The GyDB collection is a non-redundant database of manually refined multiple alignments, hidden markov model profiles, and majority-rule consensus sequences
based on all currently known protein domains of the distinct mobile genetic elements and related host genes classified at GyDB.Alignments are available in six formats: Fasta, Pir, Msf, Stockholm, Clustal and Phylip. Hidden markov model profiles and
majority-rule consensus (MRC) sequences were constructed based on each protein domain consensus accepted per monophyletic
group of LTR retroelements and protein domain. The collection is divided in three sections as follows: If you want to download the whole GyDB collection, click here. Citation: LLORENS, C., MUNOZ-POMER, A., FUTAMI, R., and MOYA, A. The GyDB Collection of Viral and Mobile Genetic Element Models In Biotechvana Bioinformatics 2008, Biotechvana, Valencia. Computational Resources: GyDB collection |
Llorens, C., Futami, R., Covelli, L., Dominguez-Escriba, L., Viu, J.M., Tamarit, D., Aguilar-Rodriguez, J. Vicente-Ripolles, M., Fuster, G., Bernet, G.P., Maumus, F., Munoz-Pomer, A., Sempere, J.M., LaTorre, A., Moya, A. (2011) The Gypsy Database (GyDB) of Mobile Genetic Elements: Release 2.0 Nucleic Acids Research (NARESE) 39 (suppl 1): D70-D74 doi: 10.1093/nar/gkq1061