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

    16 Jun 2015 | Presentations | Contributor(s): Denise Warzel, Ann Christine Catlin, Sumudinie fernando

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

  2. Activities to Promote Technology Research Collaborations (APTRC) PA-17-143 Pre-Application Webinar

    24 Feb 2017 | Presentations | Contributor(s): Denise Warzel, Ann Christine Catlin, Sumudinie fernando

    Pre-application seminar held February 24, 2017 for FOA PA-17-143 

  3. An Extensible and Scalable Knowledge System Architecture for Cancer Research

    06 May 2016 | Presentations | Contributor(s): Denise Warzel, Ann Christine Catlin, Sumudinie fernando

    ITCR May 2016 PI meeting presentation on development of an advanced knowledge system to capture, share and support reproducible analysis from the biomarker data results.  

  4. caNanoLab Overview

    05 Jul 2017 | Presentations

    General Overview of the caNanoLab data portal: data submission workflow, collaboration features, data sharing and working with Journals and PubMed to share information about data submissions.

  5. CEINT's NanoPHEAT Project : Integrating Exposure and Toxicity Data to Build Risk Forecasting Tools

    16 Apr 2020 | Presentations

    The NanoPHEAT tool (Nano Product Hazard and Exposure Assessment Tool) is built to compile dose-response curves from literature, including hundreds of papers, and calculates the estimated exposure to nanoparticles as released from real products, based on some in-house experimental values that we...

  6. CRAVAT - Cancer-Related Analysis of Variants Toolkit

    23 Jun 2015 | External Applications | Contributor(s): Denise Warzel, Ann Christine Catlin, Sumudinie fernando

    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...

  7. CRAVAT Introduction Video - Cancer Related Analysis of Variants

    03 Dec 2014 | Teaching Materials | Contributor(s): Denise Warzel, Ann Christine Catlin, Sumudinie fernando

    This video provides a brief overview of the CRAVAT web service(http://www.cravat.us/).  CRAVAT provides annotation and analysis of cancer mutations. CRAVAT is free, very easy to use, and can handle large volumes of mutations.[[Youtube(xovmIy11Bcs)]]Please switch to 1080 resolution and watch...

  8. Dataset Curation, Assessment of their Quality, and Prediction Model Developments for Safe and Sustainable Nanotechnology (S2NANO)

    29 Nov 2018 | Presentations

    Nano WG November 29, 2018: Tae Hyun Yoon, Prof./CEO/Ph.D., Yoon Idea Lab. Co. Ltd. & Hanyang University In this presentation, I will introduce our recent research outcomes from S2NANO: PredictNANO project, which aimed to bridge the nanosafety knowledge gaps between R&D...

  9. Dissolution as a Paradigm in Regulating Nanomaterials

    16 Aug 2017 | Presentations

    Nano WG presentation, August 10, 2017 Themes: • Dissolution as a decision criterion • Analogies to ζ-potential & VSSA • Relation to nanoform & nanoscale form • Dissolution kinetics and artifacts • ASTM particle ontology & Nanoinformatics Roadmap...

  10. European Chemical Agency's work to implement REACH regulation for nanomaterials

    04 May 2017 | Presentations

    Nano WG presentation on May 4, 2017.  REACH = Registration, Evaluation, Authorisation (& restriction) of Chemicals aims to ensure a high level of protection of human health and the environment while enhancing competitiveness and innovation. Nano materials are covered by...

  11. Extending 3D Slicer to support ground truth pathology tissue segmentation data for integrated pathology/radiology image analysis competitions.

    06 Jan 2017 | Presentations | Contributor(s): Denise Warzel, Ann Christine Catlin, Sumudinie fernando

    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...

  12. FAIR for NanoSafety: where do we stand?

    05 Apr 2019 | Presentations

    Nano WG April 4, 2019 Findable, Accessible, Interoperable, Reusable (FAIR) sharing of nanosafety data.

  13. GenomeSpace Presentation

    08 Feb 2016 | Presentations | Contributor(s): Denise Warzel, Ann Christine Catlin, Sumudinie fernando

    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',...

  14. Introduction to the Trinity Cancer Transcriptome Analysis Toolkit

    05 Feb 2015 | Teaching Materials | Contributor(s): Denise Warzel, Ann Christine Catlin, Sumudinie fernando

    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...

  15. ITCR PI Meeting June 2014 Presentations

    23 Jun 2014 | Series | Contributor(s): Denise Warzel, Ann Christine Catlin, Sumudinie fernando

    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.

  16. Jaqpot - An open-source web platform for creating, using, testing and sharing predictive models in nano-informatics

    20 Jun 2019 | Presentations

    Nano WG June 20, 2019Computational models that predict physicochemical properties, biokinetics or adverse biological effects of Engineered Nanomaterials (ENMs) are becoming increasingly important to support risk assessment and safety-by-design. This is primarily due to cost-saving and...

  17. Life after MOOCS: Online Science Education Needs a New Revolution

    03 Feb 2017 | Presentations | Contributor(s): Denise Warzel, Ann Christine Catlin, Sumudinie fernando

    ITCR Monthly PI Meeting, February 3, 2017 Presentation by Phillip Compeau (Carnegie Mellon U.)

  18. NanoInformatics Knowledge Commons Curation Team: Building the Data Dictionary to Enrich Data Curation

    11 Jul 2018 | Presentations

    Nano WG Presentation, May 31st, 2018 Organized storing of data using informed-decision making to determine what information should be curated, when data curation is complete, and how to identify high-quality data. Purpose of NIKC structure & curation process: tell the story of...

  19. Notes from the ITCR Annual Meeting May 27-28, 2015

    10 Jun 2015 | Downloads | Contributor(s): Denise Warzel, Ann Christine Catlin, Sumudinie fernando

    Notes from the ITCR Annual Meeting May 27-28, 2015

  20. Providing National Cyberinfrastructure to Biologists, esp. Genomicists

    02 Sep 2016 | Presentations | Contributor(s): Denise Warzel, Ann Christine Catlin, Sumudinie fernando

    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.