PeroxisomeDB
Names
More detailed information about this field from each metasource.
PeroxisomeDB
metasource: Fairsharing.org
version: FAIRsharing.org: PeroxisomeDB; PeroxisomeDB; DOI: https://doi.org/10.25504/FAIRsharing.8ggr5j; Last edited: April 26, 2021, 9:32 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
metasource: bio.tools
version: extracted_at: 2022-11-04T11:30:34.953195
peroxisomedb
metasource: bio.tools
version: extracted_at: 2022-11-04T11:30:34.953195
Names
More detailed information about this field from each metasource.
PeroxisomeDB
metasource: Fairsharing.orgversion: FAIRsharing.org: PeroxisomeDB; PeroxisomeDB; DOI: https://doi.org/10.25504/FAIRsharing.8ggr5j; Last edited: April 26, 2021, 9:32 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
metasource: bio.tools
version: extracted_at: 2022-11-04T11:30:34.953195
peroxisomedb
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:30:34.953195
Names
More detailed information about this field from each metasource.
PeroxisomeDB
metasource: Fairsharing.orgversion: FAIRsharing.org: PeroxisomeDB; PeroxisomeDB; DOI: https://doi.org/10.25504/FAIRsharing.8ggr5j; Last edited: April 26, 2021, 9:32 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
metasource: bio.tools
version: extracted_at: 2022-11-04T11:30:34.953195
peroxisomedb
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:30:34.953195
The aim of PEROXISOME database (PeroxisomeDB) is to gather, organise and integrate curated information on peroxisomal genes, their encoded proteins, their molecular function and metabolic pathway they belong to, and their related disorders.
Description
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The aim of PEROXISOME database (PeroxisomeDB) is to gather, organise and integrate curated information on peroxisomal genes, their encoded proteins, their molecular function and metabolic pathway they belong to, and their related disorders.
metasource: Fairsharing.orgversion: FAIRsharing.org: PeroxisomeDB; PeroxisomeDB; DOI: https://doi.org/10.25504/FAIRsharing.8ggr5j; Last edited: April 26, 2021, 9:32 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
PeroxisomeDB (http://www.peroxisomeDB.org) is a peroxisomal database that includes the complete peroxisomal proteome of Homo sapiens and Saccharomyces cerevisiae, structured in interrelated sections 'Genes', 'Functions' 'Metabolic pathways' and 'Diseases', with hyperlinks to selected features of NCBI, ENSEMBL and UCSC databases. We have designed graphical depictions of the main peroxisomal metabolic routes and have included updated flow charts for diagnosis. Precomputed BLAST, PSI-BLAST, multiple sequence alignment (MUSCLE) and phylogenetic trees are provided to study evolutionary conserved functions and pathways. Highlights of the PeroxisomeDB include new tools developed for facilitating i) identification of novel peroxisomal proteins and ii) detection of peroxisomes in silico.
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
Complete peroxisomal proteome of H. sapiens and S. cerevisiae, as well as 35 newly sequenced eukaryotic genomes. Version 2.0 integrates the peroxisomal metabolome of whole microbody familiy by the new incorporation of the glycosome proteomes of trypanosomatids and the glyoxysome proteome of A. thaliana. The database includes phylogenetic trees and tools to capture kinetic information from Brenda, CheBI and Sabio-RK databases and selected bibliographic references.
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:30:34.953195
Webpage:
http://www.peroxisomedb.orgWebpage
More detailed information about this field from each metasource.
http://www.peroxisomedb.org
metasource: Fairsharing.orgversion: FAIRsharing.org: PeroxisomeDB; PeroxisomeDB; DOI: https://doi.org/10.25504/FAIRsharing.8ggr5j; Last edited: April 26, 2021, 9:32 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
http://www.peroxisomedb.org/
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
http://www.peroxisomeDB.org
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:30:34.953195
Licence:
Name: PeroxisomeDB Attribution requiredLicence name
More detailed information about this field from each metasource.
PeroxisomeDB Attribution required
metasource: Fairsharing.orgversion: FAIRsharing.org: PeroxisomeDB; PeroxisomeDB; DOI: https://doi.org/10.25504/FAIRsharing.8ggr5j; Last edited: April 26, 2021, 9:32 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
Unlicense
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:30:34.953195
Licence URL
More detailed information about this field from each metasource.
http://www.peroxisomedb.org/
metasource: Fairsharing.orgversion: FAIRsharing.org: PeroxisomeDB; PeroxisomeDB; DOI: https://doi.org/10.25504/FAIRsharing.8ggr5j; Last edited: April 26, 2021, 9:32 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
Publications:
Publications
More detailed information about this field from each metasource.
PeroxisomeDB 2.0: an integrative view of the global peroxisomal metabolome
PMID: 19892824
metasource: Fairsharing.org
version: FAIRsharing.org: PeroxisomeDB; PeroxisomeDB; DOI: https://doi.org/10.25504/FAIRsharing.8ggr5j; Last edited: April 26, 2021, 9:32 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
metasource: bio.tools
version: extracted_at: 2022-11-04T11:30:34.953195
Publications
More detailed information about this field from each metasource.
PeroxisomeDB 2.0: an integrative view of the global peroxisomal metabolome
PMID: 19892824
metasource: Fairsharing.org
version: FAIRsharing.org: PeroxisomeDB; PeroxisomeDB; DOI: https://doi.org/10.25504/FAIRsharing.8ggr5j; Last edited: April 26, 2021, 9:32 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
metasource: bio.tools
version: extracted_at: 2022-11-04T11:30:34.953195
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PeroxisomeDB 2.0: an integrative view of the global peroxisomal metabolome
PubMed citations: 47.
47 articles citing: PeroxisomeDB 2.0: an integrative view of the global peroxisomal metabolome
Translating the Arabidopsis thaliana Peroxisome Proteome Insights to Solanum lycopersicum: Consensus Versus Diversity. PMID:35912119
Insights Into the Peroxisomal Protein Inventory of Zebrafish. PMID:35295584
Transcriptomic profiling of peroxisome-related genes reveals a novel prognostic signature in hepatocellular carcinoma. PMID:35005112
Edgetic Perturbations Contribute to Phenotypic Variability in PEX26 Deficiency. PMID:34804114
Subcellular proteomics. PMID:34549195
In-Pero: Exploiting Deep Learning Embeddings of Protein Sequences to Predict the Localisation of Peroxisomal Proteins. PMID:34203866
Peroxisomal Dysfunction and Oxidative Stress in Neurodegenerative Disease: A Bidirectional Crosstalk. PMID:33417204
A Global Analysis of Enzyme Compartmentalization to Glycosomes. PMID:32290588
The peroxisomal fatty acid transporter ABCD1/PMP-4 is required in the C. elegans hypodermis for axonal maintenance: A worm model for adrenoleukodystrophy. PMID:32017990
Quantitative Proteomics of the Cancer Cell Line Encyclopedia. PMID:31978347
Rare Human Missense Variants can affect the Function of Disease-Relevant Proteins by Loss and Gain of Peroxisomal Targeting Motifs. PMID:31533369
Nephromyces Encodes a Urate Metabolism Pathway and Predicted Peroxisomes, Demonstrating That These Are Not Ancient Losses of Apicomplexans. PMID:30500900
A bacteria-derived tail anchor localizes to peroxisomes in yeast and mammalian cells. PMID:30401812
Infection-Induced Peroxisome Biogenesis Is a Metabolic Strategy for Herpesvirus Replication. PMID:30269970
Contribution of peroxisomal protein importer AflPex5 to development and pathogenesis in the fungus Aspergillus flavus. PMID:29869688
Subcellular Localization Screening of Colletotrichum higginsianum Effector Candidates Identifies Fungal Proteins Targeted to Plant Peroxisomes, Golgi Bodies, and Microtubules. PMID:29770142
SIRT5 inhibits peroxisomal ACOX1 to prevent oxidative damage and is downregulated in liver cancer. PMID:29491006
A eukaryotic nicotinate-inducible gene cluster: convergent evolution in fungi and bacteria. PMID:29212709
Distribution and Evolution of Peroxisomes in Alveolates (Apicomplexa, Dinoflagellates, Ciliates). PMID:29202176
Redox Regulation of Homeostasis and Proteostasis in Peroxisomes. PMID:29167332
Peroxisomal biogenesis is genetically and biochemically linked to carbohydrate metabolism in Drosophila and mouse. PMID:28640802
VAPs and ACBD5 tether peroxisomes to the ER for peroxisome maintenance and lipid homeostasis. PMID:28108526
Arginine and Lysine Transporters Are Essential for Trypanosoma brucei. PMID:28045943
Accounting for Protein Subcellular Localization: A Compartmental Map of the Rat Liver Proteome. PMID:27923875
hfAIM: A reliable bioinformatics approach for in silico genome-wide identification of autophagy-associated Atg8-interacting motifs in various organisms. PMID:27071037
One library to make them all: streamlining the creation of yeast libraries via a SWAp-Tag strategy. PMID:26928762
Taking Bioinformatics to Systems Medicine. PMID:26677177
Peroxisomal Import Reduces the Proapoptotic Activity of Deubiquitinating Enzyme USP2. PMID:26484888
One of Three Pex11 Family Members Is Required for Peroxisomal Proliferation and Full Virulence of the Rice Blast Fungus Magnaporthe oryzae. PMID:26218097
Peroxisomal biogenesis in ischemic brain. PMID:25226217
The cytosolic domain of Pex22p stimulates the Pex4p-dependent ubiquitination of the PTS1-receptor. PMID:25162638
Import of proteins into the peroxisomal matrix. PMID:24069002
Targeting a heterologous protein to multiple plant organelles via rationally designed 5' mRNA tags. PMID:24011257
A tuberous sclerosis complex signalling node at the peroxisome regulates mTORC1 and autophagy in response to ROS. PMID:23955302
Give what you can and keep what you need! PMID:23921554
Intracellular targeting of ascomycetous catalase-peroxidases (KatG1s). PMID:23589225
Use of Gene Ontology Annotation to understand the peroxisome proteome in humans. PMID:23327938
Response of the mitochondrial proteome of rat renal proximal convoluted tubules to chronic metabolic acidosis. PMID:23136003
PredPlantPTS1: A Web Server for the Prediction of Plant Peroxisomal Proteins. PMID:22969783
Integration of peroxisomes into an endomembrane system that governs cellular aging. PMID:22936916
An inventory of peroxisomal proteins and pathways in Drosophila melanogaster. PMID:22758915
Short-read sequencing for genomic analysis of the brown rot fungus Fibroporia radiculosa. PMID:22247176
The PEX7-mediated peroxisomal import system is required for fungal development and pathogenicity in Magnaporthe oryzae. PMID:22194815
Identification of novel plant peroxisomal targeting signals by a combination of machine learning methods and in vivo subcellular targeting analyses. PMID:21487095
Classification of subcellular location by comparative proteomic analysis of native and density-shifted lysosomes. PMID:21252268
PhylomeDB v3.0: an expanding repository of genome-wide collections of trees, alignments and phylogeny-based orthology and paralogy predictions. PMID:21075798
Metabolomics and malaria biology. PMID:20970461
Tags:
Tags
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gene
metasource: Fairsharing.org
version: FAIRsharing.org: PeroxisomeDB; PeroxisomeDB; DOI: https://doi.org/10.25504/FAIRsharing.8ggr5j; Last edited: April 26, 2021, 9:32 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
molecular function
metasource: Fairsharing.org
version: FAIRsharing.org: PeroxisomeDB; PeroxisomeDB; DOI: https://doi.org/10.25504/FAIRsharing.8ggr5j; Last edited: April 26, 2021, 9:32 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
pathway model
metasource: Fairsharing.org
version: FAIRsharing.org: PeroxisomeDB; PeroxisomeDB; DOI: https://doi.org/10.25504/FAIRsharing.8ggr5j; Last edited: April 26, 2021, 9:32 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
protein
metasource: Fairsharing.org
version: FAIRsharing.org: PeroxisomeDB; PeroxisomeDB; DOI: https://doi.org/10.25504/FAIRsharing.8ggr5j; Last edited: April 26, 2021, 9:32 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
protein sequence databases
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
protein localization and targeting
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
organelle databases
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
metabolomics
metasource: bio.tools
version: extracted_at: 2022-11-04T11:30:34.953195
model organisms
metasource: bio.tools
version: extracted_at: 2022-11-04T11:30:34.953195
metasource: bio.tools
version: extracted_at: 2022-11-04T11:30:34.953195
proteomics
metasource: bio.tools
version: extracted_at: 2022-11-04T11:30:34.953195
plants
metasource: bio.tools
version: extracted_at: 2022-11-04T11:30:34.953195
Tags
More detailed information about this field from each metasource.
gene
metasource: Fairsharing.orgversion: FAIRsharing.org: PeroxisomeDB; PeroxisomeDB; DOI: https://doi.org/10.25504/FAIRsharing.8ggr5j; Last edited: April 26, 2021, 9:32 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
molecular function
metasource: Fairsharing.orgversion: FAIRsharing.org: PeroxisomeDB; PeroxisomeDB; DOI: https://doi.org/10.25504/FAIRsharing.8ggr5j; Last edited: April 26, 2021, 9:32 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
pathway model
metasource: Fairsharing.orgversion: FAIRsharing.org: PeroxisomeDB; PeroxisomeDB; DOI: https://doi.org/10.25504/FAIRsharing.8ggr5j; Last edited: April 26, 2021, 9:32 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
protein
metasource: Fairsharing.orgversion: FAIRsharing.org: PeroxisomeDB; PeroxisomeDB; DOI: https://doi.org/10.25504/FAIRsharing.8ggr5j; Last edited: April 26, 2021, 9:32 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
protein sequence databases
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
protein localization and targeting
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
organelle databases
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
metabolomics
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:30:34.953195
model organisms
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:30:34.953195
metasource: bio.tools
version: extracted_at: 2022-11-04T11:30:34.953195
proteomics
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:30:34.953195
plants
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:30:34.953195
gene molecular function pathway model protein protein sequence protein localization and targeting organelle metabolomics model organisms proteomics plants
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