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Sequence-based feature prediction and annotation of proteins.
Genome Biol. 2009 Feb 2;10(2):206. doi: 10.1186/gb-2009-10-2-206.
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Analysis of the human kinome using methods including fold recognition reveals two novel kinases.
PLoS One. 2008 Feb 13;3(2):e1597. doi: 10.1371/journal.pone.0001597.
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A summary of computational resources for protein phosphorylation.
Curr Protein Pept Sci. 2010 Sep;11(6):485-96. doi: 10.2174/138920310791824138.
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GPS 2.1: enhanced prediction of kinase-specific phosphorylation sites with an algorithm of motif length selection.
Protein Eng Des Sel. 2011 Mar;24(3):255-60. doi: 10.1093/protein/gzq094. Epub 2010 Nov 8.
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Protein function annotation by homology-based inference.
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PhosphoSVM: prediction of phosphorylation sites by integrating various protein sequence attributes with a support vector machine.
Amino Acids. 2014 Jun;46(6):1459-69. doi: 10.1007/s00726-014-1711-5. Epub 2014 Mar 13.
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Computational prediction of protein-protein interactions.
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2
Analysis, Modeling, and Target-Specific Predictions of Linear Peptides Inhibiting Virus Entry.
ACS Omega. 2023 Nov 22;8(48):46218-46226. doi: 10.1021/acsomega.3c07521. eCollection 2023 Dec 5.
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Propagation, detection and correction of errors using the sequence database network.
Brief Bioinform. 2022 Nov 19;23(6). doi: 10.1093/bib/bbac416.
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PIRSitePredict for protein functional site prediction using position-specific rules.
Database (Oxford). 2019 Jan 1;2019. doi: 10.1093/database/baz026.
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Substrate Profile of the Phosphotriesterase Homology Protein from Escherichia coli.
Biochemistry. 2018 Oct 30;57(43):6219-6227. doi: 10.1021/acs.biochem.8b00935. Epub 2018 Oct 16.
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Seqenv: linking sequences to environments through text mining.
PeerJ. 2016 Dec 20;4:e2690. doi: 10.7717/peerj.2690. eCollection 2016.
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Relationship between Metabolic Fluxes and Sequence-Derived Properties of Enzymes.
Int Sch Res Notices. 2014 Oct 29;2014:817102. doi: 10.1155/2014/817102. eCollection 2014.

本文引用的文献

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The Protein Feature Ontology: a tool for the unification of protein feature annotations.
Bioinformatics. 2008 Dec 1;24(23):2767-72. doi: 10.1093/bioinformatics/btn528. Epub 2008 Oct 20.
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PredGPI: a GPI-anchor predictor.
BMC Bioinformatics. 2008 Sep 23;9:392. doi: 10.1186/1471-2105-9-392.
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Linear motif atlas for phosphorylation-dependent signaling.
Sci Signal. 2008 Sep 2;1(35):ra2. doi: 10.1126/scisignal.1159433.
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FFPred: an integrated feature-based function prediction server for vertebrate proteomes.
Nucleic Acids Res. 2008 Jul 1;36(Web Server issue):W297-302. doi: 10.1093/nar/gkn193. Epub 2008 May 7.
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Predicting biological networks from genomic data.
FEBS Lett. 2008 Apr 9;582(8):1251-8. doi: 10.1016/j.febslet.2008.02.033. Epub 2008 Feb 21.
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ConFunc--functional annotation in the twilight zone.
Bioinformatics. 2008 Mar 15;24(6):798-806. doi: 10.1093/bioinformatics/btn037. Epub 2008 Feb 8.
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Meta-prediction of phosphorylation sites with weighted voting and restricted grid search parameter selection.
Nucleic Acids Res. 2008 Mar;36(4):e22. doi: 10.1093/nar/gkm848. Epub 2008 Jan 30.
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The Pfam protein families database.
Nucleic Acids Res. 2008 Jan;36(Database issue):D281-8. doi: 10.1093/nar/gkm960. Epub 2007 Nov 26.
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FragAnchor: a large-scale predictor of glycosylphosphatidylinositol anchors in eukaryote protein sequences by qualitative scoring.
Genomics Proteomics Bioinformatics. 2007 May;5(2):121-30. doi: 10.1016/S1672-0229(07)60022-9.
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Mechanisms of specificity in protein phosphorylation.
Nat Rev Mol Cell Biol. 2007 Jul;8(7):530-41. doi: 10.1038/nrm2203.

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