Twenty kilobases of intergenic ptDNA-sequence data from an additional geographical isolate of C. reinhardtii CC-22900) was obtained by data mining plastid sequences from GenBank; because very little of these sequence data overlap with the 14 regions described above they were only compared to the ptDNA of CC-503.
In data mining, sequence mining is a successful technique for finding frequent sequential events in a dataset.
WL carried out the data mining, sequence alignments and bioinformatics analysis, and wrote the manuscript.
SSR markers in this study were primarily collected from published data, such as SSR-enriched genomic sequences, expressed sequence tags (ESTs), and by "data mining" peanut EST sequences in GenBank by searching for the presence of di-, tetra tetra- and pentanucleotide repeat motifs.
By data mining the genome sequences of L. interrogans we have selected and characterized several leptospiral proteins as novel adhesins [ 16] and cellular adhesion molecules (CAM) inducers [ 17].
Interestingly, we discovered evidence of GATA-6 binding to miR-30 cluster promoters by data mining of chromatin immunoprecipitation sequencing experiments, using deepBase (http://deepbase.sysu.edu.cn/).sysu.edu.cn/
Currently, microsatellites in transcribed genes have been identified in model organisms [ 11] and economically important animal [ 8, 9, 12- 14] and plant species [ 15, 16] by data mining in ESTs using bioinformatics tools or direct sequencing ESTs.
With the newly developed next generation sequencing technology, large amount of transcribed sequences of sweetpotato have been generated and are available for identifying SSR markers by data mining.
In total, 18,928 publicly available non-redundant castor bean EST sequences, representing approximately 17.03 Mb, were evaluated and 7732 SSR sites in 5,122 ESTs were identified by data mining.
These data offered an opportunity to identify SSR in ESTs by data mining.
