Navigation Links
Researchers announce GenomeSpace environment to connect genomic tools
Date:4/25/2012

Researchers from the Broad Institute of MIT and Harvard have announced that GenomeSpace, a software environment that seamlessly connects genomic analysis tools, is now available to the scientific community. During her keynote address at Bio-IT World Conference and Expo on Tuesday, Jill Mesirov, director of computational biology and bioinformatics at the Broad Institute, invited biomedical researchers and tool developers to explore this beta release of the new resource and to use it in their work.

Currently, in order to make use of multiple analysis tools and data sources, biologists need to convert between the different data formats they use. This often involves error-prone spreadsheet manipulations or requires programming skills to write scripts. Mesirov's team and her collaborators set out to change that.

"Our goal is to bring the ever-changing wealth of genomic analysis methods and whatever data are required to the fingertips of any biologist," said Mesirov.

The GenomeSpace environment currently connects six tools: GenePattern, Galaxy, Integrative Genomics Viewer (IGV), Cytoscape, Genomica, and the UCSC Genome Browser. Many projects in genomic research rely on one or more of these tools. For instance, if researchers want to test a hypothesis about genetic differences between two stages of breast cancer, they might first use an analytical tool such as GenePattern to detect genes of interest; then IGV to view their genetic sequence; and then Cytoscape to see protein-protein interactions. GenomeSpace allows them to seamlessly transition between all of these tools to carry a project through to completion.

But GenomeSpace can also be used for smaller inquiries or simple conversions from one tool to another. GenomeSpace's designers worked closely with scientists from the Broad Institute and beyond to determine many kinds of scientific problems for which GenomeSpace could be used. "We strove to identify a range of critical biol
'/>"/>

Contact: Haley Bridger
hbridger@broadinstitute.org
617-714-7968
Broad Institute of MIT and Harvard
Source:Eurekalert

Page: 1 2 3

Related biology news :

1. Evidence shows that anti-depressants likely do more harm than good, researchers find
2. Johns Hopkins researchers uncover genes at fault for cystic fibrosis-related intestinal obstruction
3. Researchers find mechanism that gives plants balance
4. Climate change may create price volatility in the corn market, say Stanford and Purdue researchers
5. NCEAS researchers offer new ecological model for deep-water oil spills
6. Southampton researchers lead 2 international projects to help people out of poverty
7. Researchers across North America team up to find genetic markers for autism
8. UCSB researchers discover particularly dangerous Salmonella
9. Researchers discover non-surgical test for brain cancer
10. Researchers have identified a gene with a key role in neuronal survival
11. BUSM researchers identify genes that influence hippocampal volume
Post Your Comments:
*Name:
*Comment:
*Email:
(Date:7/31/2014)... (HPV-023; NCT00518336) shows the sustained efficacy, immunogenicity ... (HPV) vaccine Cervarix. Women vaccinated with the ... than nine years, and vaccine efficacy (VE) ... the longest follow-up report for a licensed ... the full paper. , HPV and ...
(Date:7/31/2014)... news release is available in German . ... can take up gases similar to a sponge that ... suited for storing hydrogen or greenhouse gases. However, loading ... Karlsruhe Institute of Technology (KIT) now report in ... cor-rosion of the MOF surface. This can be prevented ...
(Date:7/31/2014)... photovoltaic effect in 1839, humankind has sought to further ... own purposes. In a new research report published in ... Journal , scientists may have uncovered a new ... on a naturally occurring combination of lipids that have ... time and across speciessuggests that this specific natural combination ...
Breaking Biology News(10 mins):Sustained efficacy, immunogenicity, and safety for GlaxoSmithKline's HPV vaccine 2Sustained efficacy, immunogenicity, and safety for GlaxoSmithKline's HPV vaccine 3Free pores for molecule transport 2Scientists shine bright new light on how living things capture energy from the sun 2
... UCSD scientists have gained a better understanding of how ... make them healthy and resistant to vascular diseases. , ... size of a credit card to gain a better ... line arteries can make them healthy and resistant to ...
... announced that its researchers in collaboration with the Delaware ... most comprehensive analysis to date of the small RNA ... Small RNA Component of the Transcriptome," was published in ... Science. Solexa's assay can be used to elucidate small ...
... researchers have developed a customized gene chip to rapidly ... clues to prognosis in cases of neuroblastoma, a common ... genome, the microarray focuses on suspect regions of chromosomes ... a role in the cancer. , The investigators, from ...
Cached Biology News:Researchers learn how blood vessel cells cope with their pressure-packed job 2Researchers learn how blood vessel cells cope with their pressure-packed job 3Solexa and collaborating scientists illuminate the small RNA component of the transcriptome 2Customized gene chip provides rapid detection of genetic changes in children's cancer 2Customized gene chip provides rapid detection of genetic changes in children's cancer 3
(Date:7/31/2014)... for a number of breakthroughs, which altered the course ... paper, which laid the foundation of computer science, providing ... next played a pivotal role in the Second World ... codes, enabling the Allies to defeat the Nazis in ... turned his attention to artificial intelligence and proposed a ...
(Date:7/31/2014)... COLORADO SPRINGS, Colo. , July 31, 2014 ... Seed Grant awardee today with $25,000 to fund ... the Foundation,s inception in 2011, the gift was ... 11 th Annual Meeting in ... physicians who specialize in neurointerventional approaches to neurovascular ...
(Date:7/31/2014)... (PRWEB) July 31, 2014 North Shore Towers, ... City, partnered with GI Energy, one of the nation’s leading ... $13 million upgrade of its 43-year-old CHP system. The original ... in an effort to extend the life of the plant, ... and associated electrical and heat recovery equipment, while maintaining continuous ...
(Date:7/31/2014)... 31, 2014 Senomyx , Inc. ... using proprietary taste science technologies to discover, develop, ... beverage, and ingredient supply industries, today reported financial ... ended the second quarter with $33.6 million in ... "During the past quarter Senomyx achieved another important ...
Breaking Biology Technology:A mathematical theory proposed by Alan Turing in 1952 can explain the formation of fingers 2A mathematical theory proposed by Alan Turing in 1952 can explain the formation of fingers 3SNIS Foundation Bestows First Grant Award For Cutting-Edge NeuroInterventional Research 2SNIS Foundation Bestows First Grant Award For Cutting-Edge NeuroInterventional Research 3North Shore Towers Partners with GI Energy to Install Turnkey Natural Gas-Fired Combined Heat and Power Plant 2SENOMYX ANNOUNCES CORPORATE UPDATE AND SECOND QUARTER 2014 FINANCIAL RESULTS 2SENOMYX ANNOUNCES CORPORATE UPDATE AND SECOND QUARTER 2014 FINANCIAL RESULTS 3SENOMYX ANNOUNCES CORPORATE UPDATE AND SECOND QUARTER 2014 FINANCIAL RESULTS 4SENOMYX ANNOUNCES CORPORATE UPDATE AND SECOND QUARTER 2014 FINANCIAL RESULTS 5SENOMYX ANNOUNCES CORPORATE UPDATE AND SECOND QUARTER 2014 FINANCIAL RESULTS 6SENOMYX ANNOUNCES CORPORATE UPDATE AND SECOND QUARTER 2014 FINANCIAL RESULTS 7SENOMYX ANNOUNCES CORPORATE UPDATE AND SECOND QUARTER 2014 FINANCIAL RESULTS 8SENOMYX ANNOUNCES CORPORATE UPDATE AND SECOND QUARTER 2014 FINANCIAL RESULTS 9SENOMYX ANNOUNCES CORPORATE UPDATE AND SECOND QUARTER 2014 FINANCIAL RESULTS 10SENOMYX ANNOUNCES CORPORATE UPDATE AND SECOND QUARTER 2014 FINANCIAL RESULTS 11SENOMYX ANNOUNCES CORPORATE UPDATE AND SECOND QUARTER 2014 FINANCIAL RESULTS 12SENOMYX ANNOUNCES CORPORATE UPDATE AND SECOND QUARTER 2014 FINANCIAL RESULTS 13SENOMYX ANNOUNCES CORPORATE UPDATE AND SECOND QUARTER 2014 FINANCIAL RESULTS 14SENOMYX ANNOUNCES CORPORATE UPDATE AND SECOND QUARTER 2014 FINANCIAL RESULTS 15SENOMYX ANNOUNCES CORPORATE UPDATE AND SECOND QUARTER 2014 FINANCIAL RESULTS 16
... , Introduction , ... pH-sensitive cyanine dye that is non-fluorescent at pH 7.4 and maximally ... internalization of cell surface receptors via acidic endosomal vesicles upon agonist ... the assay, the receptor can be epitope-tagged and an antibody recognizing ...
... , ... • fluorescent Western blotting • multiplex detection • dynamic range, ... The Ettan™ DIGE Imager is fully compatible with the ECL ... range as the Typhoon™ scanner. Similar results are also obtained with ...
... , , , ... toxicology • image analysis • IN Cell Analyzer, ... induction is a key characteristic of genotoxic compounds and analysis of ... chromosome segregation (aneugens) is an important component of toxicology screening of ...
Cached Biology Technology:The use of CypHer5 for receptor internalization studies in both a range of GPCRs and a non-GPCR 2The use of CypHer5 for receptor internalization studies in both a range of GPCRs and a non-GPCR 3The use of CypHer5 for receptor internalization studies in both a range of GPCRs and a non-GPCR 4The use of CypHer5 for receptor internalization studies in both a range of GPCRs and a non-GPCR 5The use of CypHer5 for receptor internalization studies in both a range of GPCRs and a non-GPCR 6Multiplex protein detection with the ECL Plex fluorescent Western blotting system using the Ettan DIGE Imager 2Multiplex protein detection with the ECL Plex fluorescent Western blotting system using the Ettan DIGE Imager 3Multiplex protein detection with the ECL Plex fluorescent Western blotting system using the Ettan DIGE Imager 4Multiplex protein detection with the ECL Plex fluorescent Western blotting system using the Ettan DIGE Imager 5Multiplex protein detection with the ECL Plex fluorescent Western blotting system using the Ettan DIGE Imager 6Multiplex protein detection with the ECL Plex fluorescent Western blotting system using the Ettan DIGE Imager 7Multiplex protein detection with the ECL Plex fluorescent Western blotting system using the Ettan DIGE Imager 8Analysis of in vitro micronucleus assays using the IN Cell Analyzer 3000 Micronuclei Formation Analysis Module 2Analysis of in vitro micronucleus assays using the IN Cell Analyzer 3000 Micronuclei Formation Analysis Module 3Analysis of in vitro micronucleus assays using the IN Cell Analyzer 3000 Micronuclei Formation Analysis Module 4Analysis of in vitro micronucleus assays using the IN Cell Analyzer 3000 Micronuclei Formation Analysis Module 5
Thermo Forma provides an array of accessory Racks for the Cryo/CryoPlus 16" Diameter storage system. To maximise inventory capacity a Jumbo Arrowhead configuration is recommended. You may choose betw...
Immulon 1 B 1x12 Strip, flat bottom; consistent medium binding affinity for hydrophobic complexes and proteins....
The Holten Horizontal series of laminar airflow work benches offers comfort and ease of use....
The 891 45° Fixed Angle Rotor is designed to provide aerosol containment and can be removed from a centrifuge (seal entact) and opened under an environmental hood....
Biology Products: