PeroxisomeDB statistics
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Protocols
PeroxisomeDB specifications
Information
Unique identifier | OMICS_02762 |
---|---|
Name | PeroxisomeDB |
Alternative names | Peroxisome DataBase, PeroxisomeDB 2.0 |
Restrictions to use | None |
Community driven | No |
Data access | File download, Browse |
User data submission | Not allowed |
Version | 2.0 |
Maintained | Yes |
Taxon
-
Plants and Fungi
- Arabidopsis thaliana
- Saccharomyces cerevisiae
-
Primates
- Homo sapiens
Subtools
- Organelle Predictor
- PTSs Predictor
Maintainers
- person_outline Aurora Pujol
- person_outline Agatha Schlüter
Publications for Peroxisome DataBase
PeroxisomeDB: a database for the peroxisomal proteome, functional genomics and disease
PeroxisomeDB citations
(5)A eukaryotic nicotinate inducible gene cluster: convergent evolution in fungi and bacteria
[…] with Figtree (http://tree.bio.ed.ac.uk/software/figtree/, http://mafft.cbrc.jp/alignment/server/) and localization signals were searched for at http://www.cbs.dtu.dk/services/TargetP/ [], http://www.peroxisomedb.org/ [], http://nls-mapper.iab.keio.ac.jp/cgi-bin/NLS_Mapper_form.cgi [], http://wolfpsort.org/ [], http://genome.unmc.edu/ngLOC/cite.html []. Structural analysis and modelling was carrie […]
Distribution and Evolution of Peroxisomes in Alveolates (Apicomplexa, Dinoflagellates, Ciliates)
[…] erentiate between orthologs and paralogs.Peroxisomal proteins for BLAST analyses were retrieved from the “peroxisome pathway” of the Kyoto Encyclopedia of Genes and Genomes (KEGG) database () and the PeroxisomeDB (). Proteins of the ciliate T. thermophila were preferentially used as query sequences for local and online BLAST searches in our newly established transcriptomes and the alveolate refere […]
Predicting the targeting of tail anchored proteins to subcellular compartments in mammalian cells
[…] s were created with GraphPad Prism 5 (GraphPad Software) with whiskers representing the smallest and largest value in the sample. PEX19-binding sites were analyzed using the BLOCKS algorithm from the PeroxisomeDB 2.0 database ().For the support vector machine (SVM) classifier (), we trained a SVM classifier with the [protein data] using the SVM application in package e1071 (), of the R statistical […]
Ribosomal Readthrough at a Short UGA Stop Codon Context Triggers Dual Localization of Metabolic Enzymes in Fungi and Animals
[…] g the following regular expression:(∧\*[∧*]*?([ASTPCE]RL|[SATPCVNG]KL|S[SNH]L|ARI|S[KR]M|[AG]NL|SN[IM]|[SA][KRQ]Y|HHL|[QS][KRQ]F)\*). PTS2 motifs were predicted with TargetSignalPredictor (http://www.peroxisomedb.org). Data analysis was performed with NCBI (National Center for Biotechnology Information) Basic local alignment search tool (Blast) , other NCBI resources and GenRE - MIPS Ustilago mayd […]
Targeting a heterologous protein to multiple plant organelles via rationally designed 5′ mRNA tags
[…] -2 sequences were predicted using the NetPlantGene server []. Targeting to the chloroplast and peroxisome of the TriTag-1 and TriTag-2 splice variants and TriTag-3 were predicted using TargetP [] and PeroxisomeDB 2.0 []. Peptide structures of CTPb and TriTag-3 were determined using PROFbval on the ROSTLAB server []. […]
Citations
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