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Latest Article Alert from BMC Bioinformatics (19 March) PDF Print E-mail
Written by Administrator   
Tuesday, 17 March 2009 03:36
BMC Bioinformatics

Article alert

The following new articles have just been published in BMC Bioinformatics

For articles which have only just been published, you will see a 'provisional PDF' corresponding to the accepted manuscript. A fully formatted PDF and full text (HTML) version will be made available soon.

Methodology article
Kerfdr: a semi-parametric kernel-based approach to local false discovery rate estimation
Guedj M, Robin S, Celisse A, Nuel G
BMC Bioinformatics 2009, 10:84 (16 March 2009)
[Abstract] [Provisional PDF]
Automics: an integrated platform for NMR-based metabonomics spectral processing and data analysis
Wang T, Shao K, Chu Q, Ren Y, Mu Y, Qu L, He J, Jin C, Xia B
BMC Bioinformatics 2009, 10:83 (16 March 2009)
[Abstract] [Provisional PDF]
Software: JProfileGrid for visualizing large multiple sequence alignments PDF Print E-mail
Written by Sebastian Bassi   
Monday, 16 March 2009 18:48
Comparative nanoanatomy and phylogenetic studies of macromolecules depend upon multiple sequence alignments (MSAs). However, large data sets are no longer manageable for visualization and investigation using the traditional stacked sequence alignment representation.

We introduce ProfileGrids that represent a MSA as a matrix color-coded according to the residue frequency occurring at each column position. JProfileGrid is a Java application for computing and analyzing ProfileGrids. A dynamic interaction with the alignment information is achieved by changing the ProfileGrid color scheme, by extracting sequence subsets at selected residues of interest, and by relating alignment information to residue physical properties. Conserved family motifs can be identified by the overlay of similarity plot calculations on a ProfileGrid. Figures suitable for publication can be generated from the saved spreadsheet output of the colored matrices as well as by the export of conservation information for use in the PyMOL molecular visualization program.
2009 GMOD Summer Schools - Americas and Europe PDF Print E-mail
Written by Administrator   
Monday, 16 March 2009 18:14

GMOD is offering two Summer Schools in 2009, one on each side of theAtlantic. GMOD Summer Schools (http://gmod.org/wiki/GMOD_Summer_School) introduce new GMOD users tothe GMOD project and include several days of hands-on training on how to install, configure and administer GMOD tools.  The 2008 GMOD SummerSchool was a great success with 25 students from 4 countries in attendance.

Americas, 16-19 July
- at the National Evolutionary Synthesis Center (NESCent), Durham, NC, USA
- Student tuition is free, thanks to NIH grant 1R01HG004483-01.
 - http://gmod.org/wiki/2009_GMOD_Summer_School_-_Americas

Europe, 3-6 August
 - at the University of Oxford, Oxford, United Kingdom
 - Part of GMOD Europe 2009, which includes the next GMOD Meeting
 - Student tuition is £75
 - http://gmod.org/wiki/2009_GMOD_Summer_School_-_Europe

The schools will feature training on these GMOD components:

NCBO Seminar Series - Meeting Info for Wed, March 18! PDF Print E-mail
Written by Administrator   
Monday, 16 March 2009 18:25
The National Center for Biomedical Ontology is pleased to announce its next online Seminar Series, Wednesday, March 18th at 10am PST. Please note there will not be a VOIP option, and attendees must call into the teleconference.

This series aims to showcase new projects, technologies and ideas in biomedical ontology by featuring the work of a different collaborator each session. It is a webinar held online, and as such is open to anyone interested, regardless of location or affiliation.

Below is Information on how to join next week’s online meeting and accompanying teleconference. The seminar will be presented by Kei Cheung, Associate Professor at the Yale Center for Medical informatics. The title of the presentation will be “WikiNeuron: Semantic Wiki of Collective Minds in Neuroscience”.

For a schedule of 2009 presentations through June, or for more information about the series, please visit the Seminar Series home page: http://www.bioontology.org/seminar_series.html. Information on how to join this week’s webinar is given below. To receive information on or to join any future meetings, please contact me at This e-mail address is being protected from spambots. You need JavaScript enabled to view it .

Support Analyst, Pearl River NY PDF Print E-mail
Written by Administrator   
Monday, 16 March 2009 18:11

Support Analyst, Pearl River NY for long term contract

The Support Analyst is expected to provide Tier 2 support for the Production NextGen application, including the D360 client and the IDR warehouse. The Support Analyst will resolve client issues directly or in collaboration with the rest of the NextGen support team and provide one-on-one, WebEx, or classroom end-user training. The Support Analyst will also be expected to execute test scripts to validate system functionality as directed by the Senior Support Analyst.
Formal education or experience in Chemistry or Biology is preferred. Experience with Tripos D360 and/or IDBS Activity Base is desirable


Taresa Marlow
Sales Assistant at ScFoster



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