Sentence examples for based on genome alignments from inspiring English sources
Here we present a comprehensive exploratory analysis of conserved sequence regions based on genome alignments.
Thus, the overall sequence similarity based on genome alignments for true orthologous regions is too low to be identified.
It also implies that the current conservation studies may have missed many conserved regions by calculating conservation scores based on genome alignments.
Based on genome alignments of reconstructed contigs, we compared their structures with known transcripts and were able to identify 5383 de novo reconstructed transcripts with an exon-intron structure identical to known PN40024 transcripts.
Here, we took an approach that is not based on genome alignments, dubbed GLEAN-UTR (grouping by structura l distanc e and o ntology for RNA elements in UTRs) to uncover conserved RNA structures in UTRs.
Thus, more metagenomic methods not based on genome alignment need to be developed focusing on uncharacterized species and taking into account eukaryotic [ 134] and virus species [ 135 138].
Based on genome alignment and ARDB annotation, we observed that LCT-KP289 contained an extra copy of the sul1 gene in scaffold7.
Furthermore, methods based on genome alignment require normalization by genome size in order to estimate taxonomic abundance without bias [ 7], something that is not possible to estimate for uncharacterized species.
Inferring an accurate phylogeny required generating: 1) A well annotated data set across species based on genome synteny; 2) Alignments with unaligned or incorrectly overaligned sequences filtered out; and 3) Diverse data sets, including genes and their inferred trees, indels, and transposable elements.
This is derived from genome-scale comparison of short regions (e.g., 10,000 bp) but is not based on genome-scale alignments of the full-length chromosomes.
For the long and short libraries, we investigated the evolutionary conservation level of each small RNA cluster and surrounding genome sequence using mean PhastCons scores [ 21] (based on genome-wide alignments of sequenced vertebrate genomes) (See Fig 2 and Methods).
