CRAVAT - Cancer-Related Analysis of Variants Toolkit

23 Jun 2015 | 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...

CRAVAT Introduction Video - Cancer Related Analysis of Variants

03 Dec 2014 | Teaching Materials | Contributor(s): Michael C Ryan

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...

Data Collection from the Nanotoxicology Literature Using ISA-TAB-Nano

21 Jan 2016 | Presentations | Contributor(s): Richard Liam Marchese Robinson

Nano WG meeting January 21, 2016 This is an updated version of the talk originally delivered at the CompNanoTox2015 conference. [1] Marchese Robinson, R.; Richarz, A.N.; Cassano, A.; Cronin, M.T.D; Rallo, R. (2015): Data Collection from the Nanotoxicology Literature Using ISA-TAB-Nano. FigShare....

Data Management: The appproach in NANoREG and ProSafe

21 Apr 2016 | Presentations | Contributor(s): Sara Totaro, Hugues Crutzen

NANoREG project is working on establishing a common European approach to the regulatory testing of Manufactured Nanomaterials and ProSafe has been designed to coordinate and support the aims of EU member and associated states in their EU and international efforts regarding risk assessment,...

Data ReproducibilityNanotechnology Knowledge Infrastructure Data Curation

05 Dec 2014 | Presentations | Contributor(s): Martin Fritts

Nano WG presentation on December 4, 2014

Data Sharing and the Electronic NanoBook (eNanobook)

20 Nov 2017 | Presentations | Contributor(s): Alexander Tropsha, Fred Prior

Sustainable research progress in many if not all scientific disciplines critically depends on the existence of robust specialized databases that integrate and structure all available experimental information in the respective fields. The need for such reference databases is especially critical...

Data, Metadata and "Data Quality" for Databases

05 Dec 2014 | Presentations | Contributor(s): Frederick C. Klaessig, Mervi Heiskanen

Nano WG December 4, 2014

Design and Applications of the CEINT Database

10 Sep 2014 | Presentations | Contributor(s): Sandra Karcher, Yuan Tian

Nano WG presentation September 4, 2014Post-doctoral research associates Dr. Sandra Karcher and Dr. Yuan Tian, Duke University

eNanoMapper Database, Search Tools and Templates

23 Nov 2016 | Presentations | Contributor(s): Nina Jeliazkova

Nano WG presentation, November 17, 2016

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

04 May 2017 | Presentations | Contributor(s): Frank Le Curieux

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...

Examples on Using Wikidata to Support Nanoinformatics Projects

13 Sep 2019 | Presentations | Contributor(s): Egon Willighagen

Nano WG Meeting September 12, 2019 Two years ago, a community survey resulted in a sketch of a linked data approach to nanosafety research [0]. Interoperability of linked data enables the reuse, but linking databases is not trivial. Many resources are simply not FAIR enough for reuse yet,...

Experimental Information Extraction from Nanocrystal Device Development Research Papers

24 Jun 2016 | Presentations | Contributor(s): Thaer Dieb

Nano WG weekly meeting: Dr. Thaer M. Dieb, National Institute for Material Science, Graduate School of Frontier Sciences, University of Tokyo  Seminar on development of an annotated corpus for nanocrystal device research papers and automatic information extraction framework...

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.

Global Harmonization of Nanoinformatics: A Case Study in Convergence and Team Science

27 Nov 2019 | Presentations | Contributor(s): Frederick C. Klaessig, Christine Ogilvie Hendren

Nano WG November 14, 2019National Nanotechnology Coordination Office (NNCO) sponsored Nanoinformatics presentation followed by discussion on Nanomaterial safety data integration with eNanoMapper database and eNanoMapper Ontology...

Hunting for Opportunities: Nano-Enabled Drug Delivery to Treat Cancers

26 May 2016 | Presentations | Contributor(s): Alan Porter, Mervi Heiskanen

 Within the scope of ongoing nano informatics by our Georgia Tech group, we have analyzed Nano-Enabled Drug Delivery (NEDD) research publication and patent activity.  Here, I report on work led by Jing Ma exploring A) which nano components are helping deliver which B) drugs, to treat...

Improving emerging technologies content on Wikipedia, or, what to do when someone is wrong on the Internet

07 Dec 2018 | Presentations | Contributor(s): John P. Sadowski

Nano WG December 6, 2018As one of the first places many people look up information on health and safety, including with emerging technologies like nanotechnology, it is important for Wikipedia to contain information that is complete, up to date, and free of errors.  Since 2012, NIOSH has...

InChl and Nanoparticles

21 Apr 2016 | Presentations | Contributor(s): Steve Heller

The InChI Trust is a nonprofit charity which works to develop and promote the use of the IUPAC InChI open-source chemical structure representation algorithm. The InChI with its associated InChIKey was developed as a non-proprietary international standard to represent chemical structures and has...