Infections of the prostate by bacteria, human papillomaviruses, polyomaviruses, xenotropic murine leukemia virus (MLV)-related gammaretroviruses, human cytomegaloviruses and other members of the herpesvirus family have been widely researched. However, many studies have yielded conflicting and controversial results. In this study, we systematically investigated the transcriptomes of human prosta...

Efficient massive mapping algorithm (EMMA), an algorithm on efficiently mapping massive cDNAs onto genomic sequences, has recently been developed. The process of mapping massive cDNAs onto genomic sequences has been improved using more approximate mapping filtering based on an enhanced suffix array coupled with a pruned fast hash table, algorithms of block alignment extensions, and k-longest pa...

High Performance Computing has been very useful to researchers in the Bioinformatics, Medical and related fields. The bioinformatics domain is rich in applications that require extracting useful information from very large and continuously growing sequence of databases. Automated techniques such as DNA sequencers, DNA microarrays & others are continually growing the dataset that is stored in la...

Reciprocal Best Hits (RBH) are a common proxy for orthology in comparative genomics. Essentially, a RBH is found when the proteins encoded by two genes, each in a different genome, find each other as the best scoring match in the other genome. NCBI's BLAST is the software most usually used for the sequence comparisons necessary to finding RBHs. Since sequence comparison can be time consuming, w...

L’article estudia els canvis en la producció agrícola de l’Horta València, una les més extenses i productives Mediterrània l’època. Al llarg segona meitat del segle xix y el primer terç xx, conreus rotacions predominants des temps enrere anaren deixant pas a un nou model productiu. El canvi principal va consistir desaparici&oacu...

INTRODUCTION Interpersonal contacts have been identified as performing an important role in supply chain management, especially where the cultural concept of informal relationships has a major influence on both social and business norms. Perhaps the most studied type of informal relationship is guanxi, which derives from Chinese social-cultural norms and influences human behaviour in society. E...

With Next Generation Sequencers, sequence based transcriptomic or epigenomic assays yield millions of short sequence reads that need to be mapped back on a reference genome. The upcoming versions of these sequencers promise even higher sequencing capacities; this may turn the read mapping task into a bottleneck for which alternative pattern matching approaches must be experimented. We present a...

MOTIVATION Explosive growth of short-read sequencing technologies in the recent years resulted in rapid development of many new alignment algorithms and programs. But most of them are not efficient or not applicable for reads > or approximately equal to 200 bp because these algorithms specifically designed to process short queries with relatively low sequencing error rates. However, the current...

A probe mapping technique using a novel implementation of a persistent q-gram index was developed. It guarantees to find all matches that meet certain definitions. These include exact matching of the central 19 bases of 25 base probes, matching the central 19 bases with at most one or three mismatches and exact matching of any 16 bases. In comparison with BLAST and BLAT, the new methods were ei...