Search results for "sequence"

Vairāku sekvenču izlīdzināšanas metožu salīdzinājums

2021

Šajā maģistra darbā paredzēts izpētīt, aprakstīt un salīdzināt dažādas praksē pieejamas vairāku sekvenču izlīdzināšanas metodes. Darbā tiek aprakstīti vairāku sekvenču izlīdzināšanas metožu galvenie pielietojumi bioinformātikā, biežāk sastopamie algoritmi, kuri tiek izmantoti darbā tālāk apskatītajās programmā. Īsi aprakstītas atvērtā koda programmas, kuras industrijā tiek izmantotas visbiežāk. Maģistra darba ietvaros veikts praktisks pētījums par šo metožu priekšrocībām un trūkumiem. Salīdzinājums veikts gan uz reāliem datu masīviem, gan simulētiem, lai spētu pēc iespējas daudzpusīgāk salīdzināt pieejamo programmatūru. Veikta iegūto rezultātu grafiska atspoguļošana un analīze par novērojam…

Peptide classification using optimal and information theoretic syntactic modeling

2010

Accepted version of an article published in the journal: Pattern Recognition. Published version available on Sciverse: http://dx.doi.org/10.1016/j.patcog.2010.05.022 We consider the problem of classifying peptides using the information residing in their syntactic representations. This problem, which has been studied for more than a decade, has typically been investigated using distance-based metrics that involve the edit operations required in the peptide comparisons. In this paper, we shall demonstrate that the Optimal and Information Theoretic (OIT) model of Oommen and Kashyap [22] applicable for syntactic pattern recognition can be used to tackle peptide classification problem. We advoca…

Characterization of field isolates of Trichoderma antagonistic against Rhizoctonia solani.

2010

The aim of the present study was to characterize sixteen isolates of Trichoderma originating from a field of sugar beet where disease patches caused by Rhizoctonia solani were observed. Use of both molecular and morphological characteristics gave consistent identification of the isolates. Production of water-soluble and volatile inhibitors, mycoparasitism and induced systemic resistance in plant host were investigated using in vitro and in vivo tests in both sterilized and natural soils. This functional approach revealed the intra-specific diversity as well as biocontrol potential of the different isolates. Different antagonistic mechanisms were evident for different strains. The most antag…

Synthetic vaccines consisting of tumor-associated MUC1 glycopeptide antigens and a T-cell epitope for the induction of a highly specific humoral immu…

2008

Synthetic vaccines consisting of tumor-associated MUC1 glycopeptide antigens and bovine serum albumin.

2005

Targeting V-ATPase in primary human monocytes by archazolid potently represses the classical secretion of cytokines due to accumulation at the endopl…

2014

The macrolide archazolid inhibits vacuolar-type H(+)-ATPase (V-ATPase), a proton-translocating enzyme involved in protein transport and pH regulation of cell organelles, and potently suppresses cancer cell growth at low nanomolar concentrations. In view of the growing link between inflammation and cancer, we investigated whether inhibition of V-ATPase by archazolid may affect primary human monocytes that can promote cancer by sustaining inflammation through the release of tumor-promoting cytokines. Human primary monocytes express V-ATPase, and archazolid (10-100nM) increases the vesicular pH in these cells. Archazolid (10nM) markedly reduced the release of pro-inflammatory (TNF-α, interleuk…

Inside “Pandora’s Box” of Solidarity: Conflicts Between Paid Staff and Volunteers in the Non-profit Sector

2020

Non-profit organizations (NPOs) are quite complex in terms of organizational structure, diversity at the workplace, as well as motivational mechanisms and value rationality. Nevertheless, from the perspective of organizational psychology, the systematic analysis of this context is scarce in the literature, particularly regarding conflicts. This qualitative study analyzes types, prevalence, and consequences of conflicts in a large NPO considering as theoretical framework several consolidated organizational psychology theories: conflict theory, social comparison theory, and equity theory. Conflicts were analyzed taking into account volunteers' perspective, who have been the consistent protago…

A method for determining the position and size of optimal sequence regions for phylogenetic analysis.

1995

The availability of fast and accurate sequencing procedures along with the use of PCR has led to a proliferation of studies of variability at the molecular level in populations. Nevertheless, it is often impractical to examine long genomic stretches and a large number of individuals at the same time. In order to optimize this kind of study, we suggest a heuristic procedure for detection of the shortest region whose informational content can be considered sufficient for significant phylogenetic reconstruction. The method is based on the comparison of the pairwise genetic distances obtained from a set of sequences of reference to those obtained for different windows of variable size and posit…

Sonic hedgehog promotes angiogenesis and osteogenesis in a coculture system consisting of primary osteoblasts and outgrowth endothelial cells.

2009

A number of previous studies documented the angiogenic potential of outgrowth endothelial cells in vitro and in vivo and provided evidence that therapeutic success could depend on coculture or coimplantation strategies. Thus, deeper insight into the molecular mechanisms underlying this pro-angiogenic effect of cocultures might provide new translational options for tissue engineering and regenerative medicine. One promising signaling pathway in bone repair involved in neoangiogenesis and bone formation is the sonic hedgehog (Shh) pathway. In this article, we focus on the effect of Shh on the formation of microvessel-like structures and osteoblastic differentiation in cocultures of primary os…

Cloning and characterization of CSP37, a novel gene encoding a putative membrane protein of Candida albicans.

1997

In the course of an analysis of the functions and assembly of the cell wall of Candida albicans, we have cloned and characterized a gene, which we designated CSP37 (cell surface protein), encoding a 37-kDa polypeptide which is a membrane-associated protein. The gene was isolated by immunological screening of a DNA library constructed from mycelial cells with a polyclonal serum raised against cell walls of this morphology. Analysis of the nucleotide sequence of a corresponding genomic DNA fragment revealed a single open reading frame which encodes a predicted protein of 321 amino acids with no significant homology to others in the databases. Disruption of the CSP37 gene by the method describ…