Research output: Chapter in Book/Report/Conference proceeding › Conference contribution › Research › peer-review
GPU Based Composite Elements Discovery in Large DNADatasets. / Vishnevsky, Oleg; Bocharnikov, Andrey; Kolchanov, Nikolay.
Proceedings - 2020 Cognitive Sciences, Genomics and Bioinformatics, CSGB 2020. Institute of Electrical and Electronics Engineers Inc., 2020. p. 135-138 9214777 (Proceedings - 2020 Cognitive Sciences, Genomics and Bioinformatics, CSGB 2020).Research output: Chapter in Book/Report/Conference proceeding › Conference contribution › Research › peer-review
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TY - GEN
T1 - GPU Based Composite Elements Discovery in Large DNADatasets
AU - Vishnevsky, Oleg
AU - Bocharnikov, Andrey
AU - Kolchanov, Nikolay
PY - 2020/7
Y1 - 2020/7
N2 - Composite elements play an important role in the regulation of transcription. Existing methods for the revealing of potential composite elements are usually based on assessment of the significance of the mutual presence of the predicted transcription factor binding sites using weight matrices or other methods trained on samples of binding sites of known transcription factors. Thus, such methods essentially depend on the completeness of training samples and information on existing TFs. We have proposed a method for de novo discovery of potential composite elements, which does not require preliminary information about the localization of potential TFBS. Using the proposed approach, context signals are identified in the ChIP-Seq dataset, which can correspond to potential composite elements.
AB - Composite elements play an important role in the regulation of transcription. Existing methods for the revealing of potential composite elements are usually based on assessment of the significance of the mutual presence of the predicted transcription factor binding sites using weight matrices or other methods trained on samples of binding sites of known transcription factors. Thus, such methods essentially depend on the completeness of training samples and information on existing TFs. We have proposed a method for de novo discovery of potential composite elements, which does not require preliminary information about the localization of potential TFBS. Using the proposed approach, context signals are identified in the ChIP-Seq dataset, which can correspond to potential composite elements.
KW - ChIP-Seq
KW - composite elements
KW - oligonucleotide motifs
KW - transcription regulation
UR - http://www.scopus.com/inward/record.url?scp=85094816360&partnerID=8YFLogxK
UR - https://www.elibrary.ru/item.asp?id=45183799
U2 - 10.1109/CSGB51356.2020.9214777
DO - 10.1109/CSGB51356.2020.9214777
M3 - Conference contribution
AN - SCOPUS:85094816360
T3 - Proceedings - 2020 Cognitive Sciences, Genomics and Bioinformatics, CSGB 2020
SP - 135
EP - 138
BT - Proceedings - 2020 Cognitive Sciences, Genomics and Bioinformatics, CSGB 2020
PB - Institute of Electrical and Electronics Engineers Inc.
T2 - 2020 Cognitive Sciences, Genomics and Bioinformatics, CSGB 2020
Y2 - 6 July 2020 through 10 July 2020
ER -
ID: 25863007