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Oligo Microarray Database (OMAD), GenBank, Alternative Splicing Database, Ensembl, Genome KnowledgeBase

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Qiagen has released new features for its Oligo Microarray Database (OMAD), a relational database containing information and annotation about the company’s Array-Ready oligo sets. A Gene Ontology search, a Drosophila genome oligo set V1 search, and a GenBank-to-UniGene converter are now available through Qiagen’s OMAD website: http://oligos.qiagen.com/arrays/omad.php.

GenBank Release 134.0 is now available from the NCBI at ftp.ncbi.nih.gov. Release 134.0 contains 29,358,082,791 base pairs and 23,035,823 entries, up by 850 million base pairs and by 716,940 sequence records from the December 133.0 release. Uncompressed, the 134.0 flat files require about 96.94 GB for the sequence files only. The ASN.1 version requires around 86.36 GB.

The European Bioinformatics Institute has released an Alternative Splicing Database at www.ebi.ac.uk/asd/index.html. Two separate databases are currently available: AltExtron, a computer-generated set of alternatively spliced human genes and their properties; and AEdb, a manually curated set.

In other EBI news, Ensembl has launched a new website for viewing genomes that are in the process of being annotated at http://pre.ensembl.org. The first data on the new site is the new NCBI mouse assembly (m30).

An initial version of a joint EBI/Cold Spring Harbor Laboratory/GO Consortium project called the Genome KnowledgeBase is now available at www.genomeknowledge.org. The database contains curated information on core biological pathways.

John Wiley and Sons has issued a new bioinformatics book: Structural Bioinformatics, by Philip Bourne of the

University of San Diego

and Helge Weissig of ActivX Biosciences. An upcoming book, Bioinformatics for Geneticists, by Michael Barnes of the Regenstrief Institute and Ian Gray of Michigan State University, will be available in April.

Filed under

The Scan

Self-Reported Hearing Loss in Older Adults Begins Very Early in Life, Study Says

A JAMA Otolaryngology — Head & Neck Surgery study says polygenic risk scores associated with hearing loss in older adults is also associated with hearing decline in younger groups.

Genome-Wide Analysis Sheds Light on Genetics of ADHD

A genome-wide association study meta-analysis of attention-deficit hyperactivity disorder appearing in Nature Genetics links 76 genes to risk of having the disorder.

MicroRNA Cotargeting Linked to Lupus

A mouse-based study appearing in BMC Biology implicates two microRNAs with overlapping target sites in lupus.

Enzyme Involved in Lipid Metabolism Linked to Mutational Signatures

In Nature Genetics, a Wellcome Sanger Institute-led team found that APOBEC1 may contribute to the development of the SBS2 and SBS13 mutational signatures in the small intestine.