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,...
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...
Nano WG: NCI's Alliance for Nanotechnology in Cancer Program: Phase III and Data Sharing Plans
18 Feb 2016 | Presentations | Contributor(s): Stephanie Morris
Launched in 2004, the National Cancer Institute (NCI) Alliance for Nanotechnology in Cancer (Alliance) advanced a number of promising nanotechnologies for the diagnosis, treatment and prevention of cancer in its first ten years. This progress led NCI to announce in September 2015 its continued...
Nanomaterial-Biological Interactions Knowledgebase
21 Jan 2016 | Presentations | Contributor(s): Stacey L Harper
Nano WG January 14, 2016 The NBI Knowledgebase is intended to offer industry, academia, the general public, and regulatory agencies a mechanism to rationally inquire for unbiased interpretation of nanomaterial exposure effects in biological systems. The knowledgebase serves as a repository for...
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.  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....
Summary of the 2015 Epigenetic Engineering for Cancer Workshops
22 Dec 2015 | Publications | Contributor(s): Tony Dickherber
This document provides a general summary of the 2 virtual workshops held in Fall of 2015 to explore the suitability of epigenetic engineering tools to specifically modify epigenetic loci to study and/or treat cancer.
Materials Science Data Management Initiatives at NIST
17 Dec 2015 | Presentations | Contributor(s): Robert J. Hanisch
Nano WG December 17, 2015 •NIST is a national and world resource for fundamental data •Access should be easy and open –With regard to IP and privacy issues •As our nation’s standards organization… –NIST should be a leader in national and...
The Open Scholarship Initiative (OSI)
17 Dec 2015 | Presentations | Contributor(s): Glenn Hampson
Nano WG meeting November 19, 2015. : "What should the future of scholarly publishing look like? How about open access? Who should decide? Can journals become more affordable and accessible? Will journals continue to serve as the primary means of communicating research? Can institutional...
Community Health Worker Genetics Education Needs Assessment
23 Nov 2015 | Downloads | Contributor(s): Andria Reyes, Manuela Orjuela, Karen Schmitt, Andria Reyes, Grace Hillyer, Stephen Emerson
Our overarching goal is to develop and establish a cancer genetics curriculum that is pertinent, culturally sensitive and understandable by a community population who is not English dominant and of a lower literacy level than that of the general New York City population. The curriculum will teach...
Nanomaterial Registry Update
22 Oct 2015 | Presentations | Contributor(s): Karmann Mills, Anthony Hickey, Alexander Tropsha
Nano WG weekly meeting October 22,2015
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...
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...
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...
ITCR Monthly Teleconference September 4, 2015
07 Oct 2015 | Presentations | Contributor(s): Juli Klemm
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...
UCSC Biomedical Evidence Graph Demonstration
03 Jun 2015 | Presentations | Contributor(s): Josh Stuart, ellrott
The BMEG demonstration includes the following elements: 1) Organization of crowd-source challenges to develop best-of-breed methods including an overview of current DREAM projects, living benchmarks; 2) Enabling cloud-ready methods for mass compute with examples of recently...
Seven Bridges Cancer Genomics Cloud Pilot TCGA 2015 symposium workshop presentation
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...
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...
Video: Learn how TIES can help manage research resources
16 Jan 2015 | Presentations | Contributor(s): Girish Chavan, Rebecca Crowley
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...