Haku
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Analysis of the Gene Expression Patterns of the Human Immunome
(2009)
Pro gradu -tutkielma
Pro gradu -tutkielma
Abstract
Background and aims: Genes and proteins involved in immune system are called immunome. A network is a system where nodes are connected to each other by edges. In gene network genes are nodes and tissues are edges, ...
Genome wide scan for prostate cancer susceptibility genes
(2008)
Pro gradu -tutkielma
Pro gradu -tutkielma
Background and aims: Prostate cancer is the leading cancer type in Finnish men. It was suggested that 5% to 10% of incident cases are attributed to rare, highly penetrated alleles in single gene forms of disease. The aim ...
A molecular dynamics study of ligand binding in mutant avidins
(2009)
Pro gradu -tutkielma
Pro gradu -tutkielma
Background and aims: Chicken avidin is a homotetrameric β-barrel protein, whose affinity towards its natural ligand biotin is the strongest non-covalent protein-ligand interaction known. Functional avidin has four identical ...
A comparison of the number of SNPs and mutations with synonymous (Ks) and nonsynonymous (Ka) substitution rates in human immunome
(2009)
Pro gradu -tutkielma
Pro gradu -tutkielma
Background
Changes that occur in a nucleotide sequence of a gene are known as mutations. Mutations in general and single nucleotide polymorphisms (SNPs) in particular are the major driving forces of both genetic ...
Transcriptional regulation of bidirectional promoters: role of NF-Y
(2010)
Pro gradu -tutkielma
Pro gradu -tutkielma
ABSTRACT
BACKGROUND: About 11% of human genes occur in divergent pairs such that both genes are located on opposite strands of DNA, and their immediate promoters are overlapping. The overlapping proximal promoter of both ...
Codon usage bias of the overlapping genes in microbial genomes
(2010)
Pro gradu -tutkielma
Pro gradu -tutkielma
Abstract
Background and aims: Overlapping genes are adjacent genes whose coding sequences overlap partially or completely. They are abundant in the viruses and also present in archaea, prokaryotes and eukaryotes. Former ...
Finding secretion signals in protein sequences
(2009)
Pro gradu -tutkielma
Pro gradu -tutkielma
Background and aims: Signal peptides are central to biological processes in that they direct proteins to their proper destination after synthesis. If the signal sequence in a nascent was changed, the protein could end up ...
Sequence Conservation Metrics: Implementation and Comparative Analysis
(2009)
Pro gradu -tutkielma
Pro gradu -tutkielma
Background and Aims: Multiple Sequence Alignments (MSAs) help identify regions of similarity and dissimilarity between its constituent sequences, which is essential in understanding structural, functional and evolutionary ...
A joint finite mixture model for clustering genes from beta, Gaussian and Bernoulli distributed data
(2009)
Pro gradu -tutkielma
Pro gradu -tutkielma
Background: Expression and protein-protein interaction data are often coupled in gene clustering, which has succeeded in many applications such as pathway discovery and function inference. However, asynchronous relations, ...
Analysis of missense mutations in adenosine deaminase using Pathogenic-Or-Not-Pipeline (PON-P)
(2010)
Pro gradu -tutkielma
Pro gradu -tutkielma
Background: Adenosine deaminase (ADA, E.C.3.5.4.4) is an enzyme that has an important role in immune functions and in the regulation of intracellular and extracellular concentrations of adenosine and adenosine receptor ...