DigestedProteinDBDigestedProteinDB provides a scalable computational infrastructure for indexing and querying peptide cleavage data. Designed for seamless integration into high-throughput mass spectrometry pipelines, it enables low-latency searches and advanced filtering of digested protein datasets to accelerate experimental spectra cross-referencing.https://digestedproteindb.pbf.hrdigestedproteindbbiotools:digestedproteindbDatabase portalhttp://edamontology.org/topic_0121ProteomicsVIGORGene prediction program for small viral genomes in support of high throughput feature prediction and annotation. Identified genome-specific features include frame shifts, ribosomal slippage, RNA editing, stop codon read-through, overlapping genes, embedded genes, and mature peptide cleavage sites.http://www.jcvi.org/vigorvigorbiotools:vigorWeb applicationhttp://edamontology.org/topic_0781Virologyhttp://edamontology.org/topic_3512Gene transcriptshttp://edamontology.org/topic_0114Gene structurehttp://edamontology.org/topic_0203Gene expressionWindowshttp://edamontology.org/operation_3663Homology-based gene predictionhttp://edamontology.org/operation_2454Gene predictionhttp://edamontology.org/operation_0436Coding region predictionhttp://edamontology.org/operation_3092Protein feature detectionhttp://www.jcvi.org/vigor/howto.phpGeneral10.1093/nar/gks52822669909PMC3394299Supportshiliang@jcvi.orgPersonPrimary contactSignalPPrediction of the presence and location of signal peptide cleavage sites in amino acid sequences from different organisms.http://cbs.dtu.dk/services/SignalP/signalpbiotools:signalp4.1rrid:SCR_015644rridCommand-line toolWeb applicationhttp://edamontology.org/topic_3510Protein sites, features and motifsLinuxMacOtherCBSMatureFree of charge (with restrictions)http://edamontology.org/operation_0418Protein signal peptide detectionhttp://edamontology.org/operation_0422Protein cleavage site predictionhttp://edamontology.org/data_2044Sequencehttp://edamontology.org/format_1929FASTA

http://edamontology.org/data_1277Protein featureshttp://edamontology.org/format_2305GFF

http://edamontology.org/data_2955Sequence report

predicts the presence and location of signal peptide cleavage sites in amino acid sequences from different organismshttp://www.cbs.dtu.dk/cgi-bin/sw_request?signalpRepositoryhttp://www.cbs.dtu.dk/cgi-bin/sw_request?signalpSource codehttp://www.cbs.dtu.dk/cgi-bin/sw_request?signalpBinarieshttp://www.cbs.dtu.dk/services/SignalPGeneral10.1038/nmeth.170121959131PrimaryTN PetersenPersonDeveloperCBSInstituteProviderHenrik Nielsenhnielsen@cbs.dtu.dkhttp://orcid.org/0000-0002-9412-9643DeveloperHenrik Nielsenhnielsen@cbs.dtu.dkhttp://orcid.org/0000-0002-9412-9643PersonPrimary contactTatPPrediction of the presence and location of Twin-arginine signal peptide cleavage sites in bacteria.http://cbs.dtu.dk/services/TatP/tatpbiotools:tatp1.0Web applicationWeb servicehttp://edamontology.org/topic_0160Sequence sites, features and motifsLinuxOtherEmergingFree of charge (with restrictions)http://edamontology.org/operation_0418Protein signal peptide detectionhttp://edamontology.org/operation_0422Protein cleavage site predictionhttp://edamontology.org/data_2044Sequencehttp://edamontology.org/format_1929FASTA

http://edamontology.org/data_2955Sequence reporthttp://edamontology.org/format_2333Binary format

predicts the presence and location of Twin-arginine signal peptide cleavage sites in bacteria. Signal peptide/non-signal peptide prediction based on a combination of two artificial neural networkshttp://cbs.dtu.dk/servicesSoftware cataloguehttp://www.cbs.dtu.dk/services/TatP/instructions.phpGeneral10.1186/1471-2105-6-16715992409PMC1182353PrimaryCBSInstituteProviderHenrik Nielsenhnielsen@cbs.dtu.dkhttp://orcid.org/0000-0002-9412-9643PersonPrimary contact