Data from: Mining for single nucleotide polymorphisms and insertions / deletions in expressed sequence tag libraries of oil palm

Riju A, Chandrasekar A, Arunachalam V

Date Published: June 16, 2008

DOI: http://dx.doi.org/10.5061/dryad.157

 

Files in this package

Content in the Dryad Digital Repository is offered "as is." By downloading files, you agree to the Dryad Terms of Service. To the extent possible under law, the authors have waived all copyright and related or neighboring rights to this data. CC0 (opens a new window) Open Data (opens a new window)

Title Interspecific Analysis for SNPs in EST Libraries of Oil Palm- Elaeis Guineensis and E. Oleifera
Downloaded 121 times
Description Oil palm is the second largest source of edible oil, which contributes to approximately 20% of the world's production of oils and fats. Expressed sequence tag (EST) sequencing programs have provided a wealth of information, identifying novel genes from a broad range of organisms and providing an indication of gene expression level in particular tissues. It also provides the richest source of biologically useful SNPs due to the relatively high redundancy of gene sequence, the diversity of genotypes represented within databases, and the fact that each SNP would be associated with an expressed gene. There are cultivated two species of oil palm, Elaeis guineensis Jacq. from tropical western Africa and E. oleifera from Americas. Interspecific SNP detection carried but by choosing Lambda Zap II libraries of both species. Auto_snp perl script was used to cluster the ESTs and detect SNPs. A total of 163 EST sequences belong to Lambda zap libraries analysed here, interestingly we have found 60 SNP site (35 Transition transversion 25 ) in this species specific sequences. Labda Zap tissue also shows the similar pattern of SNPs, such as transition type mutation is higher than trasnversion type in Oil palm (Riju et al, 2007).
Download Oil palm SNPs.pdf (111.4 Kb)
Details View File Details

When using this data, please cite the original publication:

Riju A, Chandrasekar A, Arunachalam V (2007) Mining for single nucleotide polymorphisms and insertions / deletions in expressed sequence tag libraries of oil palm. Bioinformation 2(4): 128-131. PMCID:PMC2255072

Additionally, please cite the Dryad data package:

Riju A, Chandrasekar A, Arunachalam V (2007) Data from: Mining for single nucleotide polymorphisms and insertions / deletions in expressed sequence tag libraries of oil palm. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.157
Cite | Share
Download the data package citation in the following formats:
   RIS (compatible with EndNote, Reference Manager, ProCite, RefWorks)
   BibTex (compatible with BibDesk, LaTeX)

Search for data

Be part of Dryad

We encourage organizations to: