{"database":"biostudies-literature","file_versions":[],"scores":null,"additional":{"submitter":["Steuernagel B"],"funding":["Biotechnology and Biological Sciences Research Council"],"pagination":["1665-7"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/S-EPMC4426836"],"repository":["biostudies-literature"],"omics_type":["Unknown"],"volume":["31(10)"],"pubmed_abstract":["Motivation
The repetitive nature of plant disease resistance genes encoding for nucleotide-binding leucine-rich repeat (NLR) proteins hampers their prediction with standard gene annotation software. Motif alignment and search tool (MAST) has previously been reported as a tool to support annotation of NLR-encoding genes. However, the decision if a motif combination represents an NLR protein was entirely manual.Results
The NLR-parser pipeline is designed to use the MAST output from six-frame translated amino acid sequences and filters for predefined biologically curated motif compositions. Input reads can be derived from, for example, raw long-read sequencing data or contigs and scaffolds coming from plant genome projects. The output is a tab-separated file with information o"],"journal":["Bioinformatics (Oxford, England)"],"pubmed_title":["NLR-parser: rapid annotation of plant NLR complements."],"pmcid":["PMC4426836"],"funding_grant_id":["BB/L009293/1","BB/H019820/1","BB/M003809/1","BB/J003166/1","BB/L011794/1"],"pubmed_authors":["Jones JD","Wulff BB","Steuernagel B","Jupe F","Witek K"],"additional_accession":[]},"is_claimable":false,"name":"NLR-parser: rapid annotation of plant NLR complements.","description":"Motivation
The repetitive nature of plant disease resistance genes encoding for nucleotide-binding leucine-rich repeat (NLR) proteins hampers their prediction with standard gene annotation software. Motif alignment and search tool (MAST) has previously been reported as a tool to support annotation of NLR-encoding genes. However, the decision if a motif combination represents an NLR protein was entirely manual.Results
The NLR-parser pipeline is designed to use the MAST output from six-frame translated amino acid sequences and filters for predefined biologically curated motif compositions. Input reads can be derived from, for example, raw long-read sequencing data or contigs and scaffolds coming from plant genome projects. The output is a tab-separated file with information o","dates":{"release":"2015-01-01T00:00:00Z","publication":"2015 May","modification":"2026-04-29T07:43:40.242Z","creation":"2026-04-07T15:03:33.147Z"},"accession":"S-EPMC4426836","cross_references":{"pubmed":["25586514"],"doi":["10.1093/bioinformatics/btv005"]}}