In this paper we introduce a novel parallel work-flow-based aligner for fast and accurate mapping of RNA sequences on servers equipped with multicore processors. Our software, named HPG Aligner W1, leverages the speed of the BurrowsWheeler Transform to map a large number of RNA fragments (reads) rapidly, as well as the accuracy of the Smith-Waterman algorithm to deal with conflictive reads. The...

in ferdowsi’s shāh-nāmeh, “farr” is one of the most important and most frequent concepts. the ideal concept of “farr” appears in the charismatic (i.e. farreh-mand) person in the form of holy light, miraculous powers, mastery over nature, good fortune, or in the form of material indices like sacred animals and tools. this myth is associated with the formation of community, the concept of social ...

Correspondence To the Editor: Frederick Goodwin, an influential figure in bipolar mood disorder, famously said, if you can't, or you won't use lithium, get out from the business of treating bipolar disorders! Lithium remains the gold standard treatment of bipolar mood disorder. But, sorely, it is underutilized in Child/Adolescent Psychiatry, despite Food and Drug Administration's approval for a...

New upper and lower bounds are presented for a multi-dimensional generalization of bin pa king alled box pa king. Several variants of this problem, in luding bounded spa e box pa king, square pa king, variable sized box pa king and resour e augmented box pa king are also studied. The main results, stated for d = 2, are as follows: A new upper bound of 2.66013 for online box pa king, a new 14=9 ...

All ribosome profiling experiments analyzed involve attaching a known sequence to the 3′ end of RNA footprints to which a reverse transcription primer can be annealed. Some experiments use polyA tailing for this purpose, while others attach an oligonucleotide linker sequence. For experiments using polyA tailing, reads were trimmed from the end back to the first base that wasn’t an A or an N. Fo...

Genome assembly using high throughput data with short reads, arguably, remains an unresolvable task in repetitive genomes, since when the length of a repeat exceeds the read length, it becomes difficult to unambiguously connect the flanking regions. The emergence of third generation sequencing (Pacific Biosciences) with long reads enables the opportunity to resolve complicated repeats that coul...

MOTIVATION Chromosome rearrangement events are triggered by atypical breaking and rejoining of DNA molecules, which are observed in many cancer-related diseases. The detection of rearrangement is typically done by using short reads generated by next-generation sequencing (NGS) and combining the reads with knowledge of a reference genome. Because structural variations and genomes differ from one...

This article deals with the issues of legal linguistics, thesaurus, language, terminology, language laws, style and translation. It is emphasized that creation a thesaurus platform in Uzbekistan an urgent task. The research works carried out field terminology during years independence also analyzed problems this sphere are identified. use terms different forms leads to negative situations pract...

With the advent of second-generation sequencing (SGS) technologies, deoxyribonucleic acid (DNA) sequencing machines have started to produce reads, named as “longer short reads”, which are much longer than previous generation reads, the so called “short reads”. Unfortunately, most of the existing read aligners do not scale well for those second-generation longer short reads. Moreover, many of th...

MOTIVATION The boost of next-generation sequencing technologies provides us with an unprecedented opportunity for elucidating genetic mysteries, yet the short-read length hinders us from better assembling the genome from scratch. New protocols now exist that can generate overlapping pair-end reads. By joining the 3' ends of each read pair, one is able to construct longer reads for assembling. H...