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  1. NCIP Hub QIN Workshop - March 3, 2015

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    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...

  2. Next-Generation Clustered Heat Maps (NG-­CHM)

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    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...

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

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    10 Jun 2015 | Downloads | Contributor(s): Ishwar Chandramouliswaran, Juli Klemm

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

  4. Open source diffusion MRI technology for brain cancer research

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    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...

  5. Pathology Image Informatics Platform for visualization, analysis and management

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    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...

  6. Providing National Cyberinfrastructure to Biologists, esp. Genomicists

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    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.

  7. Quantitative Image Informatics for Cancer Research (QIICR)

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    04 Apr 2014 | Presentations | Contributor(s): Andrey Fedorov, Ron Kikinis

  8. Resources on NCIP Hub

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    22 Sep 2014 | Teaching Materials | Contributor(s): Lisa Mahoney

    This is a presentation given as part of the NCIP Hub Webinar Series. It reviews at a high level what resources are, why and when to use them, and how to contribute.

  9. Resources on NCIP Hub (2016)

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    02 Mar 2016 | Presentations | Contributor(s): Lisa Mahoney

    This presentation is part of NCIP Hub's 2016 Webinar Series. It provides an overview of what resources are, when and why to use resources and how to upload resources to NCIP Hub.

  10. Screening for Small Molecules: Target Discovery Against miRNAs for Breast Cancer Treatment

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    18 Aug 2015 | Presentations | Contributor(s): Odemaris Narvaez del Pilar

    Breast cancer is one of the leading causes of cancer related deaths and morbidity among women worldwide. Identifying new targets and developing new therapies is very important in order to improve patient outcomes and minimize this health burden. MicroRNAs, a type of non-coding RNA, are potential...

  11. Seven Bridges Cancer Genomics Cloud Pilot TCGA 2015 symposium workshop presentation

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    23 May 2015 | Presentations | Contributor(s): Deniz Kural

    Basic and translational cancer research creates the need to disseminate, manage, and interpret large heterogeneous datasets. The volume and complexity of the data now routinely generated by high-throughput technologies has become too costly for individual laboratories and many research...

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

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    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...

  13. Some Thoughts on Reproducibility

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    05 Dec 2014 | Presentations | Contributor(s): John Rumble

    Nano WG December 4, 2014

  14. Summarization of Big Data

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    07 Nov 2014 | Presentations | Contributor(s): Jeffrey A. Blimes

    All about assay selection...

  15. Support Access to NPO's Structure and Content

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    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

  16. Text Mining, Data Mining and Molecular Dynamics Simulations for in Silico Design of PAMAM Dendrimers

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    17 Jun 2016 | Presentations | Contributor(s): Julio Facelli

    Nano WG June 16, 2016 Text Mining, Data Mining and Molecular Dynamics Simulations for in Silico Design of PAMAM Dendrimers by Julio Facelli

  17. The Cistrome Data Collection

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    22 Jan 2014 | Presentations

  18. The Digital Slide Archive

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    13 Jun 2017 | Presentations | Contributor(s): David A Gutman, Lee Cooper

    Presentation at the 2017 Informatics Technology for Cancer Research Annual Meeting Advanced development of an open-source platform for web-based integrative digital image analysis in cancer.

  19. The impact of engineered nanomaterials on aquatic species: ISA-TAB compatible dataset mined from literature (2007-2016)

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    13 Jun 2017 | Presentations | Contributor(s): Anastasios Papadiamantis

    Nano WG presentation, June 8, 2017Primary scope of the project was to: Model the toxicity of engineered nanomaterials (ENMs) at multiple levels and design and create a database (DB) containing extracted peer-reviewed published toxicity dataAnalyse the extracted data and identify...

  20. The NANoREG Toolbox for the safety assessment of nanomaterials

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    16 Jan 2018 | Presentations | Contributor(s): Paula Jantunen

    Presentation for the Nano WG on January 11, 2018 by Paula Jantunen,  The European Commission’s science and knowledge service Joint Research Centre NANOoREG Toolbox supports the framework by identifying & inventorying tools for the different steps and options of...