CEINT's NanoPHEAT Project : Integrating Exposure and Toxicity Data to Build Risk Forecasting Tools
16 Apr 2020
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...
Jaqpot - An open-source web platform for creating, using, testing and sharing predictive models in nano-informatics
20 Jun 2019
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...
Transitioning to Predictive Analysis for Nanoparticle Biocorona Studies
14 May 2019
Nano WG April 18, 2019: Proteins adsorbed to nanomaterials in a biological environment mediate cellular recognition, uptake, and toxicity of nanomaterials. Here, Dr. Korin Wheeler presents the development of experimental methods to characterize this population of proteins (also...
The history of chemical information and the materials of the future
25 Apr 2019
Techniques, technologies, cultures, and infrastructures of information management played a central role in the development of the modern chemical sciences and the global chemicals industry since the late 19th century. Chemical databases and analytical techniques that privileged abstract,...
FAIR for NanoSafety: where do we stand?
05 Apr 2019
Nano WG April 4, 2019 Findable, Accessible, Interoperable, Reusable (FAIR) sharing of nanosafety data.
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...
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...
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...
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.
The Digital Slide Archive
13 Jun 2017 | Presentations | Contributor(s): Denise Warzel, Ann Christine Catlin, Sumudinie fernando
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.
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...
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
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.)
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...
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.
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.
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',...
Trinity: RNA-Seq De novo Assembly Application
30 Jun 2015 | External Applications | Contributor(s): Denise Warzel, Ann Christine Catlin, Sumudinie fernando
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...
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...
Tools for Creation of Integrated Data Repository for Cancer Research
16 Jun 2015 | Presentations | Contributor(s): Denise Warzel, Ann Christine Catlin, Sumudinie fernando
Admin Supplement Proposal Parent Projects: DeepPhe (PIs: Savova and Jacobson) caCDE-QA (PI: Jiang)