AGENDA AT A GLANCE
Go directly to: [Tuesday - November 17] [Wednesday - November 18]
*Schedule subject to change.
| SUNDAY – DAY 1 – November 15, 2015 | |||
| START TIME | END TIME | SESSION TYPE | |
| 2:00 pm | 5:00 pm | Registration On site Location: Independence Lobby |
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| 3:15 pm | 3:30 pm | Welcome & Announcements Room: Independence A & B |
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| 3:30 pm | 3:50 pm | Invited Presentation: Project Data Sphere® initiative overview Liz Zhou Room: Independence A & B |
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| PROSTATE CANCER CHALLENGE, Jim Costello, Chair Room: Independence A & B |
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| 3:50 pm | 4:10 pm | Introduction to the DREAM Prostate Cancer Challenge - Jim Costello | |
| 4:10 pm | 4:20 pm | Presentation of Certificates | |
| 4:20 pm | 4:40 pm | Best Performer SC1 Predicting patient survival in the DREAM 9.5 mCRPC challenge - Teemu D. Laajala, Suleiman Khan, Antti Airola, Tuomas Mirtti, Tapio Pahikkala, Peddinti Gopalacharyulu, Tero Aittokallio |
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| 4:40 pm | 5:00 pm- | Best Performer SC2 Docetaxel adverse event prediction: a boosting method application Fatemeh Seyednasrollah, Mehrad Mahmoudian, Outi Hirvonen, Sirkku Jyrkkiö, and Laura L. Elo |
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| 5:00 pm | 5:20 pm | Best Performer SC3 Predicting discontinuation due to adverse effect in mCRPC - Yuanfang Guan |
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| 5:20 pm | 5:30 pm | NCI contracts for Best performers: Dan Gallahan |
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| 5:30 pm | 6:00 pm | Preparation for the Hackathon | |
| 6:00 pm | 9:00 pm | DREAM Hackathon For pre-registration go to https://www.synapse.org/dreamhackathon Room: Independence C & D |
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| 9:00 pm | Adjourn | ||
| MONDAY – DAY 2 – November 16, 2015 | |||
| START TIME | END TIME | SESSION TYPE | |
| 8:00 am | 6:00 pm | Registration On site Location: Independence Lobby |
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| 8:45 am | 9:00 am | Morning Welcome & Announcements Room: Independence A & B |
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| 9:00 am | 9:45 am | Keynote: Leslie Vosshall The Known and Unknown of Human Smell Room: Independence A & B |
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| OLFACTION CHALLENGE, Pablo Meyer, Chair Room: Independence A & B |
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| 9:45 am | 10:05 am | Introduction to the DREAM Olfaction Challenge - Andreas Keller |
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| 10:05 am | 10:15 am | Presentation of Certificates | |
| 10:15 am | 10:35 am | Best Performer SC1: Guanlab Predicting olfaction response for each individual - Yuanfang Guan |
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| 10:35 am | 10:55 am | Best Performer SC2: IKW Allstars From Shape to Smell: Predicting Olfactory Perceptual Descriptors using Molecular Structural Information - Richard C. Gerkin |
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| 10:55 am | 11:15 am | DREAM Olfaction Prediction Challenge Lessons Learned - Amit Dhurandhar | |
| 11:15 am | 11:45 am | Coffee Break with Posters Room: Liberty AB |
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| ALS STRATIFICATION CHALLENGE, Robert Kueffner, Chair Room: Independence A & B |
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| 11:45 am | 12:05 pm | Using the Power of Crowdsourcing to Catalyze Breakthroughs in Amyotrophic Lateral Sclerosis - Neta Zach |
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| 12:05 pm | 12:15 pm | Presentation of Certificates | |
| 12:15 pm | 12:35 pm | Best Performer SC1: A Boosting Approach to Predicting ALSFRS Slope for the PRO-ACT Database, Wen-Chieh Fang |
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| 12:35 pm | 12:55 pm | Best Performer SC2 & SC4 Predicting ALS survival through complete ranking of censored data, Yuanfang Guan |
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| 12:55 pm | 1:15 pm | Best Performer SC3: Using aggregated weights along paths across random forest to select important features and predict ALS progression, Jinfeng Xiao | |
| 1:15 pm | 2:15 pm | Lunch with Posters | |
| 2:15 pm | 3:00 pm | Keynote: Steve Quake Single Cell Genomics |
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| 3:00 pm | 3:05 pm | NCI Cancer Systems Biology Consortium - Dan Gallahan | |
| DREAM SMC CHALLENGE, Paul Boutros, Chair Room: Independence A & B |
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| 3:05 pm | 3:25 pm | The ICGC-TCGA DREAM Somatic Mutation Calling Challenge: benchmarking somatic variant detection - Josh Stuart | |
| 3:25 pm | 3:30 pm | Presentation of Certificates | |
| 3:30 pm | 3:50 pm | Best Performer SV: novoBreak: a k-mer targeted assembly algorithm for breakpoint detection in cancer genomes - Zechen Chong |
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| 3:50 pm | 4:10 pm | Best Performer SC3: Strategies for SNV and Indel Detection in the DREAM Challenges Team WashU, R. Jay Mashl |
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| 4:10 pm | 4:30 pm | Lessons from the SMC-DNA IS Challenges & Looking Forward - Paul Boutros |
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| 4:30 pm | 5:00 pm | Coffee Break with Posters Room: Liberty AB |
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| DRUG COMBINATION CHALLENGE, Julio Saez-Rodriguez, Chair Room: Independence A & B |
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| 5:00 pm | 5:20 pm | Crowdsourcing combinatorial therapies: The AZ-Sanger DREAM synergy prediction challenge - Michael Menden |
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| 5:20 pm | 5:40 pm | Preventing data-leakage in leaderboard evaluations: the Ladder and LadderBoot algorithms - Elias Chaibub Neto |
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| 5:40 pm | 5:50 pm | The DREAM Challenges channel: open science publishing for all participating DREAMers - Michael Markie | |
| 5:50 pm | 6:00 pm | DREAM Brainstorm | |
| 6:00 pm | 7:30 pm | DREAM Posters on Display Room: Liberty AB |
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| 7:35pm | DREAM Poster presenters: Please remove posters. |
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| 6:30 pm | 9:30 pm | DREAM Hackathon Room: Independence C & D |
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| 9:30 pm | Adjourn | ||
| TUESDAY – DAY 3 – November 17, 2015 | |||
| START TIME | END TIME | SESSION TYPE | |
| 8:00 am | 6:00 pm | Registration On site Location: Independence Lobby |
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| 8:45 am | 9:00 am | Morning Welcome & Announcements Room: Independence A & B |
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| 9:00 am | 9:45 am | Keynote: Bonnie Berger Scaling with Compressive Algorithms Room: Independence A & B |
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| Room: Independence C & D |
Room: Independence A & B |
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| 9:50 am | 10:05 am | SB Oral Talk 01 MiSL: a method for mining synthetic lethal partners of recurrent cancer mutations uncovers novel mutation-specific therapeutic targets Subarna Sinha |
RG Oral Talk 01 Transcription factor binding site prediction in vivo using DNA sequence and shape features Anthony Mathelier |
| 10:05 am | 10:20 am | SB Oral Talk 02 The germline genetic component of drug sensitivity in cancer cell lines Michael Menden |
RG Oral Talk 02 A PBM-based glossary for motif discovery in regulatory regions Luca Mariani |
| 10:20 am | 10:45 am | Coffee Break with Posters Room: Liberty AB |
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| Room: Independence C & D |
Room: Independence A & B |
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| 10:45 am | 11:00 am | SB Oral Talk 03 Estimating the Number and Diversity of Cancer Mutations In the Overall Population from 5,319 Complete Cancer Genomes Prathik Naidu |
RG Oral Talk 03 Distinct specificities of the androgen and glucocorticoid receptors revealed using feature-based recognition model analysis of SELEX data Harmen J. Bussemaker |
| 11:00 am | 11:15 am | SB Oral Talk 04 From phenotypic to molecular synergy: A transcriptional study of the dynamics of drug combinations based on single drug responses Mehmet Eren Ahsen |
RG Oral Talk 04 How do closely related transcription factors recognize distinct genomic targets? Raluca Gordan |
| 11:15 am | 11:30 am | SB Oral Talk 05 |
RG Oral Talk 05 Quantitative modeling of gene expression from sequence, using DNA shape-based model of binding sites Pei-Chen Peng |
| 11:30 am | 12:45 pm | Lunch with Posters (odd) Room: Liberty AB |
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| 12:45 pm | 1:30 pm | Keynote: Tuuli Lappalainen Functional Variation in the Human Genome: Lessons from the Transcriptome Room: Independence A & B |
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| Room: Independence C & D |
Room: Independence A & B |
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| 1:35 pm | 1:50 pm | SB Oral Talk 06 Large-scale models of signal propagation derived from phosphoproteomic data to study kinase inhibitors Julio Saez-Rodriguez |
RG Oral Talk 06 Tracking the Evolution of 3D Gene Organization Alon Diament |
| 1:50 pm | 2:05 pm | SB Oral Talk 07 Global chromatin defects and spurious transcription defines a novel subset of human cancers Kakajan Komurov |
RG Oral Talk 07 Three-dimensional analysis of regulatory features reveals functional enhancer-associated loops Yao Wang |
| 2:05 pm | 2:20 pm | SB Oral Talk 08 Network Maximal Correlation to Infer Nonlinear Gene Modules in Cancer Soheil Feizi |
RG Oral Talk 08 An integrated model for detecting significant chromatin interactions from high-resolution Hi-C data Mark Carty |
| 2:20 pm | 2:35 pm | SB Oral Talk 09 Integrating single cell transcriptional signatures and cell-cell interaction network models to study multiscale control of liver regeneration dynamics Raj Vadigepalli |
RG Oral Talk 09 Visualizing three-dimensional organization and long-range interactions of the mammalian genome with the 3D Genome Browser Yanli Wang |
| 2:35 pm | 3:00 pm | Coffee Break with Posters Room: Liberty AB |
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| 3:00 pm | 3:45 pm | Keynote: James (Jay) Bradner Targeting Cancer Core Regulatory Circuitry Room: Independence A & B |
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| Room: Independence C & D |
Room: Independence A & B |
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| 3:50 pm | 4:05 pm | SB Oral Talk 10 Understanding Breast Cancer Heterogeneity through Personalized Drosophila Models Jennifer EL Diaz |
RG Oral Talk 10 Modeling methyl-sensitive transcription factor motifs with an expanded epigenetic alphabet Coby Viner |
| 4:05 pm | 4:20 pm | SB Oral Talk 11 A linear time-invariant model of phenotype dynamics in breast cancer cell populations Margaret P. Chapman |
RG Oral Talk 11 Genome-wide mapping of histone marks at single-nucleosome resolution Marcelo Rivas-Astroza |
| 4:20 pm | 4:35 pm | SB Oral Talk 12 Precision drug rescue and drug repurposing using structural systems pharmacology Lei Xie |
RG Oral Talk 12 Creating a library of genome-wide chromatin state patterns during B lymphopoiesis Mark Maienschein-Cline |
| 4:35 pm | 4:50 pm | SB Oral Talk 13 Bringing big genomic data into focus for studying complex diseases in specific biological contexts Arjun Krishnan |
RG Oral Talk 13 AEF: A methodology based on Assortativity of Epigenetic Features in promoter centered chromatin interaction networks identifies Polycomb and RNA Polymerase as main players Vera Pancaldi |
| 4:50 pm | 5:35 pm | Keynote: William Stafford Noble Gene Regulation in 3D Room: Independence A & B |
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| 5:35 pm | 7:00 pm | Poster Reception - SB and RG Room: Liberty AB |
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| WEDNESDAY – DAY 4 – November 18, 2015 | |||
| START TIME | END TIME | SESSION TYPE | |
| 8:00 am | 11:00 am | Registration On site Location: Independence Lobby |
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| 8:45 am | 9:00 am | Morning Welcome & Announcements Room: Independence A & B |
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| 9:00 am | 9:45 am | Keynote: Michael Shen Systems Analyses of Prostate Development and Cancer Room: Independence A & B |
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| Room: Independence C & D |
Room: Independence A & B |
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| 9:50 am | 10:05 am | SB Oral Talk 14 Integrating transcriptomic and proteomic data with predictive regulatory network models of host response to pathogens Deborah Chasman |
RG Oral Talk 14 Nucleotide Sequence Composition Adjacent to Intronic Splice Sites Improves Splicing Efficiency and Reduces Translation Costs in Fungi Tamir Tuller |
| 10:05 am | 10:20 am | SB Oral Talk 15 Microbes are STICKY – Large-scale Inference and Topological Analysis of Microbial Interaction Networks Christian L. Müller |
RG Oral Talk 15 Lobular Scale Spatio-temporal Modeling of Calcium Signal Propagation in the Liver Aalap Verma |
| 10:20 am | 10:35 am | SB Oral Talk 16 Multi-omics learning and optimal experimental design for microbial organisms Minseung Kim |
RG Oral Talk 16 Dysregulated transcription factor networks and clusters in breast cancer subtypes, identified by coexpression and cistromic data integration Qian Zhu |
| 10:35 am | 11:00 am | Coffee Break with Posters Room: Liberty AB |
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| 11:00 am | 11:45 am | Keynote: Julia Zeitlinger Combinatorial Regulation of Enhancers during Drosophila Development Room: Independence A & B |
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| Room: Independence C & D |
Room: Independence A & B |
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| 11:50 am | 12:05 pm | RG Oral Talk 17 Transcription and differential DNA repair underlies promoter mutation hotspots in cancer genomes Dilmi Perera |
RG Oral Talk 18 The regulation of distal enhancers and silencers from the Cebpa locus during hematopoiesis, inferred using a transcriptional model Manu |
| 12:05 pm | 12:20 pm | RG Oral Talk 19 Comparison of Methods to Predict Impact of Regulatory Variants Michael Beer |
RG Oral Talk 20 Super-enhancers delineate disease-associated regulatory nodes in T cells Golnaz Vahedi |
| 12:20 pm | 12:35 pm | RG Oral Talk 21 Evaluating Genetic Variation Impact on Transcription Factor Binding Sites Wenqiang Shi |
RG Oral Talk 22 Identifying condition specific transcription factor binding with ATAC-seq Roger Pique-Regi |
| 12:35 pm | 1:30 pm | Lunch with Posters (even) Room: Liberty AB |
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| 1:30 pm | 2:15 pm | Keynote: Andre Levchenko How Noisy is Noise? Analysis and Interpretation of Variability in Signaling Networks Room: Independence A & B |
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| Room: Independence C & D |
Room: Independence A & B |
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| 2:20 pm | 2:35 pm | SB Oral Talk 17 tRNA-derived fragments in Drosophila and their potential targets Andrey Grigoriev |
RG Oral Talk 23 An Experimentally Supported Model of the Bacillus subtilis Global Transcriptional Regulatory Network Mario L. Arrieta |
| 2:35 pm | 2:50 pm | SB Oral Talk 18 High-throughput allele-specific expression across 250 environmental conditions Gregory Moyerbrailean |
RG Oral Talk 24 Transcriptional regulatory network inference for rare immune cell populations from gene expression and chromatin accessibility measurements Emily Miraldi |
| 2:50 pm | 3:05 pm | SB Oral Talk 19 DREISS: dynamics of gene expression driven by external and internal regulatory networks based on state space model Daifeng Wang |
RG Oral Talk 25 Network model of normal gene expression predicts gene perturbation fold changes Sudhir Varma |
| 3:05 pm | 3:20 pm | SB Oral Talk 20 SplashRNA: accurate prediction of potent shRNAs with a sequential classification strategy Lauren Fairchild |
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| 3:20 pm | 4:05 pm | Keynote: Olga Troyanskaya From Piles of Data to Understanding Human Disease Room: Independence A & B |
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| 4:05 pm | 4:20 pm | Conference Closing Comments Room: Independence A & B |
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