ArticleNucleic acids research2011
BAR-PLUS: the Bologna Annotation Resource Plus for functional and structural annotation of protein sequences.
Article in Nucleic acids research, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.
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Who cites it
15 citing papers in PubMed.
- A large-scale assessment of sequence database search tools for homology-based protein function prediction.Briefings in bioinformatics · 2024Article
- Graph2GO: a multi-modal attributed network embedding method for inferring protein functions.GigaScience · 2020Article
- Pseudo2GO: A Graph-Based Deep Learning Method for Pseudogene Function Prediction by Borrowing Information From Coding Genes.Frontiers in genetics · 2020Article
- I-TASSER gateway: A protein structure and function prediction server powered by XSEDE.Future generations computer systems : FGCS · 2019Article
- INGA 2.0: improving protein function prediction for the dark proteome.Nucleic acids research · 2019Article
- Genomic tools for durum wheat breeding: de novo assembly of Svevo transcriptome and SNP discovery in elite germplasm.BMC genomics · 2019Article
- The Bologna Annotation Resource (BAR 3.0): improving protein functional annotation.Nucleic acids research · 2017Article
- LaGomiCs-Lagomorph Genomics Consortium: An International Collaborative Effort for Sequencing the Genomes of an Entire Mammalian Order.The Journal of heredity · 2016Review
- INGA: protein function prediction combining interaction networks, domain assignments and sequence similarity.Nucleic acids research · 2015Article
- Functional prediction of hypothetical proteins in human adenoviruses.Bioinformation · 2015Article
- Genome-wide Membrane Protein Structure Prediction.Current genomics · 2013Article
- Article
- SUS-BAR: a database of pig proteins with statistically validated structural and functional annotation.Database : the journal of biological databases and curation · 2013Article
- How to inherit statistically validated annotation within BAR+ protein clusters.BMC bioinformatics · 2013Article
- The human "magnesome": detecting magnesium binding sites on human proteins.BMC bioinformatics · 2012Article
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6 authors.
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Abstract
We introduce BAR-PLUS (BAR(+)), a web server for functional and structural annotation of protein sequences. BAR(+) is based on a large-scale genome cross comparison and a non-hierarchical clustering procedure characterized by a metric that ensures a reliable transfer of features within clusters. In this version, the method takes advantage of a large-scale pairwise sequence comparison of 13,495,736 protein chains also including 988 complete proteomes. Available sequence annotation is derived from UniProtKB, GO, Pfam and PDB. When PDB templates are present within a cluster (with or without their SCOP classification), profile Hidden Markov Models (HMMs) are computed on the basis of sequence to structure alignment and are cluster-associated (Cluster-HMM). Therefrom, a library of 10,858 HMMs is made available for aligning even distantly related sequences for structural modelling. The server also provides pairwise query sequence-structural target alignments computed from the correspondent Cluster-HMM. BAR(+) in its present version allows three main categories of annotation: PDB [with or without SCOP (*)] and GO and/or Pfam; PDB (*) without GO and/or Pfam; GO and/or Pfam without PDB (*) and no annotation. Each category can further comprise clusters where GO and Pfam functional annotations are or are not statistically significant. BAR(+) is available at http://bar.biocomp.unibo.it/bar2.0.
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