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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...
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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',...
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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.
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Home Health Party: Colorectal Cancer Knowledge
16 Jul 2015 | Teaching Materials | Contributor(s): Kathy Briant
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Informatics to enable Routine Personalized Cancer Therapy (IPCT)
18 Feb 2014 | Presentations | Contributor(s): Elmer V. Bernstam, Funda Meric-Bernstam
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Informatics Tools for High-throughput Analysis of Cancer Mutations
15 Jan 2014 | Presentations | Contributor(s): Michael C Ryan, Rachel Karchin
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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...
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ITCR Monthly Teleconference September 4, 2015
07 Oct 2015 | Presentations | Contributor(s): Juli Klemm
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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.
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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.)
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Medicine & AI
05 May 2022 | Publications | Contributor(s): Simran Joshi
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NCIP Hub Dashboard Tutorial
15 Apr 2014 | Teaching Materials | Contributor(s): Lisa Mahoney
This is a short "how-to" video to familiarize users with the customizable dashboard on NCIP Hub.
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NCIP Hub QIN Workshop - March 3, 2015
19 Mar 2015 | Presentations | Contributor(s): Michael McLennan
Mike McLennan, director of HUBzero, presented an overview of basic NCIP Hub functionality to the QIN group on March 3, 2015. The presentation included an overview of the "hub" and HUBzero, and touched upon functionality such as projects, groups, resources and information sharing. The...
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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...
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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
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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...
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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...
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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...
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Por Nuestras Hijas/For Our Daughters HPV Program
24 Nov 2015 | Teaching Materials | Contributor(s): Maria E. Fernandez
The Por Nuestras Hijas/For Our Daughters HPV program is an interactive, culturally appropriate HPV education program which includes a print fotonovela and a tailored interactive multimedia intervention (TIMI). The TIMI runs on iPads and also available on the web and mobile platforms. The program...
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Providing National Cyberinfrastructure to Biologists, esp. Genomicists
02 Sep 2016 | Presentations | Contributor(s): Tom Doek, Mervi Heiskanen
National Center for Genome Analysis Support (NCGAS) provides access to High Performance Computing resources for biologists. NCGAS also maintains a curated set of applications and Galaxy instances of their software, as well as provides bioinformatics expertise.