ArticleNucleic acids research2007
iPDA: integrated protein disorder analyzer.
Article in Nucleic acids research, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 25 papers.
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Who cites it
25 citing papers in PubMed.
- Modern resources for intrinsic disorder predictions: protein language models, deep learning, meta-servers, and databases.Cellular and molecular life sciences : CMLS · 2026Review
- ORC1 binds to cis-transcribed RNAs for efficient activation of replication origins.Nature communications · 2023Article
- Deep learning in prediction of intrinsic disorder in proteins.Computational and structural biotechnology journal · 2022Review
- Network Pharmacology-Based Study on the Mechanism ofEvidence-based complementary and alternative medicine : eCAM · 2020Article
- Order in Disorder as Observed by the "Hydrophobic Cluster Analysis" of Protein Sequences.Proteomics · 2018Review
- Structural Dynamics of the GW182 Silencing Domain Including its RNA Recognition motif (RRM) Revealed by Hydrogen-Deuterium Exchange Mass Spectrometry.Journal of the American Society for Mass Spectrometry · 2018Article
- An Overview of Predictors for Intrinsically Disordered Proteins over 2010-2014.International journal of molecular sciences · 2015Review
- Recombination of strain O segments to HCpro-encoding sequence of strain N of Potato virus Y modulates necrosis induced in tobacco and in potatoes carrying resistance genes Ny or Nc.Molecular plant pathology · 2015Article
- Disorder Prediction Methods, Their Applicability to Different Protein Targets and Their Usefulness for Guiding Experimental Studies.International journal of molecular sciences · 2015Review
- Survey of Natural Language Processing Techniques in Bioinformatics.Computational and mathematical methods in medicine · 2015Review
- DisoMCS: Accurately Predicting Protein Intrinsically Disordered Regions Using a Multi-Class Conservative Score Approach.PloS one · 2015Article
- Article
- MetaDisorder: a meta-server for the prediction of intrinsic disorder in proteins.BMC bioinformatics · 2012Article
- A comprehensive overview of computational protein disorder prediction methods.Molecular bioSystems · 2012Review
- In-silico prediction of disorder content using hybrid sequence representation.BMC bioinformatics · 2011Article
- WildSpan: mining structured motifs from protein sequences.Algorithms for molecular biology : AMB · 2011Article
- Predicting RNA-binding residues from evolutionary information and sequence conservation.BMC genomics · 2010Article
- Improved sequence-based prediction of disordered regions with multilayer fusion of multiple information sources.Bioinformatics (Oxford, England) · 2010Article
- Mechanism of Holliday junction resolution by the human GEN1 protein.Genes & development · 2010Article
- Understanding protein non-folding.Biochimica et biophysica acta · 2010Review
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Authors and funding
3 authors.
Funding
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Abstract
This article presents a web server iPDA, which aims at identifying the disordered regions of a query protein. Automatic prediction of disordered regions from protein sequences is an important problem in the study of structural biology. The proposed classifier DisPSSMP2 is different from several existing disorder predictors by its employment of position-specific scoring matrices with respect to physicochemical properties (PSSMP), where the physicochemical properties adopted here especially take the disorder propensity of amino acids into account. The web server iPDA integrates DisPSSMP2 with several other sequence predictors in order to investigate the functional role of the detected disordered region. The predicted information includes sequence conservation, secondary structure, sequence complexity and hydrophobic clusters. According to the proportion of the secondary structure elements predicted, iPDA dynamically adjusts the cutting threshold of determining protein disorder. Furthermore, a pattern mining package for detecting sequence conservation is embedded in iPDA for discovering potential binding regions of the query protein, which is really helpful to uncovering the relationship between protein function and its primary sequence. The web service is available at http://biominer.bime.ntu.edu.tw/ipda and mirrored at http://biominer.cse.yzu.edu.tw/ipda.
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