PoplarV1, Main, Exploration, bibRecord, 001793

LegumeIP 2.0--a platform for the study of gene function and genome evolution in legumes.

Identifieur interne : 001793 ( Main/Exploration ); précédent : 001792; suivant : 001794

LegumeIP 2.0--a platform for the study of gene function and genome evolution in legumes.

Auteurs : Jun Li [États-Unis] ; Xinbin Dai [États-Unis] ; Zhaohong Zhuang [États-Unis] ; Patrick X. Zhao

Source :

Nucleic acids research [ 1362-4962 ] ; 2016.

RBID : pubmed:26578557

Descripteurs français

KwdFr :
- Analyse de profil d'expression de gènes (MeSH), Bases de données génétiques (MeSH), Fabaceae (génétique), Gènes de plante (MeSH), Génome végétal (MeSH), Génomique (MeSH), Évolution moléculaire (MeSH).
MESH :
- génétique : Fabaceae.
- Analyse de profil d'expression de gènes, Bases de données génétiques, Gènes de plante, Génome végétal, Génomique, Évolution moléculaire.

English descriptors

KwdEn :
- Databases, Genetic (MeSH), Evolution, Molecular (MeSH), Fabaceae (genetics), Gene Expression Profiling (MeSH), Genes, Plant (MeSH), Genome, Plant (MeSH), Genomics (MeSH).
MESH :
- genetics : Fabaceae.
- Databases, Genetic, Evolution, Molecular, Gene Expression Profiling, Genes, Plant, Genome, Plant, Genomics.

Abstract

The LegumeIP 2.0 database hosts large-scale genomics and transcriptomics data and provides integrative bioinformatics tools for the study of gene function and evolution in legumes. Our recent updates in LegumeIP 2.0 include gene and protein sequences, gene models and annotations, syntenic regions, protein families and phylogenetic trees for six legume species: Medicago truncatula, Glycine max (soybean), Lotus japonicus, Phaseolus vulgaris (common bean), Cicer arietinum (chickpea) and Cajanus cajan (pigeon pea) and two outgroup reference species: Arabidopsis thaliana and Poplar trichocarpa. Moreover, the LegumeIP 2.0 features the following new data resources and bioinformatics tools: (i) an integrative gene expression atlas for four model legumes that include 550 array hybridizations from M. truncatula, 962 gene expression profiles of G. max, 276 array hybridizations from L. japonicas and 56 RNA-Seq-based gene expression profiles for C. arietinum. These datasets were manually curated and hierarchically organized based on Experimental Ontology and Plant Ontology so that users can browse, search, and retrieve data for their selected experiments. (ii) New functions/analytical tools to query, mine and visualize large-scale gene sequences, annotations and transcriptome profiles. Users may select a subset of expression experiments and visualize and compare expression profiles for multiple genes. The LegumeIP 2.0 database is freely available to the public at http://plantgrn.noble.org/LegumeIP/.

DOI: 10.1093/nar/gkv1237
PubMed: 26578557
PubMed Central: PMC4702875

Affiliations:

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

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Le document en format XML

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<front><div type="abstract" xml:lang="en">The LegumeIP 2.0 database hosts large-scale genomics and transcriptomics data and provides integrative bioinformatics tools for the study of gene function and evolution in legumes. Our recent updates in LegumeIP 2.0 include gene and protein sequences, gene models and annotations, syntenic regions, protein families and phylogenetic trees for six legume species: Medicago truncatula, Glycine max (soybean), Lotus japonicus, Phaseolus vulgaris (common bean), Cicer arietinum (chickpea) and Cajanus cajan (pigeon pea) and two outgroup reference species: Arabidopsis thaliana and Poplar trichocarpa. Moreover, the LegumeIP 2.0 features the following new data resources and bioinformatics tools: (i) an integrative gene expression atlas for four model legumes that include 550 array hybridizations from M. truncatula, 962 gene expression profiles of G. max, 276 array hybridizations from L. japonicas and 56 RNA-Seq-based gene expression profiles for C. arietinum. These datasets were manually curated and hierarchically organized based on Experimental Ontology and Plant Ontology so that users can browse, search, and retrieve data for their selected experiments. (ii) New functions/analytical tools to query, mine and visualize large-scale gene sequences, annotations and transcriptome profiles. Users may select a subset of expression experiments and visualize and compare expression profiles for multiple genes. The LegumeIP 2.0 database is freely available to the public at http://plantgrn.noble.org/LegumeIP/. </div>
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<name sortKey="Dai, Xinbin" sort="Dai, Xinbin" uniqKey="Dai X" first="Xinbin" last="Dai">Xinbin Dai</name>
<name sortKey="Zhuang, Zhaohong" sort="Zhuang, Zhaohong" uniqKey="Zhuang Z" first="Zhaohong" last="Zhuang">Zhaohong Zhuang</name>
</country>
</tree>
</affiliations>
</record>

Pour manipuler ce document sous Unix (Dilib)

EXPLOR_STEP=$WICRI_ROOT/Bois/explor/PoplarV1/Data/Main/Exploration

HfdSelect -h $EXPLOR_STEP/biblio.hfd -nk 001793 | SxmlIndent | more

HfdSelect -h $EXPLOR_AREA/Data/Main/Exploration/biblio.hfd -nk 001793 | SxmlIndent | more

Pour mettre un lien sur cette page dans le réseau Wicri

{{Explor lien
   |wiki=    Bois
   |area=    PoplarV1
   |flux=    Main
   |étape=   Exploration
   |type=    RBID
   |clé=     pubmed:26578557
   |texte=   LegumeIP 2.0--a platform for the study of gene function and genome evolution in legumes.
}}

Pour générer des pages wiki

HfdIndexSelect -h $EXPLOR_AREA/Data/Main/Exploration/RBID.i   -Sk "pubmed:26578557" \
       | HfdSelect -Kh $EXPLOR_AREA/Data/Main/Exploration/biblio.hfd   \
       | NlmPubMed2Wicri -a PoplarV1

This area was generated with Dilib version V0.6.37.
Data generation: Wed Nov 18 12:07:19 2020. Site generation: Wed Nov 18 12:16:31 2020

	Serveur d'exploration sur le peuplier
	Attention, ce site est en cours de développement ! Attention, site généré par des moyens informatiques à partir de corpus bruts. Les informations ne sont donc pas validées.

Serveur d'exploration sur le peuplier

LegumeIP 2.0--a platform for the study of gene function and genome evolution in legumes.

LegumeIP 2.0--a platform for the study of gene function and genome evolution in legumes.

Source :

Descripteurs français

English descriptors

Abstract

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

Le document en format XML

Pour manipuler ce document sous Unix (Dilib)

Pour mettre un lien sur cette page dans le réseau Wicri

Pour générer des pages wiki