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Protocols

BB specifications

Information


Unique identifier OMICS_20943
Name BB
Alternative name BarleyBase
Restrictions to use Academic or non-commercial use
Database management system MySQL
Community driven No
Data access File download, Browse
User data submission Not allowed
Maintained Yes

Maintainer


  • person_outline Julie Dickerson

Additional information


http://www.plexdb.org/modules/documentation/documentation.php

Publication for BarleyBase

BB citations

 (5)
call_split

Development of DArT based PCR markers for selecting drought tolerant spring barley

2015
J Appl Genet
PMCID: 4543407
PMID: 25716655
DOI: 10.1007/s13353-015-0273-x
call_split See protocol

[…] tic maps constructed with DArT and SSR markers in the GrainGenes database were tested (Table ). The sequences of SSR markers were obtained from the GrainGenes and HarvEST:Barley databases (http://www.barleybase.org/ and http://harvest.ucr.edu/). The PCR primers were designed using Primer3 software (v. 0.4.0).To discern original DArTs, a “T” prefix was added to the name of the DArT marker adapted i […]

library_books

Developmental pattern of aquaporin expression in barley (Hordeum vulgare L.) leaves

2011
J Exp Bot
PMCID: 3153690
PMID: 21737414
DOI: 10.1093/jxb/err175

[…] Primer sequences used for the isolation of candidate genes are listed in Supplementary File S1 at JXB online. BarleyBase (http://www.barleybase.org) was screened for contig sequences using keywords such as ‘aquaporin’, ‘water channel’, ‘TIP’, and ‘PIP’ (see also ). Sequences were screened for the existence of […]

library_books

Towards systems genetic analyses in barley: Integration of phenotypic, expression and genotype data into GeneNetwork

2008
BMC Genet
PMCID: 2630324
PMID: 19017390
DOI: 10.1186/1471-2156-9-73

[…] d interoperability of software engineering for biological data sets.Linking barley data in the GeneNetwork to other relevant genomic resources, such as the Barley SNP Database (SNPDb) [], Harvest [], BarleyBase (within PLEXdb) [], GrainGenes [] and Gramene [] will significantly enhance the interpretation of the molecular basis of higher order phenotypes in barley. The success of this implementatio […]

library_books

ArrayWiki: an enabling technology for sharing public microarray data repositories and meta analyses

2008
BMC Bioinformatics
PMCID: 2423441
PMID: 18541053
DOI: 10.1186/1471-2105-9-S6-S18

[…] icroarray Database (SMD) [], and oncoMine (OM) [,]. This is only a small portion of the many gene expression repositories, and does not include those for small research communities based on interest (BarleyBase []) or affiliation (University of North Carolina Microarray DB []).More recently, a group from University of California, Los Angeles published Celsius [], an effort to merge all Affymetrix […]

library_books

Barley Genomics: An Overview

2008
Int J Plant Genomics
PMCID: 2276607
PMID: 18382615
DOI: 10.1155/2008/486258

[…] et al. []. These large scale gene expression data sets serve as baseline experiments to generate a barley transcriptome atlas. Also, an online Plant Expression Database (PLEXdb), previously known as BarleyBase (http://www.plexdb.org/plex.php?database=Barley) has been created to store, visualize, and statistically analyze Barley 1 GeneChip data [].While transcriptomics have brought about substanti […]

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BB institution(s)
Virtual Reality Applications Center, Iowa State University, Ames, IA, USA; Department of Plant Pathology, Center for Plant Responses to Environmental Stresses, Iowa State University, Ames, IA, USA; Department of Statistics, Iowa State University, Ames, IA, USA; Corn Insects and Crop Genetics Research, USDA-ARS, Iowa State University, Ames, IA, USA
BB funding source(s)
Supported by the USDA National Research Initiative (NRI) grant no. 02-35300-12619 and USDA-CSREES North American Barley Genome Project.

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