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  1. 8 Ways to Prevent Colon Cancer

    19 Nov 2015 | Downloads | Contributor(s): Saffiyah Muhammad

    The 8 Ways to Prevent Colon Cancer brochure is one out of four cancer prevention educational materials that we provide to the community at various community outreach events.  The 8 Ways to Prevent Cancer Campaign is led by Siteman Cancer Center in St. Louis, MO. CHE Contact...

  2. Nanomaterial Registry Update

    22 Oct 2015 | Presentations | Contributor(s): Karmann Mills, Anthony Hickey, Alexander Tropsha

    Nano WG weekly meeting October 22,2015

  3. 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...

  4. 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...

  5. 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...

  6. ITCR Monthly Teleconference September 4, 2015

    07 Oct 2015 | Presentations | Contributor(s): Juli Klemm

     

  7. Brain Cancer Imaging Analytics

    02 Oct 2015 | Presentations | Contributor(s): Christos Davatzikos

    The transition of oncologic imaging from its “industrial era” to it is “information era” demands analytical methods that 1) extract information from this data that is clinically and biologically relevant; 2) integrate imaging, clinical, and genomic data via rigorous...

  8. Support Access to NPO's Structure and Content

    13 Aug 2015 | Presentations | Contributor(s): Michael Halper, Vladimir Ventura, Yehoshua Perl

    •Abstraction Networks (“AbNs”) for Ontologies•Two example AbNs:–Area taxonomy–Partial-area taxonomy•BLUOWL: taxonomy-based software tool•Application to the NPO•Conclusions

  9. Home Health Party: Colorectal Cancer Knowledge

    16 Jul 2015 | Teaching Materials | Contributor(s): Kathy Briant

  10. Trinity: RNA-Seq De novo Assembly Application

    30 Jun 2015 | External Applications | Contributor(s): Grabherr MG, Brian Haas, Yassour M, Levin JZ, Thompson DA, Amit I, Adiconis X, Fan L, Raychowdhury R, Zeng Q, Chen Z, Mauceli E, Hacohen N, Gnirke A, Rhind N, Di Palma F, Birren BW, Nusbaum C, Lindblad-toh K, Friedman N, Regev A

     Quick Guide for the ImpatientTrinity assembles transcript sequences from Illumina RNA-Seq data.Download Trinity here.Build Trinity by typing make : ; in the base installation directory.Assemble RNA-Seq data like so:Trinity --seqType fq --left reads_1.fq --right reads_2.fq...

  11. A Brief History of OpenTox

    25 Jun 2015 | Presentations | Contributor(s): Barry Hardy

    Nano WG June 25, 2015 The history and challenges of OpenTox developments and the potential of its community, framework and principles applied to advancing safety assessment goals.  

  12. CRAVAT - Cancer-Related Analysis of Variants Toolkit

    23 Jun 2015 | External Applications | Contributor(s): Rachel Karchin, Michael C Ryan

    cravat is a bioinformatics pipeline : ; that performs high-throughput cancer-related analysis of variants. it : ; utilizes three applications: CHASM (Cancer-Specific Analysis of Somatic Mutations), VEST and SVN-Get. More information on these tools is available at CHASM Software.Release...

  13. Tools for Creation of Integrated Data Repository for Cancer Research

    16 Jun 2015 | Presentations | Contributor(s): Guoqian Jiang

    Admin Supplement Proposal Parent Projects: DeepPhe (PIs: Savova and Jacobson) caCDE-QA (PI: Jiang)

  14. A Semantic Web-based Quality Assurance Tool for Cancer Study Common Data Elements

    16 Jun 2015 | Presentations | Contributor(s): Guoqian Jiang

    A poster presentation from the caCDE-QA project (PI: Jiang)  

  15. 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

  16. Molecule & Particle Differentiation Using Electrophoresis

    28 Apr 2015 | Presentations | Contributor(s): Frederick C. Klaessig, Sharon Ku

    Nano WG April 16, 2015

  17. Nanoinformatics Workshop 2015

    23 Mar 2015 | Presentations | Contributor(s): Mark Tuominen, Mervi Heiskanen

    Nano WG March 19, 2015.

  18. Why in the world do we need a nanomaterials description system – How CODATA and VAMAS answers that question

    12 Mar 2015 | Presentations | Contributor(s): John Rumble

    Nano WG March12, 2015

  19. 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...

  20. So What Can We Do With Nano Informatics? – Leveraging Decision Analytic Tools

    22 Jan 2015 | Presentations | Contributor(s): Igor Linkov, Matthew Bates

    Jan 22, 2015 meeting                  Nanotechnology Working Group Matthew E. Bates & Igor Linkov Risk & Decision Science Team Environmental Laboratory, Engineer Research and Development Center, US Army...