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LegumeGRN specifications

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Unique identifier OMICS_17794
Name LegumeGRN
Interface Web user interface
Restrictions to use None
Input data A gene expression data file and an optional transcription factor file.
Output data The network results and their related annotation information are downloadable as tab-delimited text files or can be analyse using an intuitive web-based GRN viewer to display the prediction results as graphical output.
Programming languages Javascript
Computer skills Basic
Stability No
Maintained No

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Publication for LegumeGRN

LegumeGRN citations

 (3)
library_books

Quantitative Resistance to Verticillium Wilt in Medicago truncatula Involves Eradication of the Fungus from Roots and Is Associated with Transcriptional Responses Related to Innate Immunity

2016
Front Plant Sci
PMCID: 5041324
PMID: 27746789
DOI: 10.3389/fpls.2016.01431

[…] five modules most correlated to inoculation response were visualized using cytoscape v3.0.1 (smoot et al., )., genes from the greenyellow module possessing affymetrix probes were analyzed using the legumegrn gene regulatory network prediction server (http://legumegrn.noble.org/, wang m. et al., ). unweighted gene co-expression network was predicted using compiled data from the m. truncatula […]

library_books

A Snapshot of Functional Genetic Studies in Medicago truncatula

2016
Front Plant Sci
PMCID: 4977297
PMID: 27555857
DOI: 10.3389/fpls.2016.01175

[…] bioinformatics resources are also available for medicago, some have been developed specifically for medicago (and legumes) such as the medicago gbrowser (http://gb.sc.noble.org/cgi-bin/gb2/gbrowse), legumegrn (wang m. et al., ), legumeip (li et al., ), and legoo (http://www.legoo.org); and others have been adapted from arabidopsis to medicago such as pathexpress (goffard and weiller, ) […]

library_books

Identification of Gene Modules Associated with Low Temperatures Response in Bambara Groundnut by Network Based Analysis

2016
PLoS One
PMCID: 4747569
PMID: 26859686
DOI: 10.1371/journal.pone.0148771

[…] functional modules have been identified that are associated with a specific biological process in plants. in addition, several web-based databases for plant gene co-expression networks, including legumegrn [], cop [], planex [], plexdb [] and cressexpress [], have been developed to enable the visualization of gene-gene interrelationships, gene-specific expression profiles across stress […]


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LegumeGRN institution(s)
Division of Plant Biology, The Samuel Roberts Noble Foundation, Ardmore, OK, USA; Division of Plant & Soil Sciences, West Virginia University, Morgantown, WV, USA; Department of Cell and Developmental Biology, John Innes Centre, Colney, Norwich, UK; Plant Genomics Lab, Instituto Gulbenkian de Ciencia, Oeiras, Portugal; Institute for Molecular and Cell Biology, University of Porto, Porto, Portugal; Cancer Genomics Research Laboratory, Division of Cancer Epidemiology and Genetics, National Cancer Institute, SAIC-Frederick, Inc., Bethesda, MD, USA
LegumeGRN funding source(s)
This research was supported by grants from the Oklahoma Center for The Advancement of Science and Technology (OCAST Grant No. PSB11-031).

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