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Proper citation: University of Strasbourg; Strasbourg; France (RRID:SCR_011704) Copy
http://www-bio3d-igbmc.u-strasbg.fr/ICDS/
Database of interrupted coding sequences detected by a similarity-based approach in complete prokaryotic genomes. The definition of each interrupted gene is provided as well as the ICDS genomic localization with the surrounding sequence. To facilitate the experimental characterization of ICDS, optimized primers are proposed for re-sequencing purposes. The database is accessible by BLAST search or by genome. 118 Genomes are available in the database.
Proper citation: Interrupted CoDing Sequence Database (RRID:SCR_002949) Copy
A collection of high quality multiple sequence alignments for objective, comparative studies of alignment algorithms. The alignments are constructed based on 3D structure superposition and manually refined to ensure alignment of important functional residues. A number of subsets are defined covering many of the most important problems encountered when aligning real sets of proteins. It is specifically designed to serve as an evaluation resource to address all the problems encountered when aligning complete sequences. The first release provided sets of reference alignments dealing with the problems of high variability, unequal repartition and large N/C-terminal extensions and internal insertions. Version 2.0 of the database incorporates three new reference sets of alignments containing structural repeats, trans-membrane sequences and circular permutations to evaluate the accuracy of detection/prediction and alignment of these complex sequences.
Within the resource, users can look at a list of all the alignments, download the whole database by ftp, get the "c" program to compare a test alignment with the BAliBASE reference (The source code for the program is freely available), or look at the results of a comparison study of several multiple alignment programs, using BAliBASE reference sets.
Proper citation: BAliBASE (RRID:SCR_001940) Copy
http://www-math.u-strasbg.fr/genpred/spip.php?article3
R software package to study, predict and simulate the diffusion of a signal through a temporal gene network. It predicts changes in gene expressions after a biological perturbation in the network and provides graphical outputs that allow monitoring the spread of a signal through the network., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025.
Proper citation: Cascade (RRID:SCR_005861) Copy
http://eumorphia.publicwebserver3.har.mrc.ac.uk/
A portal documenting a project for the development of novel approaches in phenotyping, mutagenesis and informatics to improve the characterization of mouse models for understanding human molecular physiology and pathology. EUMORPHIA has developed a new robust primary screening platform for determining the phenotype of mice: EMPReSS - European Mouse Phenotyping Resource for Standardised Screens. The project is also focused on training new young scientists by funding them to work in a variety of laboratories to gain a broader swathe of techniques. The project has also identified the need for more trained mouse pathologists. To address this, they are setting up training courses in pathology and working at a European level to establish more training.
Proper citation: Understanding Human Disease Through Mouse Genetics (RRID:SCR_000785) Copy
http://trnadb.bioinf.uni-leipzig.de
tRNAdb 2009 provides a powerful and fast search engine. Taxons can be identified by browsing the taxonomic tree or by using the search form. Queries can include DNA or RNA sequences, amino acid family, anticodon, references, Pubmed-ID of the reference, gene ID as well as comments. In addition, individual searches concerning sequence or structure characteristics are possible. The server accepts IDs of the new as well as the old tRNA database as queries and can perform BLAST searches. All sequences can be downloaded in several file- and alignment formats on the result list. This site is hosted and maintained in a cooperation between the universities of Leipzig (Germany), Marburg (Germany) and Strasbourg (France). Recent Visitors
Proper citation: Transfer RNA database (RRID:SCR_008636) Copy
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