CAFCW109 Semi-Supervised Method for Countering Batch Effect

06 Dec 2019 | Contributor(s): Stewart He

Predictive modeling of patient tumor growth response to drug treatment is severely limited by a lack of experimental data for training. Combining experimental data from several studies is an attractive approach, but presents two problems: batch effects and limited data for individual drugs and...

Cancer 101 plus an emphasis on Lung Cancer

05 Dec 2019 | Contributor(s): Molly Bernhard Richardson

Several culturally tailored flyers were developed for cancer screening and prevention in African American populations in the Deep South. The populations are medically underserved, from rural or urban areas, and have low socioeconomic status. These flyers accompany additional materials as...

CAFCW 104 Deep kernel Learning for Information Extraction from Cancer Pathology Reports

05 Dec 2019 | Contributor(s): Devanshu Agrawal, Abhishek Dubey, Georgia Tourassi, Jacob Hinkle

Cancer pathology reports comprise a rich source of data for surveilling cancer incidents and tracking cancer trends across the United States. Cancer registries manually extract key pieces of information from these reports including tumor site, histology, laterality, behavior, grade, and...

Keynote Presentation: Computing and Data in Precision Oncology

05 Dec 2019 | Contributor(s): Warren Kibbe

Computing and Data in Precision OncologyWarren A Kibbe, Ph. D.Professor, Biostats & BioinformaticsChief Data Officer, Duke Cancer Institutewarren.kibbe@duke.edu@supercomputing#sc19#CAFCW19#ComputationalPhenomics#PrecisionOncology

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

27 Nov 2019 | 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...

Read across in nanosafety research: Dissolution behaviour of a library of 37 nanomaterials in simplified physiological media

05 Nov 2019 | Contributor(s): Tassos Papadiamantis, Emily Guggenheim, Antreas Afantitis, Sophie Briffa, Georgia Melagraki, Iseult Lynch, Eugenia Valsami-Jones

NanoWorkingGroup, 31 October 2019The dissolution of engineered nanomaterials (ENMs) is a complex process, which remains poorly understood despite being one of the key prerequisites for the risk assessment of ENMs, and having a direct influence on toxicological and eco-toxicological effects....

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,...

Health Information National Trends Survey (HINTS) 5 Cycle 2 (2018)

02 Aug 2019 | Downloads | Contributor(s): Kelly Blake, Richard Moser

The Health Information National Trends Survey (HINTS) is a nationally representative survey that has been administered every few years by the National Cancer Institute since 2003. The HINTS target population is all adults aged 18 or older in the civilian non-institutionalized population of the...

Some thoughts on our progress in defining and advancing nanoinformatics

01 Aug 2019 | Presentations | Contributor(s): Mark D Hoover

Nano WG Meeting November 1, 2018Discussion on Nano WG accomplishments and future directions.

An Interactive Resource to Probe Genetic Diversity and Estimated Ancestry in Cancer Cell Lines

26 Jun 2019 | Downloads | Contributor(s): Anil Wali

An Interactive Resource to Probe Genetic Diversity and Estimated Ancestry in Cancer Cell Lines

Geant4 - A Simulation Toolkit

20 Jun 2019 | Tools | Contributor(s): Sachin Dev

Geant4 is a toolkit for the simulation of the passage of particles through matter. Its areas of application include high energy, nuclear and accelerator physics, as well as studies in medical and space science.

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

20 Jun 2019 | Presentations | Contributor(s): Haralambos Sarimveis

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 | Presentations | Contributor(s): Korin Wheeler

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...

Accelerating Nanotech Innovations Through a Safer-By-Design Approach, Safer Nanomaterials School

14 May 2019 | Presentations | Contributor(s): Philippe Sabatier

Nano WG May 9, 2019European Scientific Institute (ESI) Safer Nanomaterials School Introduction.

The history of chemical information and the materials of the future

25 Apr 2019 | Presentations | Contributor(s): Evan Hepler-Smith

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 | Presentations | Contributor(s): Egon Willighagen

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

European Open Science Cloud: Concept and opportunities

26 Mar 2019 | Presentations | Contributor(s): Gergely Sipos

EOSC-hub is a 33 million Euro H2020 project that started in January 2018 with the involvement of over 100 institutes. In three years the project establishes the first elements of the European Open Science Cloud (EOSC) – the infrastructure aimed to accelerate and support the current...

A multi-modal data resource for investigating geographic heterogeneity in patient-derived xenograft tumors

13 Mar 2019 | Publications | Contributor(s): Satwik Rajaram, Maike Roth, Julia Malato, Scott Vandenberg, Byron Hann, Chloe E. Atreya, Steven J. Altschuler, Lani F. Wu

PSON0010 Cancer Sampling Index – CaSIXStudy Contact: Lani Wu lani.wu@ucsf.eduDownload the dataset at ftp://caftpd.nci.nih.gov/psondcc/casix/Studies using Patient Derived Xenograft (PDX) models of human cancer permit a wider range of experimental approaches to measure...

Development of Targeted Nanomedicines via Machine Learning Processes

05 Mar 2019 | Presentations | Contributor(s): Daniel Heller

Nano WG February 21, 2019Description: We are using data science to facilitate the development of nanoparticle drugs incorporating kinase inhibitors with diverse chemical structures. Doing this work inspired us to bring together the nanoinformatics community...