Search Results - "регуляция трансляции"

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Academic Journal

Неканоноческие свойства рибосомного белка eL38 - участника процесса формирования осевого скелета у млекопитающих

Contributors: Казанский (Приволжский) федеральный университет

Subject Terms: РНК-белковые сшивки в клетках, рибосомный белок eL38, регуляция трансляции специфических мРНК, рибосомный профайлинг, неканонические функции рибосомных белков

Access URL: https://openrepository.ru/article?id=190681

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Academic Journal

Рибосома и биосинтез белка в старении

Contributors: Казанский (Приволжский) федеральный университет

Subject Terms: регуляция трансляции, биосинтез белка, киназа mTOR, транскриптом, старение, рибосомный профайлинг, рибосома

Access URL: https://openrepository.ru/article?id=190740

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Academic Journal

The use of graphics accelerators to detect functional signals in the regulatory regions of prokaryotic genes ; Использование графических ускорителей для выявления функциональных сигналов в регуляторных районах генов прокариот

Authors: O. V. Vishnevsky, A. V. Bocharnikov, A. A. Romanenko, О. В. Вишневский, А. В. Бочарников, А. А. Романенко

Source: Vavilov Journal of Genetics and Breeding; Том 19, № 6 (2015); 661-667 ; Вавиловский журнал генетики и селекции; Том 19, № 6 (2015); 661-667 ; 2500-3259

Subject Terms: графические ускорители, transcription regulation, translation regulation, CUDA, GPU, регуляция транскрипции, регуляция трансляции

File Description: application/pdf

Relation: https://vavilov.elpub.ru/jour/article/view/482/810; Baker Z.K., Prasanna V.K. An architecture for efficient hardware data mining using reconfigurable computing systems. 14th Annual IEEE Symp. on Field-Programmable Custom Computing Machines, 2006.; Benson D.A., Cavanaugh M., Clark K., Karsch-Mizrachi I., Lipman D. J., Ostell J., Sayers E.W. GenBank. Nucl. Acids Res. 2013;41(Database issue):D36-42.; Elnitski L., Hardison R.C., Yang S., Kolbe D., Eswara P., O’Connor M. J., Schwartz S., Miller W. Chiaromonte F. Distinguishing regulatory DNA from neutral sites. Genome Res. 2003;13(1):64-72.; Fomin E.S., Alemasov N.A. Implementation of a non-bonded interaction calculation algorithm for the cell architecture. Lect. Notes Comput. Sci. 2009;5698:399-405.; Grundy W.N., Bailey T.L., Elkan C.P. ParaMEME: a parallel implementation and a web interface for a DNA and protein motif discovery tool. CABIOS. 1996;12:303-310.; Hertz G.Z, Stormo G.D. Identifying DNA and protein patterns with statistically significant alignments of multiple sequences. Bioinformatics. 1999;15:563-577.; Kolchanov N.A., Ignatieva E.V., Ananko E.A., Podkolodnaya O.A., Stepanenko I.L., Merkulova T.I., Pozdnyakov M.A., Podkolodny N. L., Naumochkin A.N., Romashchenko A.G. Transcription Regulatory Regions Database (TRRD): its status in 2002. Nucl. Acids Res. 2002;30:312-317.; Lawrence C.E., Altschul S.F., Boguski M.S., Liu J.S., Neuwald A.F., Wootton J.C. Detecting subtle sequence signals: a Gibbs sampling strategy for multiple alignment. Science. 1993;262:208-214.; Manavski S.A., Valle G. CUDA compatible GPU cards as efficient hardware accelerators for Smith–Waterman sequence alignment. BMC Bioinformatics. 2008;26;9 Suppl 2:S10.; Marsan L., Sagot M.F. Algorithms for extracting structured motifs using a suffix tree with an application to promoter and regulatory site consensus identification. J. Comput. Biol. 2000;7:345-362.; Matys V., Kel-Margoulis O.V., Fricke E., Liebich I., Land S., Barre-Dirrie A., Reuter I., Chekmenev D., Krull M., Hornischer K., Voss N., Stegmaier P., Lewicki-Potapov B., Saxel H., Kel A.E., Wingender E. TRANSFAC and its module TRANSCompel: transcriptional gene regulation in eukaryotes. Nucl. Acids Res. 2006;34:D108-10.; Mrázek J., Gaynon L.H., Karlin S. Frequent oligonucleotide motifs in genomes of three streptococci. Nucl. Acids Res. 2002;19:4216-4221.; NVIDIA CUDA programming guide 3.2. [http://developer.download.nvidia.com/compute/cuda/3_2/toolkit/docs/CUDA_C_Programming_Guide.pdf]; Osada R., Zaslavsky E., Singh. M. Comparative analysis of methods for representing and searching for transcription factor binding sites. Bioinformatics 2004;20(18):3516-3525.; Pesole G., Liuni S., Dsouza M. PatSearch: a pattern matcher software that finds functional elements in nucleotide and protein sequences and assesses their statistical significance. Bioinformatics. 2000;16:439-450.; Pevzner P.A., Sze S.H. Combinatorial approaches to finding subtle signals in DNA sequences. Proc. of the 8th Int. Conf. on Intelligent Systems for Molecular Biology (ISMB). 2000.; Portales-Casamar E., Thongjuea S., Kwon A.T., Arenillas D., Zhao X., Valen E., Yusuf D., Lenhard B., Wasserman W.W., Sandelin A. JASPAR 2010: the greatly expanded open-access database of transcription factor binding profiles. Nucl. Acids Res. 2010;38:D105-10.; Sukhwani B., Herbordt M.C. GPU acceleration of a production molecular docking code. Proc. of 2nd Workshop on General Purpose Processing on Graphics Processing Units. 2009.; Vishnevsky O.V., Gunbin K.V., Bocharnikov A.V., Berezikov E.V. Analysis of the conservative motifs in promoters of miRNA genes, expressed in different tissues of mammalians. Evolutionary Biology Concepts, Molecular and Morphological Evolution. 2011.; Vishnevsky O.V., Kolchanov N.A. ARGO: a web system for the detection of degenerate motifs and large-scale recognition of eukaryotic promoters. Nucl. Acids Res. 2005;33(Web Server issue):417-22.; Yooseph S., Sutton G., Rusch D.B., Halpern A.L., Williamson S.J., Remington K., Eisen J.A., Heidelberg K.B., Manning G., Li W., Jaroszewski L., Cieplak P., Miller C.S., Li H., Mashiyama S.T., Joachimiak M.P., van Belle C., Chandonia J.M., Soergel D.A., Zhai Y., Natarajan K., Lee S., Raphael B.J., Bafna V., Friedman R., Brenner S.E., Godzik A., Eisenberg D., Dixon J.E., Taylor S.S., Strausberg R.L., Frazier M., Venter J.C. The sorcerer II global ocean sampling expedition: expanding the universe of protein families. PLoS Biol. 2007:5(3):e16.; https://vavilov.elpub.ru/jour/article/view/482

Availability: https://vavilov.elpub.ru/jour/article/view/482
https://doi.org/10.18699/VJ15.087

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