Funded Projects

Displaying 1 - 121 of 121

Award Type	Award Year	PI Name(s)	Institution(s)	Project	Status
U01	2021	MICHAEL SCHATZ	JOHNS HOPKINS UNIVERSITY	Integrative genomic and epigenomic analysis of cancer using long read sequencing	Active
U01	2021	LYDIA E KAVRAKI GREGORY A LIZEE	RICE UNIVERSITY	PROTEAN-CR: Proteomics Toolkit for Ensemble Analysis in Cancer Research	Active
R21	2021	MELIHA YETISGEN	UNIVERSITY OF WASHINGTON	Extraction of Symptom Burden from Clinical Narratives of Cancer Patients using Natural Language Processing	Active
R21	2021	JIANG BIAN YI GUO	UNIVERSITY OF FLORIDA	Optimizing the Population Representativeness of Older Adults in Cancer Trials	Active
U24	2021	ALESSANDRO SETTE BJOERN PETERS	LA JOLLA INSTITUTE FOR IMMUNOLOGY	THE CANCER EPITOPE DATABASE AND ANALYSIS RESOURCE	Active
U24	2021	DANIEL SCOTT MARCUS	WASHINGTON UNIVERSITY	Sustaining the Integrative Imaging Informatics for Cancer Research (I3CR) Center	Active
R21	2020	Clemens Grassberger	Massachusetts General Hospital	A Computational Method to Calculate the Radiation Dose to Circulating Lymphocytes	Active
U01	2020	Elana Judith Fertig	Johns Hopkins University	Single-cell and imaging data integration software to spatially resolve the tumor microenvironment	Active
U24	2020	Jesse Samuel Bohem Aviad Tsherniak	Broad Institute, INC.	Advanced development of the Cancer Dependency Map portal (DepMap.org)	Active
U01	2020	KEN CHEN	UNIVERSITY OF TX MD ANDERSON CAN CTR	Informatics for Functional Integration of Heterogeneous Cancer Genome and Transcriptome Sequencing Data	Active
U24	2020	Helen Elizabeth Parkinson Terrence Meehan	European Molecular Biology Laboratory	Patient Derived Cancer Model (PDCM) Finder	Active
U01	2020	Amanda E Randles	Duke University	Technology for efficient simulation of cancer cell transport	Active
R21	2020	Jennifer Ellen Beane Vijaya B Kolachalama	Boston University Medical Campus	PRISTINE: Pre-cancer histology identification of Endobronchial biopsies using deep learning	Active
R21	2020	Hildreth Robert Frost	Dartmouth College	Cancer-specific gene set testing	Active
R01	2020	Chun-Wei Chen	Beckman Research Institute/City of Hope	Integrative Analyses of Saturation CRISPR Protein Scan	Active
U24	2020	Kooresh Isaac Shoghi Daniel Scott Marcus	Washington University	Development of an Open-Source Preclinical Imaging Informatics Platform for Cancer Research	Active
UE5	2020	Jeffery T Leek Jeremy Goecks Karriem Sadot Watson Sarah J Wheelan	Johns Hopkins University Oregon Health & Science University	Scalable multi-mode education to increase use of ITCR tools by diverse analysts	Active
U24	2020	Greg Caporaso	Northern Arizona University	Advancing Our Understanding of Cancer and the Human Microbiome with QIIME 2	Active
U24	2020	Benjamin Raphael	Princeton University	Comprehensive and Robust Tools for Analysis of Tumor Heterogeneity and Evolution	Active
U01	2020	Satish Viswanath Pallavi Tiwari	Case Western Reserve University	RadxTools for Assessing Tumor Treatment Response on Imaging	Active
U24	2020	Guergana K Savova Harry S Hochheiser Jeremy Lyle Warner	Boston Children's Hospital University of Pittsburgh at Pittsburgh Vanderbilt University Medical Center	Cancer Deep Phenotype Extraction from Electronic Medical Records	Active
U24	2020	Justin Guinney Paul Christopher Boutros	Sage Bionetworks University of California Los Angeles	Advancing Method Benchmarking and Data Sharing Through Crowd-Sourced Competitions in Cancer Research	Active
R21	2020	Subhajyoti De	Rutgers Cancer Institute of New Jersey	Inference of Tumor Growth Dynamics Using Genomic Data	Active
U24	2020	Jill Mesirov Pablo Tamayo	University of California, San Diego	GenePattern and GenePattern Notebook: Integrative 'Omic Analysis for Cancer Research	Active
U01	2020	Malachi Griffith	Washington University in St. Louis	Informatics Tools for Identification, Prioritization, and Clinical Application of Neoantigens	Active
R21	2019	Jin Chen Guo-Qiang Zhang Baowei Fei	University of Kentucky The University Texas at Dallas	STAN-CT: Standardization and Normalization of CT images for Lung Cancer Patients	Active
R21	2019	Eliezer Van Allen	Dana-Farber Cancer Institute	A Statistical Framework to Systematically Characterize Cancer Driver Mutations in Noncoding Genomic Regions	Active
R21	2019	Tianxi Cai	Harvard University	Semi-supervised Algorithms for Risk Assessment with Noisy EHR Data	Active
R21	2019	Suvra Pal Leili Shahriyari Souvik Roy	University of Texas Arlington University of Massachusetts Amherst	Data-Driven QSP Software for Personalized Colon Cancer Treatment	Active
U01	2019	Jun Kong Fusheng Wang	Emory University Stony Brook University	Computational Pathology Software for Integrative Cancer Research with Three-Dimensional Digital Slides	Active
U01	2019	Spyridon Bakas	University of Pennsylvania	The Federated Tumor Segmentation (FeTS) Platform: An Intuitive Tool Facilitating Secure Multi-Institutional Collaboration	Active
U24	2019	John Quackenbush	Harvard School of Public Health	WebMeV: A Robust Platform for Intuitive Genomic Data Analysis	Active
U01	2019	Melissa Cline	University of California, Santa Cruz	Eliminating Variants of Uncertain Significance in BRCA1, BRCA2 and Beyond	Active
U01	2019	Daniel Rubin Jayashree Kalpathy-Cramer	Stanford University Massachusetts General Hospital	Distributed Learning of Deep Learning Models for Cancer Research	Active
R21	2019	Joshua Campbell	Boston University Medical Campus	Enhanced Deconvolution and Prediction of Mutational Signatures	Active
R21	2019	Paul Marjoram	University of Southern California	Conservation and Functional-Characterization of Tumor Methylation Sites	Active
U01	2019	Wenyuan Li	University of California Los Angeles	Informatics Resources for Liquid Biopsy Research	Active
R21	2019	Emilie Roncali	University of California at Davis	Personalized Dosimetry for Liver Cancer Radioembolization Using Fluid Dynamics Simulation	Active
U24	2019	Clifford Meyer	Dana-Farber Cancer Institute	Developing Informatics Technologies to Model Cancer Gene Regulation	Active
U01	2019	Andrew Janowczyk Anant Madabhushi	Case Western Reserve University	HistoTools: A Suite of Digital Pathology Tools for Quality Control, Annotation and Dataset Identification	Active
R21	2019	Fuyong Xing Toby Cornish	University of Colorado Denver	Development and Dissemination of KiNet: A Novel Imaging Informatics Tool for Gastrointestinal and Pancreatic Neuroendocrine Tumors	Active
U24	2019	Obi Griffith	Washington University	Standardized and Genome-Wide Clinical Interpretation of Complex Genotypes for Cancer Precision Medicine	Active
U01	2019	Bruno De Man	General Electric Global Research Center	Open-Access X-Ray and CT Simulation Toolkit for Research in Cancer Imaging and Dosimetry	Active
U24	2018	Jill Mesirov	University of California, San Diego	Supporting and Evolving Gene Set Enrichment Analysis and the Molecular Signatures Database for Cancer Research	Active
R21	2018	Kristen Naegle	University of Virginia	Inferring Kinase Activity Profiles from Phosphoproteomic Data	Active
R21	2018	Li-Xuan Qin	Sloan Kettering Institute for Cancer Research	Statistical Evaluation and Selection of Normalization Methods for microRNA Sequencing Data in Cancer Biomarker Studies	Active
U01	2018	Jeremy Warner	Vanderbilt University Medical Center	Network Analysis for a Data-Driven Approach to Cancer Care	Active
U24	2018	Jeremy Goecks James Taylor	Oregon Health and Science University Johns Hopkins University	A Federated Galaxy for user-friendly large-scale cancer genomics research	Active
R21	2018	Anjishnu Banerjee	Medical College of Wisconsin	Bayesian learning algorithms for identifying and classifying heterogeneity of cell types in variety of solid tumors	Active
U01	2018	Linda Shapiro Joann Elmore	University of Washington	A Unified Machine Learning Package for Cancer Diagnosis	Active
U24	2018	Alexej Abyzov	Mayo Clinic Rochester	Detection of somatic, subclonal and mosaic CNVs from sequencing	Active
U24	2018	Bruce Faddegon	University of California, San Francisco	The TOPAS Tool for Particle Simulation, a Monte Carlo Simulation Tool for Physics, Biology and Clinical Research	Active
U01	2018	Lee Cooper Christopher Flowers Metin Gurcan	Emory University Ohio State University	Informatics Tools for Quantitative Digital Pathology Profiling and Integrated Prognostic Modeling	Active
R21	2018	Min Jin Ha Veerabhadran Baladandayuthapani	University of Texas MD Anderson Cancer Center University of Michigan	Proteomic-based integrated subject-specific networks in cancer	Active
R21	2018	Guo-Qiang Zhang Licong Cui	University of Kentucky Research Foundation University of Kentucky Research Foundation	An Ontology-driven Faceted Query Engine for the Kentucky Cancer Registry	Active
U24	2017	Nikolaus Schultz Ethan Cerami Chris Sander	Sloan Kettering Institute for Cancer Research	The cBioPortal for Cancer Genomics	Active
Contract	2017	Trinity Urban Gordon Harris	Precision Imaging Metrics Harvard Medical School	Cloud-Hosted Clinical Trial Imaging Assessment and Workflow Management System	Active
U24	2017	David Hanauer	University of Michigan	Advanced Development and Dissemination of EMERSE for Cancer Phenotyping from Medical Records	Active
U24	2017	Fred Prior Joel Saltz Ashish Sharma	University of Arkansas Stony Brook University Emory University	TCIA Sustainment and Scalability - Platforms for Quantitative Imaging Informatics in Precision Medicine	Active
R01	2017	Jie Liang Yan-Yuan Tseng	University of Illinois at Chicago Wayne State University	Database and Tools for Functional Inference and Mechanistic Insight into Somatic Cancer Mutations	Active
U24	2017	Ian Holmes Lincoln Stein	University of California, Berkeley Ontario Institute for Cancer Research	Developing the JBrowse Genome Browser to Visualize Structural Variants and Cancer Genomics Data	Active
U24	2017	Guilherme Del Fiol Kensaku Kawamoto	University of Utah	Scalable Clinical Decision Support for Individualized Cancer Risk Management	Active
U24	2017	Ian Foster	University of Chicago	Building Protected Data Sharing Networks to Advance Cancer Risk Assessment and Treatment	Active
U24	2016	Hua Xu Jeremy Warner Ping Yang	University of Texas Health Sci. Center, Houston Vanderbilt University Mayo Clinic - Jacksonville, Florida	Advancing Cancer Pharmacoepidemiology Research Through EHRs and Informatics	Active
U01	2016	Obi Griffith	Washington University in St. Louis	Development of Informatics Resources for Interpretation of Clinically Actionable Variants in Cancer	Active
U24	2016	Jill Mesirov	University of California, San Diego	The Integrative Genomics Viewer (IGV): Visualization Supporting Cancer Research	Active
U24	2016	Gabor Marth Aaron Quinlan	University of Utah	Monitoring Tumor Subclonal Heterogeneity Over Time and Space	Active
U24	2016	Han Liang Gordon Mills	University of Texas MD Anderson Cancer Center	The Cancer Proteome Atlas, TCPA: An Integrated Bioinformatics Resource for Functional Cancer Proteomic Data	Active
U24	2016	Helen Parkinson	European Molecular Biology Laboratory	The PDX Integrator - Re-Purposing KOMP2 Informatics to Widely Disseminate Data from Patient Derived Xenografts	Active
U24	2015	Gordon Harris	Harvard Medical School	Extensible Open-Source Zero-Footprint Web Viewer for Oncologic Imaging Research	Active
U24	2014	Joel Saltz	Stony Brook University	Tools to Analyze Morphology and Spatially Mapped Molecular Data	Active
U24	2014	Martin Morgan	Roswell Park Cancer Institute	Cancer Genomics: Integrative and Scalable Solutions in R / Bioconductor	Active
U24	2014	Guergana Savova	Boston Children's Hospital University of Pittsburgh	Cancer Deep Phenotyping Extraction from Electronic Medical Records	Active
U24	2014	Trey Ideker	University of California, San Diego	NDEx - the Network Data Exchange, A Network Commons for Biologists	Active
U24	2013	David Haussler	University of California, Santa Cruz	Cloud Based Resource for Data Hosting, Visualization and Analysis Using UCSC Cancer Genomics Browser	Active
U24	2013	Aviv Regev	Broad Institute	Trinity: Transcriptome Assembly for Genetic and Functional Analysis of Cancer	Active
R21	2018	Giuseppe Narzisi	New York Genome Center	Somatic variant calling and phasing using colored de Bruijn graphs in heterogeneous tumors	Complete
U01	2018	Xiaole Shirley Liu	Dana-Farber Cancer Institute	Bioinformatics Technology to Characterize Tumor Infiltrating Immune Repertoires	Complete
U01	2018	Kai Tan	Children's Hospital of Philadelphia	Tools for annotating mutations in the 3D cancer genome	Complete
R21	2018	Corey W. Arnold	University of California, Los Angeles	Predicting the Presence of Clinically Significant Prostate Cancer using Multiparametric MRI and MR-US Fusion Biopsy	Complete
R21	2017	Samir Parekh	Icahn School of Medicine at Mount Sinai	A network-based approach for personalized treatment of Multiple Myeloma	Complete
R21	2017	Simina Boca	Georgetown University	CGDnet: Cancer Gene Drug Network: Using patient-specific drug-gene networks for recommending targeted cancer therapies	Complete
U01	2017	Vincent Carey	Brigham and Women's Hospital	Accelerating Cancer Genomics with Cloud-Scale Bioconductor	Complete
U01	2017	Daniel Crichton Raja Mazumder	Jet Propulsion Laboratory George Washington University	Integration of Comprehensive Cancer Mutation and Expression-Associated Data for Biomarker Evaluation and Discovery	Complete
U01	2017	William Evan Johnson	Boston University	An interactive analysis toolkit for single cell RNA-seq in cancer research	Complete
R21	2017	Nathalie Pochet	Brigham and Women's Hospital	Integrative Genomic Framework for Dissecting Regulatory Mechanisms Underlying Hepatocellular Carcinoma	Complete
Contract	2017	Timothy Olsen Daniel Marcus	Radiologic, Inc. Washington University in St. Louis	FDA Compliant Imaging Informatics for Cancer Research	Complete
R21	2016	Xiaodong Wu	University of Iowa	Developing Enabling PET-CT Image Analysis Tools for Predicting Response in Radiation Cancer Therapy	Complete
R21	2016	Lydia Kavraki Gregory Lizee	Rice University	Structure-Based Selection of Tumor-Antigens for T-Cell Based Immunotherapy	Complete
R21	2016	Dongjun Chung Linda Kelemen	Medical University of South Carolina	Algorithms for Literature-Guided Multi-Platform Identification of Cancer Subtypes	Complete
U01	2016	Srinivas Chakra Chennubhotla Daryl Sarachan Lansing Taylor	University of Pittsburgh	Informatics Tools for Tumor Heterogeneity in Multiplexed Fluorescence Images	Complete
U01	2016	Xinshu Grace Xiao	University of California, Los Angeles	Informatics Tools for Single-Nucleotide Analysis of Cancer RNA-Seq	Complete
U24	2016	Timothy Griffin	University of Minnesota	A Galaxy-Based Multi-Omic Informatics Hub for Cancer Researchers	Complete
U24	2016	Daniel Marcus Richard Wahl	Washington University in St. Louis	Integrative Imaging Informatics for Cancer Research	Complete
U24	2016	Rachel Karchin	Johns Hopkins University	Informatics Tools for High-Throughput Analysis of Cancer Mutations	Complete
U24	2015	David Andrew Gutman Lee Cooper	Emory University	Advanced Development of an Open-source Platform for Web-based Integrative Digital Image Analysis in Cancer	Complete
U24	2015	Jill Mesirov	University of California, San Diego	GenePattern Notebooks for Cancer Research	Complete
U24	2015	John Quackenbush Hugo Aerts	Dana-Farber Cancer Institute	Quantitative Radiomics System Decoding the Tumor Phenotype	Complete
U01	2015	Lauren Jean O'Donnell	Harvard Medical School	Open Source Diffusion MRI Technology for Brain Cancer Research	Complete
U01	2015	Kun Huang	Ohio State University	Informatics Links between Histological Features and Genetics in Cancer	Complete
U01	2015	Michael Wigler Alexander Krasnitz	Cold Spring Harbor Laboratory	Computational Framework for Single-Cell Genomics of Tumors	Complete
U24	2015	Anant Madabhushi Metin Nafi Gurcan Anne Martel	Case Western Reserve University Ohio State University University of Toronto	Pathology Image Informatics Platform for Visualization, Analysis and Management	Complete
U24	2015	Christos Davatzikos Despina Kontos	University of Pennsylvania	Cancer Imaging Phenomics Software Suite: Application to Brain and Breast Cancer	Complete
U24	2015	John Weinstein Bradley Broom	University of Texas MD Anderson Cancer Center	Next-Generation Clustered Heat Maps for Fluent, Interactive Exploration of Omic Data	Complete
U24	2014	Bruce Rosen Jayashree Kalpathy-Cramer	Massachusetts General Hospital	Informatics Tools for Optimized Imaging Biomarkers for Cancer Research & Discovery	Complete
R01	2014	Laura Rozek Maureen Sartor	University of Michigan	Integrative Epigenomic/Genomic Profiling and Biomarker Discovery in HPV+ and HPV-	Complete
U01	2014	Guoqian Jiang	Mayo Clinic - Rochester, Minnesota	caCDE-QA: A Quality Assurance Platform for Cancer Study Common Data Elements	Complete
U01	2014	Hong Yu	University of Massachusetts Medical School	EMR Adverse Drug Event Detection for Pharmacovigilance	Complete
U01	2014	Jingshan Huang	University of South Alabama	OmniSearch: A Semantic Search Tool for Discovering MicroRNAs' Critical Roles in Human Cancer	Complete
U01	2014	Benjamin Berman	Cedars-Sinai Medical Center	Software Tools For Regulatory Analysis of Large Cancer Methylome Datasets	Complete
U01	2014	Bobbie-Jo Mary Webb-Robertson	Pacific Northwest National Laboratory	Interactive Informatics Resource for Research-driven Cancer Proteomics	Complete
U01	2013	Shirley Liu	Dana-Farber Cancer Institute	Developing Informatics Technologies to Model Cancer	Complete
U01	2013	Rachel Karchin	Johns Hopkins University	Informatics Tools for High-Throughput Analysis of Cancer Mutations	Complete
U01	2013	Elmer Bernstam Funda Meric-Bernstam	University of Texas MD Anderson Cancer Center University of Texas Health Sci. Center, Houston	Informatics to Enable Routine Personalized Cancer Therapy	Complete
U24	2013	Michael Becich	University of Pittsburgh	Advanced Development of TIES-Enhancing Access to Tissue for Cancer Research	Complete
R01	2013	Joshua Stuart	University of California, Santa Cruz	ESCE: Discovering Molecular Processes	Complete
U24	2013	Ron Kikinis Andrey Fedorov	Brigham and Women's Hospital Harvard Medical School	Quantitative Image Informatics for Cancer Research (QIICR)	Complete
R01	2013	Hiroyuki Yoshida	Massachusetts General Hospital	Cloud-Computer-Aided Diagnostic Imaging Decision Support System	Complete
R01	2013	William Noble	University of Washington	Interpreting Massive Genomic Data Sets via Summarization	Complete
U01	2011	John Quackenbush	Dana-Farber Cancer Institute	MeV: Software for Next Generation Genomic Data Analysis	Complete
R01	2002	Janan Eppig Carol Bult	Jackson Laboratory	Electronic Access to Mouse Tumor Data	Complete

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