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Pfam is a database of protein families that includes their annotations and multiple sequence alignments generated using hidden Markov models. [ 1 ] [ 2 ] [ 3 ] The latest version of Pfam, 37.0, was released in June 2024 and contains 21,979 families. [ 4 ]
The Mendeley research catalog is a crowdsourced database of research documents. Researchers have uploaded nearly 100M documents into the catalog with additional contributions coming directly from subject repositories like Pubmed Central and Arxiv.org or web crawls. Free Mendeley [98] Merck Index: Chemistry, biology, pharmacology: Also available ...
A subject based repository with a high share of working papers (preprints) >100,000 2009 ZBW - Leibniz Information Centre for Economics: ECSarXiv: Electrochemistry: A free preprint service for electrochemistry and solid state science and technology >100 2018 Center for Open Science: EdArXiv: Education: A Preprint Server For The Education ...
Stockholm format is a multiple sequence alignment format used by Pfam, Rfam and Dfam, to disseminate protein, RNA and DNA sequence alignments. [1] [2] [3] The alignment editors Ralee, [4] Belvu and Jalview support Stockholm format as do the probabilistic database search tools, Infernal and HMMER, and the phylogenetic analysis tool Xrate.
Several biological databases document protein superfamilies and protein folds, for example: Pfam - Protein families database of alignments and HMMs; PROSITE - Database of protein domains, families and functional sites; PIRSF - SuperFamily Classification System; PASS2 - Protein Alignment as Structural Superfamilies v2
TIGRFAMs is a database of protein families designed to support manual and automated genome annotation. [1] [2] [3] Each entry includes a multiple sequence alignment and hidden Markov model (HMM) built from the alignment. Sequences that score above the defined cutoffs of a given TIGRFAMs HMM are assigned to that protein family and may be ...
Zenodo is a general-purpose open repository developed under the European OpenAIRE program and operated by CERN. [1] [2] [3] It allows researchers to deposit research papers, data sets, research software, reports, and any other research related digital artefacts.
InterPro functionally analyzes protein sequences and classifies them into protein families while predicting the presence of domains and functional sites. Contact; Research center: EMBL: Laboratory: European Bioinformatics Institute: Primary citation: The InterPro protein families and domains database: 20 years on [1] Release date: 1999: Access ...