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ITCR 2016 Annual PI Meeting Presentations

ITCR 2016 Annual Meeting

Notes are available here

Posters are available here

Participant List is available here (ITCR Group Members Only)

Day One

Welcome: Juli Klemm and Aviv Regev

Keynote Corrie Painter: Empowering Patients to Drive Biomedical Research


Genomics Session I Chair: Joshua Stuart

Martin Morgan Cancer Genomics: Integrative and Scalable Solutions in R / Bioconductor

Jingchun Zhu Cloud Based Resource for Data Hosting, Visualization and Analysis Using UCSC Xena

Jill Mesirov Gene Pattern Notebooks for Cancer Research

Trey Ideker NDEx – the Network Data Exchange, a Network Commons for Biologists


Imaging Session I Chair: Rebecca Jacobson

Lee Cooper, David Gutman Advanced Development of an Open Source Platform for Web-Based Integrative Digital Image Analysis in Cancer

Jayashree Kalpathy-Cramer Informatics Tools for Optimized Imaging Biomarkers for Cancer Research & Discovery

Andriy Fedorov Quantitative Image Informatics for Cancer Research (QIICR)

Christos Davatzikos Cancer Imaging Phenomics Software Suite: Application to Brain and Breast Cancer


ITCR Training and Outreach Working Group Lunch Meeting


Lightning Talks for New Groups

Xiao Xinshu Informatic Tools for Single-Nucleotide Analysis of Cancer RNA-Seq

Chakra Chennubhotla Srinivas Informatics Tools for Tumor Heterogeneity in Multiplexed Fluorescence Images

Terry Meehan The PDX Integrator- Re-purposing KOMP2 informatics to Widely Disseminate Data from Patient Derived Xenografts

Daniel Marcus Integrative Imaging Informatics for Cancer Research

Hua Xu Advancing Cancer Pharmacoepidemiology Research Through EHRs and Informatics

Timothy Griffin A Galaxy‐Based Multi‐Omic Informatics Hub for Cancer Researchers


Genomics Session II Chair: Jill Mesirov

Brian Haas Trinity: Transcriptome Assembly for Genetic and Functional Analysis of Cancer

Alexander Krasnitz Computational Framework for Single – Cell Genomics of Tumors

Xiaole Shirley Liu Developing Informatics Technologies to Model Cancer Gene Regulation


Technical Working Group Demonstration Projects Led by Jayashree Kalpathy-Cramer and Tahsin Kurc


Clinical Session Chair: Aviv Regev

Guoqian Jiang caCDE-QA: A Quality Assurance Platform for Cancer Study Common Data Elements

Rebecca Jacobson: Advanced Development of TIES – Enhancing Access to Tissue for Cancer Research

Elmer Bernstam and Funda Meric-Bernstam Informatics to enable routine personalized cancer therapy


Keynote Eli Van Allen: Clinical interpretation of the cancer genome for precision oncology


Poster Session

Day Two

Opportunities for IMAT – ITCR Collaboration Tony Dickherber David Hill


Genomics Session III Chair:Trey Ideker

Rachel Karchin Informatics Tools for High-¬throughput Analysis of Cancer Mutations

Bobbie-Jo Webb-Robertson Interactive Informatics Resource for Research-Driven Cancer Proteomics

Yaoyu Wang Me V: Software for Next Generation Genomic Data Analysis

Jingshan Huang Omni Search – A Semantic Search Tool for Discovering microRNAs Critical Roles in Human Cancer


Imaging Session II Chair: Xiaole Shirley Liu

Gordon Harris Extensible Open-‐Source Zero-¬‐Footprint Web Viewer for Oncologic Imaging Research

Joel Saltz Tools to Analyze Morphology and Spatially Mapped Molecular Data

Kun Huang Informatics Links Between Histological Features and Genetics in Cancer

Anant Madabhushi Pathology Image Informatics Platform for Visualization, Analysis and Management


ITCR Technical Working Group Lunch Meeting


Genomics Session IV Chair: Brian Haas

Benjamin Berman Software Tools for Regulatory Analysis of Large Cancer Methylome Datasets

Maureen Sartor Integrative Epigenomic / Genomic Profiling and Biomarker Discovery in HPV+ and HPV-

John Weinstein and Bradley Broom Next ‐ Generation Clustered Heat Maps for Fluent, Interactive Exploration of Omic Data


Big Data and EMR Session Chair: Rachel Karchin

Joshua Stuart and Kyle Ellrot: ESCE: Discovering Molecular Processes

Hong Yu EMR Adverse Drug Event Detection for Pharmacovigilance

Guergana Savova: Cancer Deep Phenotype Extraction from Electronic Medical Records


Imaging Session III Chair: Robert Majovski

Hugo Aerts Quantitative Radiomics System Decoding the Tumor Phenotype

Lauren O’Donnell Open Source Diffusion MRI Technology for Brain Cancer Research


Discussion of Collaboration and Integration Opportunities: Led by Joel Saltz and Jill Mesirov


Closing Remarks: Juli Klemm and Aviv Regev

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