Bioinformatics initiatives, software and databases
The Bio-Eye section of the "BioInformer" aims to keep you informed of new initiatives and technologies as well as the more "mundane" announcements of new software and database releases. These are not necessarily EMBL-EBI's, but news about the above topics is welcome from every person or organisation working in the field of bioinformatics.
You are welcome to send announcements to email@example.com
MRC Career opportunities in bioinformatics and neuroinformatics
The Medical Research Council offers grants for PhD Studentships, Advanced Course Studentships, and Special Training Fellowhips in the area of bioinformatics and neuroinformatics.
Armchair evolution: bioinformatics helps to redraw the family tree of life
Using bioinformatics methods researchers from the EBI show that, contrary to popular belief, Archaea and Eukaryotes do not descend from Bacteria, but Eukaryotes and Bacteria descend from Archaea.
A general purpose application wrapper based on CORBA and Java, with a focus on sequence analysis tools in bioinformatics.
The GenomeBuilder is a Java tool designed to visualise and further process EST and high-throughput genomic sequence assemblies. It can, for example, be used to build consensus contigs. The tool uses CORBA to integrate and access the different databases and computing resources
A new release of the WWW interface to the GCG Sequence Analysis Software Package. W2H tries to cover as much functionality as possible, and to do it very user friendly . It gives you the opportunity to access more than hundred programs from any platform where Netscape runs.
The BioCatalog is a software directory of general interest in molecular biology and genetics. This release contains 588 molecular biology software programs.
The release contains in this release 3,952,878 sequence entries comprising 2,924,568,545 nucleotides. This represents an increase of about 47% over Release 56.
Gene prediction dataset
The EBI has created clean and non-redundant data sets conforming to formal standards for genes from Homo sapiens (219 gene entries), Mus musculus (110 gene entries), Drosophila melanogaster (127 gene entries), C. elegans (89 gene entries), and Arabidopsis thaliana (132 gene entries). These datasets can be used to train and test gene prediction algorithms. See the end of the article.
RHdb is a database of raw data used in constructing radiation hybrid maps. This includes STS data, scores, experimental conditions, and extensive cross references. This release ontains 13 panel entries, 158 experimental conditions, 92 maps and 105173 RH entries for 3 different species (human, rat, and mouse).
TrEMBL is the protein sequence database supplementing the SWISS-PROT Protein Sequence Data Bank. TrEMBL contains the translations of all coding sequences (CDS) present in the EMBL Nucleotide Sequence Database not yet integrated in SWISS-PROT. TrEMBL 11, generated from EMBL 59, ontains 245'761 sequence entries, comprising 56'545'670 amino acids.