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...

Molecule & Particle Differentiation Using Electrophoresis

28 Apr 2015 | Presentations | Contributor(s): Frederick C. Klaessig, Sharon Ku

Nano WG April 16, 2015

Nanoinformatics Workshop 2015

23 Mar 2015 | Presentations | Contributor(s): Mark Tuominen, Mervi Heiskanen

Nano WG March 19, 2015.

Why in the world do we need a nanomaterials description system – How CODATA and VAMAS answers that question

12 Mar 2015 | Presentations | Contributor(s): John Rumble

Nano WG March12, 2015

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...

So What Can We Do With Nano Informatics? – Leveraging Decision Analytic Tools

22 Jan 2015 | Presentations | Contributor(s): Igor Linkov, Matthew Bates

Jan 22, 2015 meeting                  Nanotechnology Working Group Matthew E. Bates & Igor Linkov Risk & Decision Science Team Environmental Laboratory, Engineer Research and Development Center, US Army...

Video: Learn how TIES can help manage research resources

16 Jan 2015 | Presentations | Contributor(s): Girish Chavan, Rebecca Crowley

https://www.youtube.com/watch?v=EzjAo9LJ4tg  

Some Thoughts on Reproducibility

05 Dec 2014 | Presentations | Contributor(s): John Rumble

Nano WG December 4, 2014

Data, Metadata and "Data Quality" for Databases

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

Nano WG December 4, 2014

Data ReproducibilityNanotechnology Knowledge Infrastructure Data Curation

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

Nano WG presentation on December 4, 2014

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...

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...

Baylor Residual breast cancer

13 Nov 2014 | Downloads | Contributor(s): Creighton C, Lewis M, Chang J, Jonathan Bistline

Residual breast cancers after conventional therapy display mesenchymal as tumor-initiating features.  There are four (4) files included in this study: Sample Annotation (combined_sample_annotation.txt) Gene expression data from CD44+/CD24- cells sorted by flow cytometry (GSE7513.gct) Human...

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...

Talking Science: Designing and Delivering Successful Oral Presentations

18 Sep 2014 | Downloads | Contributor(s): Shawn Mullen

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...

An ISA-TAB Nano compliant data management system for nanosafety modelling

10 Sep 2014 | Presentations | Contributor(s): Robert Rallo

Dr. Robert RalloAssociate Professor , Universitat Rovira i Virgili, Departament d'Enginyeria Informàtica i MatemàtiquesTarragona, SpainNano WG presentation July 10, 2014[[Image(<Capture.PNG>)]]

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