PoplarV1, Main, Exploration, bibRecord, 003177

PMRD: plant microRNA database.

Identifieur interne : 003177 ( Main/Exploration ); précédent : 003176; suivant : 003178

PMRD: plant microRNA database.

Auteurs : Zhenhai Zhang [République populaire de Chine] ; Jingyin Yu ; Daofeng Li ; Zuyong Zhang ; Fengxia Liu ; Xin Zhou ; Tao Wang ; Yi Ling ; Zhen Su

Source :

Nucleic acids research [ 1362-4962 ] ; 2010.

RBID : pubmed:19808935

Descripteurs français

KwdFr :
- Analyse de profil d'expression de gènes (MeSH), Bases de données d'acides nucléiques (MeSH), Bases de données de protéines (MeSH), Bases de données génétiques (MeSH), Biologie informatique (méthodes), Biologie informatique (tendances), Génome végétal (MeSH), Interface utilisateur (MeSH), Internet (MeSH), Logiciel (MeSH), Mémorisation et recherche des informations (méthodes), Plantes (génétique), Plantes (métabolisme), Régulation de l'expression des gènes végétaux (MeSH), Spécificité d'espèce (MeSH), Structure tertiaire des protéines (MeSH), microARN (génétique), microARN (métabolisme).
MESH :
- génétique : Plantes, microARN.
- métabolisme : Plantes, microARN.
- méthodes : Biologie informatique, Mémorisation et recherche des informations.
- tendances : Biologie informatique.
- Analyse de profil d'expression de gènes, Bases de données d'acides nucléiques, Bases de données de protéines, Bases de données génétiques, Génome végétal, Interface utilisateur, Internet, Logiciel, Régulation de l'expression des gènes végétaux, Spécificité d'espèce, Structure tertiaire des protéines.

English descriptors

KwdEn :
- Computational Biology (methods), Computational Biology (trends), Databases, Genetic (MeSH), Databases, Nucleic Acid (MeSH), Databases, Protein (MeSH), Gene Expression Profiling (MeSH), Gene Expression Regulation, Plant (MeSH), Genome, Plant (MeSH), Information Storage and Retrieval (methods), Internet (MeSH), MicroRNAs (genetics), MicroRNAs (metabolism), Plants (genetics), Plants (metabolism), Protein Structure, Tertiary (MeSH), Software (MeSH), Species Specificity (MeSH), User-Computer Interface (MeSH).
MESH :
- chemical , genetics : MicroRNAs.
- chemical , metabolism : MicroRNAs.
- genetics : Plants.
- metabolism : Plants.
- methods : Computational Biology, Information Storage and Retrieval.
- trends : Computational Biology.
- Databases, Genetic, Databases, Nucleic Acid, Databases, Protein, Gene Expression Profiling, Gene Expression Regulation, Plant, Genome, Plant, Internet, Protein Structure, Tertiary, Software, Species Specificity, User-Computer Interface.

Abstract

MicroRNAs (miRNA) are approximately 21 nucleotide-long non-coding small RNAs, which function as post-transcriptional regulators in eukaryotes. miRNAs play essential roles in regulating plant growth and development. In recent years, research into the mechanism and consequences of miRNA action has made great progress. With whole genome sequence available in such plants as Arabidopsis thaliana, Oryza sativa, Populus trichocarpa, Glycine max, etc., it is desirable to develop a plant miRNA database through the integration of large amounts of information about publicly deposited miRNA data. The plant miRNA database (PMRD) integrates available plant miRNA data deposited in public databases, gleaned from the recent literature, and data generated in-house. This database contains sequence information, secondary structure, target genes, expression profiles and a genome browser. In total, there are 8433 miRNAs collected from 121 plant species in PMRD, including model plants and major crops such as Arabidopsis, rice, wheat, soybean, maize, sorghum, barley, etc. For Arabidopsis, rice, poplar, soybean, cotton, medicago and maize, we included the possible target genes for each miRNA with a predicted interaction site in the database. Furthermore, we provided miRNA expression profiles in the PMRD, including our local rice oxidative stress related microarray data (LC Sciences miRPlants_10.1) and the recently published microarray data for poplar, Arabidopsis, tomato, maize and rice. The PMRD database was constructed by open source technology utilizing a user-friendly web interface, and multiple search tools. The PMRD is freely available at http://bioinformatics.cau.edu.cn/PMRD. We expect PMRD to be a useful tool for scientists in the miRNA field in order to study the function of miRNAs and their target genes, especially in model plants and major crops.

DOI: 10.1093/nar/gkp818
PubMed: 19808935
PubMed Central: PMC2808885

Affiliations:

Links toward previous steps (curation, corpus...)

to stream Main, to step Corpus: 003437
to stream Main, to step Curation: 003437

Le document en format XML

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<front><div type="abstract" xml:lang="en">MicroRNAs (miRNA) are approximately 21 nucleotide-long non-coding small RNAs, which function as post-transcriptional regulators in eukaryotes. miRNAs play essential roles in regulating plant growth and development. In recent years, research into the mechanism and consequences of miRNA action has made great progress. With whole genome sequence available in such plants as Arabidopsis thaliana, Oryza sativa, Populus trichocarpa, Glycine max, etc., it is desirable to develop a plant miRNA database through the integration of large amounts of information about publicly deposited miRNA data. The plant miRNA database (PMRD) integrates available plant miRNA data deposited in public databases, gleaned from the recent literature, and data generated in-house. This database contains sequence information, secondary structure, target genes, expression profiles and a genome browser. In total, there are 8433 miRNAs collected from 121 plant species in PMRD, including model plants and major crops such as Arabidopsis, rice, wheat, soybean, maize, sorghum, barley, etc. For Arabidopsis, rice, poplar, soybean, cotton, medicago and maize, we included the possible target genes for each miRNA with a predicted interaction site in the database. Furthermore, we provided miRNA expression profiles in the PMRD, including our local rice oxidative stress related microarray data (LC Sciences miRPlants_10.1) and the recently published microarray data for poplar, Arabidopsis, tomato, maize and rice. The PMRD database was constructed by open source technology utilizing a user-friendly web interface, and multiple search tools. The PMRD is freely available at http://bioinformatics.cau.edu.cn/PMRD. We expect PMRD to be a useful tool for scientists in the miRNA field in order to study the function of miRNAs and their target genes, especially in model plants and major crops.</div>
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<Abstract><AbstractText>MicroRNAs (miRNA) are approximately 21 nucleotide-long non-coding small RNAs, which function as post-transcriptional regulators in eukaryotes. miRNAs play essential roles in regulating plant growth and development. In recent years, research into the mechanism and consequences of miRNA action has made great progress. With whole genome sequence available in such plants as Arabidopsis thaliana, Oryza sativa, Populus trichocarpa, Glycine max, etc., it is desirable to develop a plant miRNA database through the integration of large amounts of information about publicly deposited miRNA data. The plant miRNA database (PMRD) integrates available plant miRNA data deposited in public databases, gleaned from the recent literature, and data generated in-house. This database contains sequence information, secondary structure, target genes, expression profiles and a genome browser. In total, there are 8433 miRNAs collected from 121 plant species in PMRD, including model plants and major crops such as Arabidopsis, rice, wheat, soybean, maize, sorghum, barley, etc. For Arabidopsis, rice, poplar, soybean, cotton, medicago and maize, we included the possible target genes for each miRNA with a predicted interaction site in the database. Furthermore, we provided miRNA expression profiles in the PMRD, including our local rice oxidative stress related microarray data (LC Sciences miRPlants_10.1) and the recently published microarray data for poplar, Arabidopsis, tomato, maize and rice. The PMRD database was constructed by open source technology utilizing a user-friendly web interface, and multiple search tools. The PMRD is freely available at http://bioinformatics.cau.edu.cn/PMRD. We expect PMRD to be a useful tool for scientists in the miRNA field in order to study the function of miRNAs and their target genes, especially in model plants and major crops.</AbstractText>
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<name sortKey="Liu, Fengxia" sort="Liu, Fengxia" uniqKey="Liu F" first="Fengxia" last="Liu">Fengxia Liu</name>
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<name sortKey="Yu, Jingyin" sort="Yu, Jingyin" uniqKey="Yu J" first="Jingyin" last="Yu">Jingyin Yu</name>
<name sortKey="Zhang, Zuyong" sort="Zhang, Zuyong" uniqKey="Zhang Z" first="Zuyong" last="Zhang">Zuyong Zhang</name>
<name sortKey="Zhou, Xin" sort="Zhou, Xin" uniqKey="Zhou X" first="Xin" last="Zhou">Xin Zhou</name>
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PMRD: plant microRNA database.

PMRD: plant microRNA database.

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