== ''' ITCR 2016 Annual Meeting Presentations:''' ==
 
Notes taken during the meeting are available [https://nciphub.org/resources/993 here] 


== '''Day One''' ==


'''Welcome:'''  Juli Klemm and Aviv Regev

'''[https://nciphub.org/projects/2015itcrpimeeting/files/download?subdir=ITCR%20Meeting%202016&asset=Painter-ITCR-2016.pdf Keynote] Corrie Painter: Empowering Patients to Drive Biomedical Research 


'''__Genomics Session I__''' Chair: Joshua Stuart

	[https://nciphub.org/projects/2015itcrpimeeting/files/download?subdir=ITCR%20Meeting%202016/Genomic%20I-1&asset=2016-13-06-Bioconductor-Morgan.pdf 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

	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 and Lee Cooper: 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 I__''' 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: 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 and David Hill

	

'''__Genomics Session III__''' Chair: Trey Ideker

Rachel Karchin and Mike Ryan: 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: 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