ITCR Virtual Annual Meeting 2021

September 21 – 23, 2021
1:00pm – 4:00pm ET Daily
Meeting Agenda    Twitter #NCIITCR21
Day 1 - Tuesday, September 21
Welcome and Meeting Overview: Dr. Juli Klemm, NCI Center for Strategic Scientific Initiatives
Opening Keynote: “Cancer Informatics is the Heart of the Hospital” Slides
Trevor Pugh, University of Toronto
Panel: Tools for understanding mechanisms of cancer initiation and progression
Inference of tumor growth dynamics using genomic data Slides
Subhajyoti De, Rutgers Cancer Institute of New Jersey
Technology for efficient simulation of cancer cell transport Slides
Amanda Randles, Duke University
Comprehensive and robust tools for analysis of tumor heterogeneity and evolution Slides
Ben Raphael, Princeton University
Moderator: Kristen Naegle, University of Virginia
Poster Session 1
Beibin Li
A Unified Machine Learning Package for Cancer Diagnosis
Fusheng Wang
Computational pathology software for integrative cancer research with 3D digital slides
Kooresh Shoghi
Development of an Open-Source Preclinical Imaging Informatics Platform
Spyros Bakas & Sarthak Pati
The Federated Tumor Segmentation (FeTS) platform
Liangqiong Qu & Praveer Singh
Tackling Data Heterogeneity for Distributed Learning in Cancer Research
Jonathan Bona
TCIA Sustainment and Scalability - Platforms for Quantitative Imaging Informatics
Poster Session 2
Brian Haas
Trinity: Transcriptome assembly for genetic and functional analysis of cancer
Marcel Ramos
SingleCellMultiModal: Integrated Multi-modal Single Cell Landmark Datasets
Yi Qiao
SuperSeeker + Oncogene.iobio: a complete analysis software and interactive web app suite to examine cancer somatic mutations and subclonal evolution for precision oncology
Milovan Suvakov
CNVpytor: application to somatic CNA detection
Derrick DeConti
WebMeV: A Robust Platform for Intuitive Genomic Data Analysis
Allen Lynch
Developing Informatics Technologies to Model Cancer Gene Regulation
Poster Session 3
Dexter Pratt
NDEx - the Network Data Exchange A Network Commons for Biologists
Brigitte Raumann
Building protected data sharing networks to advance cancer risk assessment and treatment
Jeremy Goecks
A Federated Galaxy for user-friendly large-scale cancer genomics research
James Eddy
Advancing method benchmarking and data sharing through crowd-sourced competitions
Evan Bolyen
Reproducible and accessible cancer microbiome bioinformatics with QIIME 2
Michael Reich
GenePattern and GenePattern Notebook: Integrative Omic Analysis for Cancer Research


Day 2 - Wednesday, September 22

Panel: Tools for cancer early detection and diagnosis
PRISTINE: Pre-cancer histology identification of endobronchial biopsies using deep learning Slides
Jennifer Beane, Boston University Medical Campus
Informatics Tools for Quantitative Digital Pathology Profiling and Integrated Prognostic Modeling Slides
Lee Cooper, Northwestern University
Scalable clinical decision support for individualized cancer risk management Slides
Guilherme Del Fiol, University of Utah
Patient Advocate: Brittany McKelvey
Moderator: Malachi Griffith, Washington University in St. Louis
Panel: Tools to support cancer treatment decisions
A computational method to calculate the radiation dose to circulating lymphocytes Slides
Clemens Grassberger, Massachusetts General Hospital
RadxTools for assessing tumor treatment response in imaging Slides
Pallavi Tiwari, Case Western Reserve University
Standardized and genome-wide clinical interpretation of complex genotypes for cancer precision medicine Slides
Obi Griffith, Washington University in St. Louis
Patient Advocate: Chuck Schmaderer
Moderator: Jeremy Warner, Vanderbilt University
Poster Session 4
Malachi Griffith
Informatics tools for identification, prioritization, and clinical application of neoantigens
Melissa Cline
Eliminating variants of uncertain significance in BRCA1, BRCA2 and beyond
Team DeepPhe
Cancer Deep Phenotype Extraction from Electronic Medical Records
Xuanyi (Lexi) Li
Network Analysis for a Data-Driven Approach to Cancer Care
Hua Xu
Advancing Cancer Pharmacoepidemiology Research Through EHRs and Informatics
David Hanauer
Advanced Development and Dissemination of EMERSE for Cancer Phenotyping from Medical Records
Poster Session 5
Rob Frost
Cancer-specific gene set testing
Jun Li
TCPA: An Integrated Bioinformatics Resource for Functional Cancer Proteomic Data
Jim Robinson
The Integrative Genomics Viewer (IGV): visualization supporting cancer research
Pablo Tamayo
Supporting and evolving Gene Set Enrichment Analysis and the Molecular Signatures Database for cancer research
Ian Holmes
Developing the JBrowse Genome Browser to Visualize Structural Variants and Cancer Genomics Data
Ino de Brujin
cBioPortal for Cancer Genomics
Poster Session 6
Leili Shahriyari
Software for personalized childhood osteosarcoma chemotherapy based on a Data driven mathematical model
Wenyuan Li
Informatics resources for liquid biopsy research
Joseph Perl
The TOPAS Tool for Particle Simulation, a Monte Carlo Simulation Tool for Physics, Biology and Clinical Research
Paul Fitzgerald
XCIST project
Janelle Montagne and Atul Deshpande
Single-cell and imaging data integration software to spatially resolve the tumor microenvironment
Phil Montgomery
The Cancer Dependency Map portal (
Day 3 - Thursday, September 23
NCI Leadership Welcome: Dinah Singer, Deputy Director, NCI; Acting Director, NCI CSSI
Presentations from new ITCR Awardees:
The Cancer Epitope Database and Analysis Resource Slides
Bjoern Peters, La Jolla Institute for Immunology
Sustaining the Integrative Imaging Informatics for Cancer Research (I3CR) Center Slides
Daniel Marcus, Washington University at St. Louis
Integrative genomic and epigenomic analysis of cancer using long read sequencing Slides
Michael Schatz, Johns Hopkins University
Extraction of symptom burden from clinical narratives of cancer patients using natural language processing Slides
Meliha Yetisgen, University of Washington
Optimizing the population representativeness of older adults in cancer trials Slides
Jian Bian, University of Florida
Enhance UCSC Xena: Extend interactive visualization to ultra-large-scale multi-omics data and integrate with analysis resources Slides
Jingchun Zhu, University of California Santa Cruz
PROTEAN-CR: Proteomics Toolkit for Ensemble Analysis in Cancer Research Slides Video
Lydia Kavraki, Rice University
NCI Program Breakout Sessions
The NCI Cancer Research Data Commons Slides
Tanja Davidsen and Allen Dearry
NCI Center for Biomedical Informatics and Information Technology
Human Tumor Atlas Network Slides
Sean Hanlon, NCI Center for Strategic Scientific Initiatives
Jerry Li, NCI Division of Cancer Biology
The NCI Childhood Cancer Data Initiative Slides
Tony Kerlavage and Subhashini Jagu
NCI Center for Biomedical Informatics and Information Technology
The Small Business Innovation Research (SBIR) Program Slides
Ming Zhao, NCI SBIR Program
Closing Keynote: “Real World Data and Precision Oncology” Slides
Tina Hernandez-Boussard, Stanford University
Created by Abha Arora Last Modified Thu December 2, 2021 3:27 pm by Abha Arora