Biochemical and Biophysical Research Communications
MicroRNA switches in Trypanosoma brucei
Section snippets
Results and discussion
The initiation of our bioinformatic hunt for miRNA genes began with the reference set of genomic sequences from 11 chromosomes of Tb subjected to einverted program which generated an output of 41,033 inverted repeats. The screening procedure at the second stage reduced the output to 8828 unbranched structures (refer Table 1). An attempt to reduce the unlikely precursor candidates and finding the mature ones generated 1889 (not given in table) mature miRNAs.
Materials and methods
Sources. The genomic sequences of the 11 chromosomes of Tb (Taxonomy ID: 185431) [36] are obtained from NCBI database (http://www.ncbi.nlm.nih.gov/). The 3′ UTR (3′ untranslated region) sequences needed for target identification are obtained from UTResource (Release 7.1.3.1) (http://www.ba.itb.cnr.it/UTR/) [37].
Prediction strategy. The input genomic sequence is scanned using einverted program of EMBOSS obtained from www.hgmp.mrc.ac.uk/Software/EMBOSS/ to identify the repeats of length 120 nts
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These authors have equally contributed.