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Yury D. Nechipurenko
Researcher at Engelhardt Institute of Molecular Biology
Publications - 27
Citations - 489
Yury D. Nechipurenko is an academic researcher from Engelhardt Institute of Molecular Biology. The author has contributed to research in topics: DNA & Biology. The author has an hindex of 7, co-authored 14 publications receiving 390 citations. Previous affiliations of Yury D. Nechipurenko include Norwegian University of Science and Technology & Moscow State University.
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Journal ArticleDOI
Comparison of approaches for rational siRNA design leading to a new efficient and transparent method
Olga V. Matveeva,Yury D. Nechipurenko,Leo Rossi,Barry Moore,Pål Sætrom,Aleksey Y. Ogurtsov,John F. Atkins,Svetlana A. Shabalina +7 more
TL;DR: A new method which utilizes linear regression fitting with local duplex stability, nucleotide position-dependent preferences and total G/C content of siRNA duplexes as input parameters is developed and is faster than that of ThermoComposition because it does not employ time-consuming RNA secondary structure calculations and has much less parameters than DSIR.
Journal ArticleDOI
Non-random DNA fragmentation in next-generation sequencing
Maria Poptsova,Il'icheva Ia,Dmitry Yu. Nechipurenko,L. A. Panchenko,Mingian V. Khodikov,Nina Yu. Oparina,R. V. Polozov,Yury D. Nechipurenko,S. L. Grokhovsky +8 more
TL;DR: This work analyzed genomic reads from NGS data and discovered that fragmentation methods based on the action of the hydrodynamic forces on DNA, produce similar bias to conventional sequencing methods.
Journal ArticleDOI
Sequence-Specific Ultrasonic Cleavage of DNA
S. L. Grokhovsky,Il'icheva Ia,Dmitry Yu. Nechipurenko,M. V. Golovkin,L. A. Panchenko,R. V. Polozov,Yury D. Nechipurenko,Yury D. Nechipurenko +7 more
TL;DR: The sequence-dependent ultrasonic cleavage rates of dinucleotides are consistent with reported data on the intensity of the conformational motion of their 5'-deoxyribose, and may be useful for characterizing functional regions of the genome.
Journal ArticleDOI
Optimization of duplex stability and terminal asymmetry for shRNA design.
Olga V. Matveeva,Yibin Kang,Alexey N. Spiridonov,Pål Sætrom,Vladimir A. Nemtsov,Aleksey Y. Ogurtsov,Yury D. Nechipurenko,Svetlana A. Shabalina +7 more
TL;DR: It is shown that shRNAs with short fully paired stems could be successfully selected by optimizing only two parameters: terminal duplex asymmetry and duplex stability of the hypothetical cleavage product, which also relates to the specificity of mRNA target recognition.
Journal ArticleDOI
Nanoconstructions based on double-stranded nucleic acids
Y.M. Yevdokimov,Sergey G. Skuridin,Yury D. Nechipurenko,Mickhail A. Zakharov,Victor I. Salyanov,Arkady A. Kurnosov,V. D. Kuznetsov,V.N. Nikiforov +7 more
TL;DR: The formation and properties of nanoconstruction that consists of the double-stranded DNA molecules located at distance of 35-50 A in the spatial structure of particles of their cholesteric liquid-crystalline dispersions and cross-linked by artificial nanobridges are described.