Sentence examples for rely on alignment from inspiring English sources

1) Unable to annotate many reads - Methods that rely on alignment of reads/contigs to known genomes still fail to align a large number of reads if they are from unknown species.

We chose this approach as opposed to measuring promoter sequence divergence overall because (i) a motif-based approach does not rely on alignment accuracy while accounting for binding site turnover and (ii) it focuses on portions of the promoter that are more likely to be relevant to transcriptional regulation.

Notably, and in contrast to previous global comparison approaches, this definition does not rely on alignment of individual datasets but defines a gene's expression pattern in the context of the genome-wide co-expression network.

The ITS2 RNA secondary structure approach to phylogeny presented here did not rely on alignment methods such as INDELS, but provided clearly homologous characters for partition analysis and RNA molecular morphometrics.

The majority of protein classification methods rely on alignment to known protein sequences to identify the similarities and to build various forms of models (e.g., regular expression patterns [ 4], protein fingerprints [ 5], position-specific scoring matrices [ 6], and profile hidden Markov models [ 7]).

A common problem is that many organisms of biological interest do not have reference genomes, requiring researchers to rely on alignments to sequences derived from phylogenetically distant species in GenBank or other sequence repositories.

Thus, the algorithm can be universally applied in various biological studies relying on alignment.

One shortcoming of all of these studies has been that they have relied on alignment of the sequence reads to the N2 reference genome.

Genome-wide profiling of chromatin features such as histone tail modifications and DNA-binding proteins relies on alignment to the reference genome and hence excludes highly repetitive sequences.

Although the priors are different, GATK [ 16] and SAMtools [ 15] use rather similar Bayesian methods for estimation of the posterior probability of the genotype and detection of variants relying on alignment.

Automated genome annotation software that relies on alignment with gapping, from BLAST and BLAT thru GeneWise, Exonerate and similar tools, may have problems identifying tandem genes and pseudogenes in areas with highly identical exons [ 54].