Перегляд за темою "Bioinformatics"

Результати 1-20 з 20

A link between β-catenin and hypertrophy: evaluation and meta-analysis

Palchevska, O.L.; Macewicz, L.L.; Piven, O.O. (Вiopolymers and Cell, 2016)

Heart is a terminally differentiated organ almost unable to regenerate. The remodeling and hypertrophic growth are believed to be the main mechanisms of heart renovation after workloads or injury. Although there have been ...
Bioinformatics analysis of cis-regulatory elements in Mbl1 and Mbl2 genes in Rattus norvegicus

Bondarenko, V.S.; Obolenska, M.Yu. (2015)

Aim. To identify and characterize with the help of bioinformatics the transcription factors binding sites in promoters of Mbl1 and Mbl2 genes, encoding mannose binding lectins in Rattus norvegicus. Methods. Bioinformatics, ...
Cobaltand nickel-containing enzyme constructs from the sequences of methanogens

Chellapandi P.; Balachandramohan J. (Вiopolymers and Cell, 2012)

Aim. The conserved domain of sequences revealed in methanogens is considered for designing enzymes among which the attention has been focused on the metalloenzymes showing evolutionary significances. Methods. Molecular ...
Comparative analysis of nuclear localization signal (NLS) prediction methods

Lisitsyna, O.M.; Seplyarskiy, V.B.; Sheval, E.V. (Вiopolymers and Cell, 2017)

Aim. Comparative analysis of six state-of-the-art nuclear localization signal (NLS) prediction methods (PSORT II, NucPred, cNLSMapper, NLStradamus, NucImport and seqNLS). Methods. Each program was tested for correct ...
Computational analysis of microarray gene expression profiles of lung cancer

Babichev, S.A.; Kornelyuk, A.I.; Lytvynenko, V.I.; Osypenko, V.V. (Вiopolymers and Cell, 2016)

Aim. The article presents the researches on the optimization of the DNA microarray data processing, which is aimed at improving the quality of object clustering. Methods. Data preprocessing was performed with program R ...
Computational approaches for parameterization of aminoacyl-tRNA synthetase substrates

Rayevsky, O.V.; Tukalo, M.A. (Вiopolymers and Cell, 2018)

Aim. To parameterize a modified chained residue and use a newborn topology for molecular dynamics simulation. Methods. To deal with the problem, a series of ab initio and semi-empirical methods were combined. The RESP ...
Creation of gene expression database on preeclampsia-affected human placenta

Lykhenko, O.; Frolova, A.O.; Obolenskaya, M.Yu. (Вiopolymers and Cell, 2017)

Publication of gene expression raw data in public repositories made it possible to reuse these data for cross-experiment integrative analysis and make new insights into biological phenomena. However, data uploaded by ...
Design of potentially active ligands for SH2 domains by molecular modeling methods

Hurmach, V.V.; Balinskyi, O.M.; Platonov, M.O.; Boyko, O.M.; Borysko, P.O.; Prylutskyy, Yu.I. (Вiopolymers and Cell, 2014)

Search for new chemical structures possessing specific biological activity is a complex problem that needs the use of the latest achievements of molecular modeling technologies. It is well known that SH2 domains play a ...
Flexible 3D structure of Bos taurus tyrosyl-tRNA synthetase suggests the existence of the hinge mechanism provided by conservative Gly353 at interdomain linker

Pydiura, N.A.; Kornelyuk, A.I. (Вiopolymers and Cell, 2012)

Mammalian tyrosyl-tRNA synthetase is composed of two structural modules: N-terminal catalytic miniTyrRS and non-catalytic cytokine-like C-terminal module connected by a flexible peptide linker. Till now, the 3D structure ...
Geometric filters for protein–ligand complexes based on phenomenological molecular models

Sudakov, O.O.; Balinskyi, O.M.; Platonov, M.O.; Kovalskyy, D.B. (Вiopolymers and Cell, 2013)

Molecular docking is a widely used method of computer-aided drug design capable of accurate prediction of protein-ligand complex conformations. However, scoring functions used to estimate free energy of binding still lack ...
Identification of hierarchy of dynamic domains in proteins: comparison of HDWA and HCCP techniques

Yesylevskyy, S.O. (Вiopolymers and Cell, 2010)

Aim. There are several techniques for the identification of hierarchy of dynamic domains in proteins. The goal of this work is to compare systematically two recently developed techniques, HCCP and HDWA,on a set of proteins ...
Mathematical modeling of folate-related processes in human placenta

Dotsenko, V.A.; Obolenskaya, M.Yu. (Вiopolymers and Cell, 2014)

Aim. Description the folate-related processes in the human placenta using the stoichiometric model and investigation the system’s behavior under various conditions. Methods. The model is based on the stoichiometry of the ...
Molecular docking and molecular dynamics simulation studies on Thermus thermophilus leucyl-tRNA synthetase complexed with different amino acids and pre-transfer editing substrates

Rayevsky, A.V.; Tukalo, M.A. (Вiopolymers and Cell, 2016)

Aim. To investigate the structural bases for the amino acid selectivity of the Thermus thermophilus leucyl-tRNA synthetase (LeuRSTT) aminoacylation site and to disclose the binding pattern of pre-transfer editing substrates. ...
New technique of identifying the hierarchy of dynamic domains in proteins using a method of molecular dynamics simulations

Yesylevskyy, S.O. (Вiopolymers and Cell, 2010)

Despite a large number of existing domain identification techniques there is no universally accepted method, which identifies the hierarchy of dynamic domains using the data of molecular dynamics (MD) simulations. The aim ...
Objective clustering inductive technology of gene expression profiles based on sota clustering algorithm

Babichev, S.A.; Gozhyj, A.; Kornelyuk, A.I.; Lytvynenko, V.I. (Вiopolymers and Cell, 2017)

Aim. Development of an inductive technology of objective clustering of gene expression profiles based on a self-organizing SOTA clustering algorithm. Methods. Inductive methods of complex system analysis were used to ...
PTI-1: novel way to oncogenicity

Vislovukh, A.A.; Shalak, V.F.; Savytskyi, O.V.; Kovalenko, N.I.; Gralievska, N.L.; Negrutskii, B.S.; El’skaya, A.V. (Вiopolymers and Cell, 2012)

Aim. The prostate tumor-inducing oncogene (PTI-1), presumably encoding a truncated form of eukaryotic translation elongation factor 1A1 (eEF1A1), was discovered as a gene overexpressed in prostate tumor samples and absent ...
Similarity and dissimilarity of primary structures of some Streptomyces spp. genomes and the Streptomyces globisporus 1912-2 chromosomal DNA

Polishchuk, L.V. (Вiopolymers and Cell, 2017)

Aim. To determine the similarity and dissimilarity of the nucleotide sequences of the S. globisporus 1912-2 chromosome and primary structures of genomes of some Streptomycetes strains. Methods. NCBI tools (BLAST: blastn ...
The mechanisms of substrates interaction with the active site of Mycobacterium tuberculosis tyrosyl-tRNA synthetase studied by molecular dynamics simulations

Mykuliak, V.V.; Kornelyuk, A.I. (Вiopolymers and Cell, 2014)

Aim. To study the mechanisms of substrates interaction with the active site of Mycobacterium tuberculosis tyrosyl-tRNA synthetase (MtTyrRS). Methods. Complexes of MtTyrRS with tyrosine, ATP and tyrosyl adenylate were ...
Біоінформатичний аналіз вторинної структури тринскриптів інтрона 1 гена whp1 кукурудзи

Сліщук, Г.І.; Волкова, Н.Е.; Сиволап, Ю.М. (Вiopolymers and Cell, 2012)

Цель. Анализ вторичной структуры транскриптов интрона 1 гена whp1 кукурузы. Методы. Выравнивание, фолдинг in silico. Результаты. Найдены сложные микросателлиты. Исследована вторичная структура 74 транскриптов интрона 1 ...
Критерії оцінки результатів мікромасив-експерименту з дослідження транскриптому гепатоцитів щура під впливом інтерферону альфа

Куклін, А.В.; Токовенко, Б.Т.; Оболенська, М.Ю. (Вiopolymers and Cell, 2013)

Транскриптом первинних гепатоцитів щура, культивованих з інтерфероном альфа (ІФН) впродовж трьох і шести годин, досліджували із залученням олігонуклеотидних мікромасивів. Мета. Проведення поетапного аналізу результатів ...

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