Welcome to Compagen!
Compagen is a comparative genomics platform for early branching metazoan animals, maintained in the Bosch Laboratory at the University of Kiel. It stores various raw and processed sequence datasets along the evolutionary tree from sponges and cnidarians up to the tunicates and lower vertebrates.
The idea is to facilitate access and analysis of genomic and transcriptomic data for workgroups that investigate “non-popular” model organisms without sophisticated online analytical resources. The Databases at Compagen contain selected raw genomic and EST sequence datasets available from public domains (NCBI Trace archive, EST). In addition to the public datasets Compagen also provides already processed data like CAP3 assembled ESTs, Unigene collections or predicted peptides.
27th January, 2016 - New Transcriptome and Peptide Predictions for Haliclona amboinensis and Haliclona tubifera They are available in the DataSets and Blast sections:
Authors: Christine Guzman and Cecilia Conaco (cconaco[at]msi.upd.edu.ph). Marine Science Institute, University of the Philippines, College of Science, Diliman, Quezon City, Philippines 1101.
Reference: Guzman, C. and Conaco, C. Comparative transcriptome analysis reveals insights into the streamlined genomes of haplosclerid demosponges. Sci. Rep. 6, 18774; doi: 10.1038/srep18774 (2016).
9th April, 2015 - New DataSets for for Bugula neritina (Transcripts and Protein translations) They are available in the DataSets and Blast sections:
Transcriptome analysis elucidates key developmental components of bryozoan lophophore development (2014) Yue Him Wong; Taewoo Ryu; Loqmane Seridi; [et al.] Nature Publishing Group (NPG). Provided by Taewoo Ryu from the King Abdullah University of Science and Technology (Kingdom of Saudi Arabia).
18th September, 2014 - Minor bugs fixed in data retrieval.
15th January, 2014 - AURELIA PROJECT, the new sub-site of Compagen, is open to public access following publication of the research paper:
Regulation of Polyp-to-Jellyfish Transition in Aurelia aurita
Björn Fuchs, Wei Wang, Simon Graspeuntner, Yizhu Li, Santiago Insua, Eva-Maria Herbst, Philipp Dirksen, Anna-Marei Böhm, Georg Hemmrich, Felix Sommer, Tomislav Domazet-Lošo, Ulrich C. Klostermeier, Friederike Anton-Erxleben, Philip Rosenstiel, Thomas C.G. Bosch, and Konstantin Khalturin
How to use Compagen
DataSets: Sequences in fasta format are available at the DataSets section. The datasets can be viewed or downloaded (.zip compressed) and are classified according to following types:
- EST: Expressed sequence tags (raw reads).
- CAP3: Cap3 assembled sequences.
- T-CDS: Transcript models (contigs) derived from assembled ESTs (Sanger, 454, etc.).
- T-PEP: Predicted peptides from transcriptome assemblies (ESTScan, etc.).
- G-CDS: Transcript models predicted from genome assembly.
- G-PEP: Protein models predicted from genome assembly.
- WGS: Whole genome shotgun (raw reads).
- WGA: Whole genome assembly (contigs / scaffolds).
Blast Server: Perform BLAST search against our DataSets.