Aleksey Ogurtsov
Aleksey Ogurtsov
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A periodic pattern of mRNA secondary structure created by the genetic code
SA Shabalina, AY Ogurtsov, NA Spiridonov
Nucleic acids research 34 (8), 2428-2437, 2006
Computational models with thermodynamic and composition features improve siRNA design
SA Shabalina, AN Spiridonov, AY Ogurtsov
BMC bioinformatics 7 (1), 1-16, 2006
Expansion of the human μ-opioid receptor gene architecture: novel functional variants
SA Shabalina, DV Zaykin, P Gris, AY Ogurtsov, J Gauthier, K Shibata, ...
Human molecular genetics 18 (6), 1037-1051, 2009
Comparison of approaches for rational siRNA design leading to a new efficient and transparent method
O Matveeva, Y Nechipurenko, L Rossi, B Moore, P SŠtrom, AY Ogurtsov, ...
Nucleic acids research 35 (8), e63, 2007
Selective constraint in intergenic regions of human and mouse genomes
SA Shabalina, AY Ogurtsov, VA Kondrashov, AS Kondrashov
Trends in Genetics 17 (7), 373-376, 2001
Distinct patterns of expression and evolution of intronless and intron-containing mammalian genes
SA Shabalina, AY Ogurtsov, AN Spiridonov, PS Novichkov, ...
Molecular biology and evolution 27 (8), 1745-1749, 2010
Comparative analysis of orthologous eukaryotic mRNAs: potential hidden functional signals
SA Shabalina, AY Ogurtsov, IB Rogozin, EV Koonin, DJ Lipman
Nucleic Acids Research 32 (5), 1774-1782, 2004
Widespread positive selection in synonymous sites of mammalian genes
AM Resch, L Carmel, L Mari˝o-RamÝrez, AY Ogurtsov, SA Shabalina, ...
Molecular biology and evolution 24 (8), 1821-1831, 2007
Positive selection at sites of multiple amino acid replacements since rat–mouse divergence
GA Bazykin, FA Kondrashov, AY Ogurtsov, S Sunyaev, AS Kondrashov
Nature 429 (6991), 558-562, 2004
OWEN: aligning long collinear regions of genomes
AY Ogurtsov, MA Roytberg, SA Shabalina, AS Kondrashov
Bioinformatics 18 (12), 1703-1704, 2002
Bioinformatical assay of human gene morbidity
FA Kondrashov, AY Ogurtsov, AS Kondrashov
Nucleic acids research 32 (5), 1731-1737, 2004
Role of mRNA structure in the control of protein folding
G Faure, AY Ogurtsov, SA Shabalina, EV Koonin
Nucleic acids research 44 (22), 10898-10911, 2016
Evolution of alternative and constitutive regions of mammalian 5'UTRs
AM Resch, AY Ogurtsov, IB Rogozin, SA Shabalina, EV Koonin
BMC genomics 10 (1), 1-14, 2009
Indel-based evolutionary distance and mouse–human divergence
AY Ogurtsov, S Sunyaev, AS Kondrashov
Genome Research 14 (8), 1610-1616, 2004
Selection in favor of nucleotides G and C diversifies evolution rates and levels of polymorphism at mammalian synonymous sites
FA Kondrashov, AY Ogurtsov, AS Kondrashov
Journal of Theoretical Biology 240 (4), 616-626, 2006
Analysis of similarity within 142 pairs of orthologous intergenic regions of Caenorhabditis elegans and Caenorhabditis briggsae
CT Webb, SA Shabalina, AY Ogurtsov, AS Kondrashov
Nucleic acids research 30 (5), 1233-1239, 2002
Evolution at protein ends: major contribution of alternative transcription initiation and termination to the transcriptome and proteome diversity in mammals
SA Shabalina, AY Ogurtsov, NA Spiridonov, EV Koonin
Nucleic acids research 42 (11), 7132-7144, 2014
Analysis of internal loops within the RNA secondary structure in almost quadratic time
AY Ogurtsov, SA Shabalina, AS Kondrashov, MA Roytberg
Bioinformatics 22 (11), 1317-1324, 2006
Optimization of duplex stability and terminal asymmetry for shRNA design
OV Matveeva, Y Kang, AN Spiridonov, P SŠtrom, VA Nemtsov, ...
PloS one 5 (4), e10180, 2010
Variation in human chromosome 21 ribosomal RNA genes characterized by TAR cloning and long-read sequencing
JH Kim, AT Dilthey, R Nagaraja, HS Lee, S Koren, D Dudekula, ...
Nucleic acids research 46 (13), 6712-6725, 2018
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