Yaakov, G. |
Coupling phenotypic persistence to DNA damage increases genetic diversity under severe stress conditions |
poster |
|
Yamada, N. |
CX-4945, a potent CK2 inhibitor, mediates alterations in enhancer and heterochromatin landscapes in acute myeloid leukemia |
poster |
|
Yang, R. |
Differential contribution of cis-regulatory elements to higher order chromatin structure and expression of the CFTR locus |
poster |
|
Yu, Y. |
Panoramix/CG9754 enforces piRNA-dependent cotranscriptional silencing |
poster |
|
Yuan, X. |
Identifying novel regulators of early cardiac development in zebrafish using a heterologous enhancer |
poster |
|
Yuan, Y. |
Processing of bulged pri-miRNAs by Arabidopsis Dicer-Like 3 inhibited by phosphate |
poster |
|
Zacharias, A.L. |
Quantitative characterization of the influence of context on developmental enhancer activity and robustness with cellular and temporal resolution |
talk |
|
Zhao, c. |
Dual regulatory switch through serial interactions of Tcf7l2/Tcf4 with stage-specific partners propels oligodendroglial maturation |
poster |
|
Zhu, F. |
Systematic identification of nucleosome-disfavoring sequences |
poster |
|
Zhu, Y. |
Elucidating the enhancer code in 9p21 locus underlying aging-related diseases |
poster |