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This web-based tool performs statistical analysis of k-mers in a 160 nt window surrounding putative donor and acceptor sites, based on human genome search data [72].
Based on human genome annotations and a number of well-characterized RNA databases (see Materials and Methods), these small RNA sequences were annotated as known miRNA, degradation fragments of non-coding RNA (tRNA, rRNA, snRNA/snoRNA et al)., genomic repeat, mRNA or unclassified.
All annotations are based on human genome build 19.
All analyses were based on human genome Build 35.1.
All of the coordinates referenced in the text and figures are based on human genome build GRCh37/hg19.
Then, we randomly generate R = 10,000 sequences based on human genome background using a 6th order Markov model.
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This is largely because mutations of interest are introduced into endogenous genes, just as they occur in the real patients, and because they are based on human genomes rather than rat genomes.
Based on human reference genome (GRCh37/hg19), we constructed a high-resolution Mongolian personal genetic variation map, including single nucleotide polymorphisms (SNPs), short insertions and deletions (indels), structural variations (SVs), and novel sequences and haplotypes.
According to this specification, SNP rs3737965 is represented as HG19.1 11789038 G/A, indicating a pair of alleles "G" and "A" at position 11789038 of chromosome 1, and the position is based on human reference genome version 19.
However, these target predictions for differentially expressed miRNAs were based mainly on human genome predictions; thus, we searched TargetScan (http://www.targetscan.org/) for the predicted miRNA regulators of these two genes within the mouse genome.
Human-chimpanzee orthologs and human-macaque orthologs were generated separately, based on human Ensembl annotation (v64) [ 4], human genome (hg19) [ 17], chimpanzee genome (panTro2) [ 18] and macaque genome (rheMac2) [ 20].
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