-
Development of Targeted Nanomedicines via Machine Learning Processes
05 Mar 2019 | Contributor(s): Daniel Heller
Nano WG February 21, 2019Description: We are using data science to facilitate the development of nanoparticle drugs incorporating kinase inhibitors with diverse chemical structures. Doing this work inspired us to bring together the nanoinformatics community...
-
Extending 3D Slicer to support ground truth pathology tissue segmentation data for integrated pathology/radiology image analysis competitions.
06 Jan 2017 | Presentations | Contributor(s): Joel Haskin Saltz, Andrey Fedorov, Jayashree Kalpathy-Cramer
ITCR PI Monthly Meeting January 6, 2017 Collaborative project goal: Improve support in 3D Slicer for pathology imaging, generate high quality, well curated “ground truth” annotations, integrate key aspects of the Stony Brook ITCR project (FeatureDB) into the MGH project and...
-
GenomeSpace Presentation
08 Feb 2016 | Presentations | Contributor(s): Michael Reich
GenomeSpace (http://www.genomespace.org) is a cloud-based, cooperative community resource that currently supports the streamlined interaction of 20 bioinformatics tools and data resources. To facilitate integrative analysis by non-programmers, it offers a growing set of 'recipes',...
-
Getting Anal Cancer Screening & Participating in Research
22 Dec 2015 | Teaching Materials
Six minute video showing interviews of three HIV positive women telling their stories of living with HIV and choosing to participate in anal cancer screening as part of a clinical research project.
-
Home Health Party: Colorectal Cancer Knowledge
16 Jul 2015 | Teaching Materials | Contributor(s): Kathy Briant
-
Informatics to enable Routine Personalized Cancer Therapy (IPCT)
18 Feb 2014 | Presentations | Contributor(s): Elmer V. Bernstam, Funda Meric-Bernstam
-
Informatics Tools for High-throughput Analysis of Cancer Mutations
15 Jan 2014 | Presentations | Contributor(s): Michael C Ryan, Rachel Karchin
-
Integrated analysis of breast cancer cell lines reveals unique signaling pathways
16 Sep 2014 | Publications | Contributor(s): Laura M Heiser, Nicholas J Wang, Carolyn L Talcott, Keith R Laderoute, Merrill Knapp, Yinghui Guan, Zhi Hu, Safiyyah Ziyad, Barbara L Weber, Sylvie Laquerre, Jeffrey R Jackson, Richard F Wooster, Wen Lin Kuo, Joe W Gray, Paul T Spellman
AbstractBackgroundCancer is a heterogeneous disease resulting from the accumulation of genetic defects that negatively impact control of cell division, motility, adhesion and apoptosis. Deregulation in signaling along the EgfR-MAPK pathway is common in breast cancer, though the manner in which...
-
Integrative Cancer Biology Program Datasets
26 Apr 2016 | Series | Contributor(s): Jonathan Bistline, Michael Reich
The NCI-ICBP promotes an integrative/systems approach to the study of cancer biology. The Program encourages scientists to study cancer as a complex biological system. Information gained from these studies are used to build reliable and testable predictive computation models of cancer processes...
-
Introduction to the Trinity Cancer Transcriptome Analysis Toolkit
05 Feb 2015 | Teaching Materials | Contributor(s): Brian Haas, Aviv Regev, Bill Barnett
This short video provides an overview of our ITCR-funded effort to leverage RNA-Seq and de novo transcriptome assembly to assist researchers in studying cancer transcriptomes. Visit our NCGAS Trinity/Galaxy portal to access these compute...
-
ITCR Monthly Teleconference September 4, 2015
07 Oct 2015 | Presentations | Contributor(s): Juli Klemm
-
ITCR PI Meeting June 2014 Presentations
23 Jun 2014 | Series
Informatics Technology for Cancer Research (ITCR) Initiative held its Annual PI Meeting on June 12-13, 2014 in Rockville, MD. This series contains the presentations given at the meeting.
-
LBL ICBP50 integrative genomic data
13 Nov 2014 | Downloads | Contributor(s): Joe Gray, Jonathan Bistline
From Joe Gray, Lawrence Berkeley National Laboratory. There are seventeen (17) files in this study: Affymetrix U133A gene expression data (icbp_u133a.gct) Affymetrix U133A gene expression data (ICBP_U133a.zip) Affymetrix splice junction exon-exon data (ICBP_Junction.zip) Affymetrix...
-
Life after MOOCS: Online Science Education Needs a New Revolution
03 Feb 2017 | Presentations | Contributor(s): Phillip Compeau
ITCR Monthly PI Meeting, February 3, 2017 Presentation by Phillip Compeau (Carnegie Mellon U.)
-
NCI Alliance for Nanotechnology in Cancer, and caNanoLab: A Data Repository for Cancer Nanomedicines
27 Nov 2018 | Presentations | Contributor(s): Luisa Russell, Mervi Heiskanen
Nano WG presentation November15, 2018 NCI Alliance for Nanotechnology in Cancer –Structure–Achievements–Scientific FocuscaNanoLab–Intro to Platform–Data Curation–User Statistics–Future Directions
-
Next-Generation Clustered Heat Maps (NG-CHM)
07 Oct 2015 | Presentations | Contributor(s): Weinstein John, Bradley Broom
Clustered Heat Maps (CHMs) have been referred to as the ubiquitous visual icons of post-genomic biology -- the most frequent type of visualization for large molecular profiling databases. However, “traditional” CHMs are static images -- a serious limitation. Accordingly, we have now...
-
Notes from the ITCR Annual Meeting May 27-28, 2015
10 Jun 2015 | Downloads | Contributor(s): Ishwar Chandramouliswaran, Juli Klemm
Notes from the ITCR Annual Meeting May 27-28, 2015
-
Open source diffusion MRI technology for brain cancer research
07 Oct 2015 | Presentations | Contributor(s): Lauren O\'Donnell
Using measurements of water diffusion, dMRI can give unique insights into the microstructure and cellular orientation of tissues. There is a growing awareness in the neurosurgery community that diffusion models must move beyond the current clinical standard of the diffusion tensor for better...
-
Pathology Image Informatics Platform for visualization, analysis and management
07 Oct 2015 | Presentations | Contributor(s): Metin Gurcan, Anant Madabhushi, Anne Martel
This multi-institutional proposal seeks to expand on an existing, freely available pathology image viewer (Sedeen Image Viewer) to create a pathology informatics platform (PIIP) for managing, annotating, sharing, and quantitatively analyzing digital Pathology Imaging (DPI) data. Sedeen has become...
-
Patient Stories
30 Nov 2015 | Teaching Materials | Contributor(s): Diane Townsel
Beaumont’s Patient videos: is the story of five patients that have participated in clinical research or have been a part of a bio-specimen study. The videos tell the unique stories of our patients and how our Cancer Clinical Trials staff build relationships with our patients and guide them...