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The present study detected all isomiRs by mapping the clean reads back to pre-miRNAs.
This phenomenon was observed by mapping the clean reads back to pre-miRNAs (Table 1).
MicroRNA expression profiles in different libraries were determined by mapping the clean reads back to human pre-miRNAs (miRBase 17).
The miRNA expression profiles and isomiRs in normal breast and breast tumor tissues were determined by mapping the clean reads back to human miRNAs.
The results of mapping the clean reads to different publicly available databases (Table 1) showed a consistent percentage of proportions with previous study [ 30].
Statistics of mapping the clean reads from our 12 small RNA libraries to the rice miRNA database showed that 444 480 mature miRNAs and 366 397 miRNA precursors had been mapped (Additional file 4) and were consistent in the mapping results of all the small RNA libraries.
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We identified 13 SNPs in seven precursors by mapping the cleaned sRNA sequencing reads to the precursors.
Sequencing depth was obtained by mapping the cleaned fragment reads back to the genome assembly using SOAP2 (Li, Yu, et al. 2009).
We thus investigated localized smRNA accumulation between Osrdr1 and its sibling WT by mapping the cleaned smRNA reads to 100 bp sliding windows (being reflected as smRNA clusters) across each of the 12 rice chromosomes, normalized the reads to Reads per Million (RPM), and then compared the RPM smRNA clusters between Osrdr1 and WT.
We mapped the clean reads to the B. mori reference genome, release_2.0 [ 14].
We then mapped the clean reads to the transcriptome reference data, and a total of 57,695 and 55,998 unigene sequences were identified for the control replicates, and 58,788, and 57,596 unigene sequences were identified for the drought replicates.
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