Tag Archives: genomics

PubMed bibliographic records are enhanced by Images from NCBI

Posted on by

“The PubMed Abstract dis­play for PubMed Cen­tral® arti­cles will be enhanced to include an image strip gen­er­ated from the soon-to-be-released National Cen­ter for Biotech­nol­ogy Infor­ma­tion (NCBI) Images data­base.”  To see an exam­ple, click on the linked arti­cle below:

 

Canese K. PubMed® Dis­play Enhanced with Images from the New NCBI Images Data­base. NLM Tech Bull. 2010 Sep-Oct;(376):e14.

Database of Genomic Structural Variation (dbVar)

Posted on by

 

From NIH News: “The National Insti­tutes of Health today announces the launch of a new resource, called the Data­base of Genomic Struc­tural Vari­a­tion, or dbVar, to help sci­en­tists under­stand how dif­fer­ences in DNA con­tribute to human health and dis­ease.”.

Thanks to Tara Cal­ishain and her newslet­ter, Research­Buzz, Octo­ber 4, 2010

Indiana Univ. to use cloud computing in life science research

Posted on by

From today’s Fierce­biotech News, Fierce­Biotech IT [editors@fiercebiotechit.com]

By George Miller
“… Indi­ana Uni­ver­sity is spend­ing $1.5 mil­lion from the National Insti­tutes of Health on…high-end com­put­ing dis­cov­ery tools. The Hoosiers’ Per­va­sive Tech­nol­ogy Insti­tute Dig­i­tal Sci­ence Cen­ter is tar­get­ing cloud com­put­ing to sup­port life sci­ence research.
In addi­tion to bust­ing com­put­ing bot­tle­necks, the cen­ter plans to use the cloud for ana­lyz­ing sequenc­ing data, the vol­ume of which is “one to two orders of mag­ni­tude larger than pos­si­ble with cur­rent com­pu­ta­tional capa­bil­i­ties,” accord­ing to an indus­try arti­cle. Ama­zon Web Ser­vices, Microsoft Azure, and other open source soft­ware are expected to be part of the installation.
The center’s research team will part­ner with IU life sci­ence research teams to test the plat­form in such research areas as sequence assem­bly and pop­u­la­tion genomics. Cloud tech­nolo­gies will also be applied to gene fam­ily clus­ter­ing and struc­tural visualization.
The IU work is also sup­ported by the National Sci­ence Foun­da­tion via its Future­Grid exper­i­men­tal super­com­put­ing net­work project.”
- see the arti­cle

There are other inter­est­ing sto­ries too:

Pitt hits com­put­ing jack­pot
Hoosiers tap cloud for sequenc­ing
Nano, in vivo 3D gains for imag­ing
Remote imager to pro­vide dis­ease data

 click here to read it on the web.. or here:

http://www.uptilt.com/functions/message_view.html?mid=2164839&mlid=125589&siteid=8121&uid=4a81392a19

OpenHelix — resources portal for genomics research

Posted on by

Open­Helix Resource Newslet­ter today pro­claims the launch of an open access search and learn por­tal: openhelix.com web site to help researchers find the most rel­e­vant of the thou­sands of data­bases and analy­sis tools.

From their “About’ page:

Open­Helix allows “More effi­cient use of the most rel­e­vant resources means quicker and more effec­tive research. Open­Helix empow­ers researchers by
  • pro­vid­ing a search por­tal to find the most rel­e­vant genomics resource and train­ing on those resources.
  • dis­trib­ut­ing exten­sive and effec­tive tuto­ri­als and train­ing mate­ri­als on the most pow­er­ful and pop­u­lar genomics resourcs.
  • con­tract­ing with resource providers to pro­vide com­pre­hen­sive, long-term train­ing and out­reach programs.”

There is a blog.  There is a newslet­ter to which one is free to subscribe.

Nature’s “Omics Gateway”

Posted on by


“The Omics Gate­way: Mak­ing sense of large data

With a new look and improved func­tion­al­ity, the Omics Gate­way just made it eas­ier to keep up with the lat­est devel­op­ments in large-scale and high-throughput stud­ies. The Omics Gate­way gives you access and updates to the most impor­tant papers in data-driven bio­log­i­cal research, as well as free access to high­light arti­cles — all in one com­pre­hen­sive site. We’ve com­piled all the infor­ma­tion and made it eas­ier for you to browse by sub­ject or by organ­isms with our vir­tual “Tree of life”.

Visit the Omics Gate­way today!”

Source: the August Life Sci­ence Update from Nature Pub­lish­ing Group

BioData Mining — New Open Access Journal by BioMed Central

Posted on by

“Open access pub­lisher Bio­Med Cen­tral, US, has announced the launch of a new open access jour­nal — Bio­Data Min­ing. Dr Jesus Aguilar-Ruiz of the Pablo De Ola­vide Uni­ver­sity and Dr Jason H. Moore of the Dart­mouth Med­ical School will serve as Editors-in-Chief of the jour­nal. They will be sup­ported by an expert Edi­to­r­ial Board.

Bio­Data Min­ing pub­lishes orig­i­nal arti­cles on all aspects of data min­ing applied to high-dimensional bio­log­i­cal and bio­med­ical data, focus­ing on com­pu­ta­tional aspects of knowl­edge dis­cov­ery from large-scale genetic, tran­scrip­tomic, genomic, pro­teomic, and metabolomic data. As well as being open access, the jour­nal also oper­ates an open peer review process, which the edi­tors hope will fos­ter con­struc­tive reviews and there­fore enrich the criticism.

All Bio­Data Min­ing arti­cles are archived in PubMed Cen­tral, the US National Library of Medicine’s full-text repos­i­tory of life sci­ence lit­er­a­ture, and also in repos­i­to­ries at the Uni­ver­sity of Pots­dam in Ger­many, at INIST in France and in e-Depot, the National Library of the Nether­lands’ dig­i­tal archive of all elec­tronic pub­li­ca­tions. The jour­nal is also par­tic­i­pat­ing in the British Library’s e-journals pilot project, and plans to deposit copies of all arti­cles with the British Library.”

Source:  Knowl­edge­s­peak Newslet­ter (7/22/08)