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Journal of Bioinformatics and Computational Biology, ISSN 0219-7200, 2014, Volume 12, Issue 2, pp. 1441004 - 1-1441004-16
Reconstruction of phylogeny of a protein family from a sequence alignment can produce results of different quality. Our goal is to predict the quality of... 
machine learning | random forest | Phylogenetic reconstruction | TREES | MATHEMATICAL & COMPUTATIONAL BIOLOGY
Journal Article
Database : the journal of biological databases and curation, ISSN 1758-0463, 2016, Volume 2016, p. baw085
The Universe of RNA Structures DataBase (URSDB) stores information obtained from all RNA-containing PDB entries (2935 entries in October 2015). The content of... 
SECONDARY STRUCTURE PREDICTION | CLASSIFICATION | 3D MOTIFS | ALGORITHM | MATHEMATICAL & COMPUTATIONAL BIOLOGY | Databases, Genetic | RNA - chemistry | Nucleotide Motifs - genetics | Computational Biology | RNA - genetics | Index Medicus
Journal Article
Journal of bioinformatics and computational biology, 04/2016, Volume 14, Issue 2, p. 1641007
A comparative analysis of all available structures of complexes of TATA-box binding proteins (TBPs) with DNA is performed. Conserved features of DNA-protein... 
Water | Amino Acid Sequence | DNA - chemistry | Hydrogen Bonding | Conserved Sequence | Hydrophobic and Hydrophilic Interactions | Protein Conformation | DNA - metabolism | TATA-Box Binding Protein - chemistry | TATA-Box Binding Protein - metabolism
Journal Article
Journal of bioinformatics and computational biology, 04/2014, Volume 12, Issue 2, p. 1441004
Reconstruction of phylogeny of a protein family from a sequence alignment can produce results of different quality. Our goal is to predict the quality of... 
Proteome - genetics | Eukaryota - genetics | Artificial Intelligence | Base Sequence | Conserved Sequence | Molecular Sequence Data | Archaea - genetics | Phylogeny | Proteobacteria - genetics | Sequence Analysis, DNA - methods
Journal Article
Nucleic Acids Research, ISSN 0305-1048, 01/2013, Volume 41, Issue 1, pp. D517 - D523
The Nucleic acid-Protein Interaction DataBase (http://npidb.belozersky.msu.ru/) contains information derived from structures of DNA-protein and RNA-protein... 
BIOCHEMISTRY & MOLECULAR BIOLOGY | COMPLEXES | Protein Structure, Tertiary | User-Computer Interface | DNA - chemistry | Databases, Protein | RNA-Binding Proteins - chemistry | Water - chemistry | Software | Internet | Nucleic Acid Conformation | RNA - chemistry | DNA-Binding Proteins - chemistry | Index Medicus
Journal Article
Journal of bioinformatics and computational biology, 06/2010, Volume 8, Issue 3, p. 519
We studied the distribution of 1-7 bp words in a dataset that includes 139 complete eukaryotic genomes, 33 masked eukaryotic genomes and coding regions from 35... 
Sequence Alignment - methods | Algorithms | Animals | Base Sequence | Chromosome Mapping - methods | Humans | Genome - genetics | Molecular Sequence Data | Sequence Analysis, DNA - methods
Journal Article
Journal of bioinformatics and computational biology, 06/2010, Volume 8, Issue 3, p. 453
LAGLIDADG family of homing endonucleases are rare-cutting enzymes which recognize long target sequences and are of great interest in genome engineering.... 
DNA - genetics | Amino Acid Sequence | Sequence Analysis, Protein - methods | DNA - chemistry | Deoxyribonuclease I - chemistry | Base Sequence | Deoxyribonuclease I - genetics | Molecular Sequence Data | Protein Binding | Binding Sites | Sequence Analysis, DNA - methods
Journal Article
Journal of bioinformatics and computational biology, 06/2010, Volume 8, Issue 3, p. 503
It makes sense to speak of alignment of protein sequences only within the regions, where the sequences are related to each other. This simple consideration is... 
Amino Acid Sequence | Sequence Alignment - methods | Sequence Analysis, Protein - methods | Algorithms | Molecular Sequence Data | Software | Proteins - chemistry
Journal Article
Journal of Bioinformatics and Computational Biology, ISSN 0219-7200, 04/2006, Volume 4, Issue 2, pp. xi - xiv
Journal Article
Journal of Bioinformatics and Computational Biology, ISSN 0219-7200, 06/2010, Volume 8, Issue 3, pp. 519 - 534
We studied the distribution of 1-7 bp words in a dataset that includes 139 complete eukaryotic genomes, 33 masked eukaryotic genomes and coding regions from 35... 
CpG | TpA | Complete genomes | Content | Words
Journal Article
Journal of Bioinformatics and Computational Biology, ISSN 0219-7200, 04/2016, Volume 14, Issue 2
A comparative analysis of all available structures of complexes of TATA-box binding proteins (TBPs) with DNA is performed. Conserved features of DNA-protein... 
Structural bioinformatics | DNA-protein interaction | TATA-box binding protein | ELEMENT | TBP | ALIGNMENT | CRYSTAL-STRUCTURE | TRANSCRIPTION | MACHINERY | MATHEMATICAL & COMPUTATIONAL BIOLOGY | MINOR-GROOVE | WATER
Journal Article
Journal of Colloid And Interface Science, ISSN 0021-9797, 2008, Volume 326, Issue 1, pp. 117 - 120
The growth kinetics for AgI nanoparticles formed in the solutions of water/AOT reverse micelles in -hexane, -octane, -decane, and -dodecane were investigated.... 
Nanoparticles | AgI | Hydrocarbon solvents | Reverse micelles | AEROSOL-OT | ELECTRON | SILVER-HALIDES | MICROEMULSIONS | STABILIZATION | NANOCRYSTALS | CHEMISTRY, PHYSICAL | METALLIC NANOPARTICLES | hydrocarbon solvents | nanoparticles | DYNAMICS | reverse micelles | EXCHANGE | ANGLE NEUTRON-SCATTERING | Solvents | Iodides | Growth | Nanotechnology
Journal Article
Proceedings of SPIE - The International Society for Optical Engineering, ISSN 0277-786X, 5/2013, Volume 8772, pp. 87720U - 87720U-12
Single longitudinal-mode Brillouin fiber lasers are very promising for many applications, such as coherent optical communication, interferometric sensing,... 
Single frequency laser | Brillouin lasers | Laser stabilization | Doubly resonant cavity | Semiconductors | Pumps | Lasers | Brillouin zone | Fluid flow | Holes | Fibers | Fiber lasers
Conference Proceeding
Journal of Photochemistry & Photobiology, A: Chemistry, ISSN 1010-6030, 2008, Volume 196, Issue 2, pp. 174 - 179
A procedure for preparation of uniform gold nanoparticles in the ternary Triton X-100/water/cyclohexane system in the presence of sodium sulfite is suggested.... 
Optical absorption spectra | Reverse micelles | Stabilization | Gold nanoparticles | Preparation | Triton X-100 | stabilization | gold nanoparticles | MICROEMULSIONS | NANOCRYSTALS | METAL PARTICLES | CHEMISTRY, PHYSICAL | DENDRIMERS | COLLOIDS | optical absorption spectra | SIZE-CONTROLLED SYNTHESIS | preparation | AQUEOUS-SOLUTION | MOLECULES | X-100 | reverse micelles | WATER
Journal Article
Journal of Bioinformatics and Computational Biology, ISSN 0219-7200, 06/2010, Volume 8, Issue 3, pp. 503 - 517
It makes sense to speak of alignment of protein sequences only within the regions, where the sequences are related to each other. This simple consideration is... 
Protein sequences | Block of alignment | Algorithms | Multiple alignment
Journal Article
Journal of Bioinformatics and Computational Biology, ISSN 0219-7200, 06/2010, Volume 8, Issue 3, pp. 453 - 469
LAGLIDADG family of homing endonucleases are rare-cutting enzymes which recognize long target sequences and are of great interest in genome engineering.... 
Meganucleases | ProteinDNA interactions | Comparative analysis | Protein dimerization interface
Journal Article
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