FAIR for NanoSafety: where do we stand?

05 Apr 2019 | Contributor(s): Egon Willighagen

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

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',...

HUBzero: A Web-based Platform for research, Education and Scientific Collaboration

11 Sep 2013 | Presentations | Contributor(s): Michael McLennan

Imagine an app store for scientists, engineers, and educators filled with simulation and modeling tools — not simple Java applets, but real research codes that tackle difficult problems and may require substantial computing power drawn from the Cloud. Imagine a new way of publishing...

Human Disease Ontology

21 Sep 2016 | External Applications | Contributor(s): Lynn Schriml

The Disease Ontology has been developed as a standardized ontology for human disease, since 2003, with the purpose of providing the biomedical community with manual curated, consistent, reusable and sustainable descriptions of human disease terms, phenotype characteristics and related...

Integrated analysis of breast cancer cell lines reveals unique signaling pathways

16 Sep 2014 | Publications | Contributor(s): Laura M Heiser, Nicholas J Wang, Carolyn L Talcott, Keith R Laderoute, Merrill Knapp, Yinghui Guan, Zhi Hu, Safiyyah Ziyad, Barbara L Weber, Sylvie Laquerre, Jeffrey R Jackson, Richard F Wooster, Wen Lin Kuo, Joe W Gray, Paul T Spellman

AbstractBackgroundCancer is a heterogeneous disease resulting from the accumulation of genetic defects that negatively impact control of cell division, motility, adhesion and apoptosis. Deregulation in signaling along the EgfR-MAPK pathway is common in breast cancer, though the manner in which...

Integrative Cancer Biology Program Datasets

26 Apr 2016 | Series | Contributor(s): Jonathan Bistline, Michael Reich

The NCI-ICBP promotes an integrative/systems approach to the study of cancer biology. The Program encourages scientists to study cancer as a complex biological system. Information gained from these studies are used to build reliable and testable predictive computation models of cancer processes...

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...

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...

ITCR PI Meeting June 2014 Presentations

23 Jun 2014 | Series

Informatics Technology for Cancer Research (ITCR) Initiative held its Annual PI Meeting on June 12-13, 2014 in Rockville, MD. This series contains the presentations given at the meeting.

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...

LBL ICBP50 integrative genomic data

13 Nov 2014 | Downloads | Contributor(s): Joe Gray, Jonathan Bistline

From Joe Gray, Lawrence Berkeley National Laboratory.  There are seventeen (17) files in this study: Affymetrix U133A gene expression data (icbp_u133a.gct) Affymetrix U133A gene expression data (ICBP_U133a.zip) Affymetrix splice junction exon-exon data (ICBP_Junction.zip) Affymetrix...

Life after MOOCS: Online Science Education Needs a New Revolution

03 Feb 2017 | Presentations | Contributor(s): Phillip Compeau

ITCR Monthly PI Meeting, February 3, 2017 Presentation by Phillip Compeau (Carnegie Mellon U.)

Multiclass cancer diagnosis using tumor gene expression signatures

10 Nov 2014 | Downloads

Experiment Description:    The optimal treatment of patients with cancer depends on establishing accurate diagnoses by using a complex combination of clinical and histopathological data. In some instances, this task is difficult or impossible because of atypical clinical...

NANOANALYTICS OF EXTRACELLULAR VESICLES – Standards for isolation, characterization and reporting

26 May 2017 | Presentations | Contributor(s): Shivani Sharma

Nano WG presentation on May 25, 2017. Presentation by Dr.  Shivani Sharma, Associate Director of the Nano Pico Characterization Lab, UCLA. Nanoscale characterization of exosomes and their use disease biomarkers and drug delivery agents