Autor: Gambin, A, - Katalog OPAC zbiorów

Skocz do pozycji: 1.

Tytuł:: A stable density approach to probe selection for a custom aCGH design
Autorzy:: Gambin, T.
Stankiewicz, P.
Gambin, A.
Powiązania:: https://bibliotekanauki.pl/articles/81185.pdf
Data publikacji:: 2011
Wydawca:: Polska Akademia Nauk. Czytelnia Czasopism PAN
Tematy:: genomic region
probe
copy number alternation
comparative genomic hybridization
human genome
microarray
wide range application
gene expression
methylation
binding protein
Źródło:: BioTechnologia. Journal of Biotechnology Computational Biology and Bionanotechnology; 2011, 92, 3
0860-7796
Pojawia się w:: BioTechnologia. Journal of Biotechnology Computational Biology and Bionanotechnology
Dostawca treści:: Biblioteka Nauki

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Skocz do pozycji: 2.

Tytuł:: Sensitivity analysis of mathematical models of signalling pathways
Autorzy:: Charzynska, A.
Nalecz, A.
Rybinski, M.
Gambin, A.
Powiązania:: https://bibliotekanauki.pl/articles/80205.pdf
Data publikacji:: 2012
Wydawca:: Polska Akademia Nauk. Czytelnia Czasopism PAN
Tematy:: membrane receptor
differential equation
stochastic model
modelling
sensitivity analysis
mathematical model
signalling pathway
dynamic behaviour
Źródło:: BioTechnologia. Journal of Biotechnology Computational Biology and Bionanotechnology; 2012, 93, 3
0860-7796
Pojawia się w:: BioTechnologia. Journal of Biotechnology Computational Biology and Bionanotechnology
Dostawca treści:: Biblioteka Nauki

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Skocz do pozycji: 3.

Tytuł:: Efficient alternatives to PSI-BLAST
Autorzy:: Startek, M.
Lasota, S.
Sykulski, M.
Bułak, A.
Noé, L.
Kucherov, G.
Gambin, A.
Powiązania:: https://bibliotekanauki.pl/articles/201603.pdf
Data publikacji:: 2012
Wydawca:: Polska Akademia Nauk. Czytelnia Czasopism PAN
Tematy:: PSI BLAST tool
sequence alignment
seeding technique
Opis:: In this paper we present two algorithms that may serve as efficient alternatives to the well-known PSI BLAST tool: SeedBLAST and CTX-PSI Blast. Both may benefit from the knowledge about amino acid composition specific to a given protein family: SeedBLAST uses the advisedly designed seed, while CTX-PSI BLAST extends PSI BLAST with the context-specific substitution model. The seeding technique became central in the theory of sequence alignment. There are several efficient tools applying seeds to DNA homology search, but not to protein homology search. In this paper we fill this gap. We advocate the use of multiple subset seeds derived from a hierarchical tree of amino acid residues. Our method computes, by an evolutionary algorithm, seeds that are specifically designed for a given protein family. The seeds are represented by deterministic finite automata (DFAs) and built into the NCBI-BLAST software. This extended tool, named SeedBLAST, is compared to the original BLAST and PSI-BLAST on several protein families. Our results demonstrate a superiority of SeedBLAST in terms of efficiency, especially in the case of twilight zone hits. The contextual substitution model has been proven to increase sensitivity of protein alignment. In this paper we perform a next step in the contextual alignment program. We announce a contextual version of the PSI-BLAST algorithm, an iterative version of the NCBI-BLAST tool. The experimental evaluation has been performed demonstrating a significantly higher sensitivity compared to the ordinary PSI-BLAST algorithm.
Źródło:: Bulletin of the Polish Academy of Sciences. Technical Sciences; 2012, 60, 3; 495-505
0239-7528
Pojawia się w:: Bulletin of the Polish Academy of Sciences. Technical Sciences
Dostawca treści:: Biblioteka Nauki

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