Is the identification of SNP-miRNA interactions supporting the prediction of human lymphocyte transcriptional radiation responses?

Marzena Dolbniak; Joanna Zyla; Sylwia Kabacik; Grainne Manning; Christophe Badie; Ghazi Alsbeih; Joanna Polanska

doi:10.5220/0005286102430250

Is the identification of SNP-miRNA interactions supporting the prediction of human lymphocyte transcriptional radiation responses?

Marzena Dolbniak
, Joanna Zyla
, Sylwia Kabacik
, Grainne Manning
, Christophe Badie
, Ghazi Alsbeih
, Joanna Polanska

Katedra Inżynierii i Analizy Eksploracyjnej Danych (RAU/RAU4)

Silesian University of Technology
UK Health Security Agency
King Faisal Specialist Hospital and Research Centre

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Abstrakt

Genome-Wide Association Studies (GWAS) are of great importance in identifying the genetic variants associated with traits/diseases. Due to the high number of candidate SNPs some filtering techniques are necessary to be applied. The aim of the study was to develop the comprehensive approach allowing for detailed analysis of both SNP-gene and SNP-miRNA-gene relations. We elaborated and optimized the novel signal analysis pipeline improving significantly the results of the analysis on genotype-phenotype interplay. Direct links between genotype results and gene expression levels were enriched by detailed analysis of SNP-miRNA-gene interactions at both mature miRNA structure/seed region and target binding site level. The proposed technique was applied to the data on lymphocyte radiation response and increased by almost 100% number of potential functional SNPs.

Język oryginału	angielski
Tytuł publikacji goszczącej	BIOINFORMATICS 2015 - 6th International Conference on Bioinformatics Models, Methods and Algorithms, Proceedings; Part of 8th International Joint Conference on Biomedical Engineering Systems and Technologies, BIOSTEC 2015
Redaktorzy	Oscar Pastor, Christine Sinoquet, Ana Fred, Hugo Gamboa, Dirk Elias
Wydawca	SciTePress
Strony	243-250
Liczba stron	8
ISBN (elektroniczny)	9789897580703
Identyfikatory DOI	https://doi.org/10.5220/0005286102430250
Status publikacji	Opublikowano - 2015
Wydarzenie	6th International Conference on Bioinformatics Models, Methods and Algorithms, BIOINFORMATICS 2015 - Lisbon, Portugalia Czas trwania: 12 sty 2015 → 15 sty 2015

Seria publikacji

Nazwa	BIOINFORMATICS 2015 - 6th International Conference on Bioinformatics Models, Methods and Algorithms, Proceedings; Part of 8th International Joint Conference on Biomedical Engineering Systems and Technologies, BIOSTEC 2015

Konferencja

Konferencja	6th International Conference on Bioinformatics Models, Methods and Algorithms, BIOINFORMATICS 2015
Kraj/Terytorium	Portugalia
Miejscowość	Lisbon
Okres	12/01/15 → 15/01/15

Obszary tematyczne ASJC Scopus

Inżynieria biomedyczna
Informatyka medyczna
Architektura

Uzyskaj dostęp do dokumentu

10.5220/0005286102430250

Inne pliki i linki

Link do publikacji w Scopus

Cytuj to

Dolbniak, M., Zyla, J., Kabacik, S., Manning, G., Badie, C., Alsbeih, G., & Polanska, J. (2015). Is the identification of SNP-miRNA interactions supporting the prediction of human lymphocyte transcriptional radiation responses? W O. Pastor, C. Sinoquet, A. Fred, H. Gamboa, & D. Elias (Red.), BIOINFORMATICS 2015 - 6th International Conference on Bioinformatics Models, Methods and Algorithms, Proceedings; Part of 8th International Joint Conference on Biomedical Engineering Systems and Technologies, BIOSTEC 2015 (str. 243-250). (BIOINFORMATICS 2015 - 6th International Conference on Bioinformatics Models, Methods and Algorithms, Proceedings; Part of 8th International Joint Conference on Biomedical Engineering Systems and Technologies, BIOSTEC 2015). SciTePress. https://doi.org/10.5220/0005286102430250

Dolbniak, Marzena ; Zyla, Joanna ; Kabacik, Sylwia i in. / Is the identification of SNP-miRNA interactions supporting the prediction of human lymphocyte transcriptional radiation responses?. BIOINFORMATICS 2015 - 6th International Conference on Bioinformatics Models, Methods and Algorithms, Proceedings; Part of 8th International Joint Conference on Biomedical Engineering Systems and Technologies, BIOSTEC 2015. redaktor / Oscar Pastor ; Christine Sinoquet ; Ana Fred ; Hugo Gamboa ; Dirk Elias. SciTePress, 2015. str. 243-250 (BIOINFORMATICS 2015 - 6th International Conference on Bioinformatics Models, Methods and Algorithms, Proceedings; Part of 8th International Joint Conference on Biomedical Engineering Systems and Technologies, BIOSTEC 2015).

@inproceedings{baae5871a54f4b12b6b839c0184ee862,

title = "Is the identification of SNP-miRNA interactions supporting the prediction of human lymphocyte transcriptional radiation responses?",

abstract = "Genome-Wide Association Studies (GWAS) are of great importance in identifying the genetic variants associated with traits/diseases. Due to the high number of candidate SNPs some filtering techniques are necessary to be applied. The aim of the study was to develop the comprehensive approach allowing for detailed analysis of both SNP-gene and SNP-miRNA-gene relations. We elaborated and optimized the novel signal analysis pipeline improving significantly the results of the analysis on genotype-phenotype interplay. Direct links between genotype results and gene expression levels were enriched by detailed analysis of SNP-miRNA-gene interactions at both mature miRNA structure/seed region and target binding site level. The proposed technique was applied to the data on lymphocyte radiation response and increased by almost 100\% number of potential functional SNPs.",

keywords = "GWAS, Gene expression, Radiation, Radiosensitivity, Single nucleotide polymorphism, miRNA",

author = "Marzena Dolbniak and Joanna Zyla and Sylwia Kabacik and Grainne Manning and Christophe Badie and Ghazi Alsbeih and Joanna Polanska",

year = "2015",

doi = "10.5220/0005286102430250",

language = "English",

series = "BIOINFORMATICS 2015 - 6th International Conference on Bioinformatics Models, Methods and Algorithms, Proceedings; Part of 8th International Joint Conference on Biomedical Engineering Systems and Technologies, BIOSTEC 2015",

publisher = "SciTePress",

pages = "243--250",

editor = "Oscar Pastor and Christine Sinoquet and Ana Fred and Hugo Gamboa and Dirk Elias",

booktitle = "BIOINFORMATICS 2015 - 6th International Conference on Bioinformatics Models, Methods and Algorithms, Proceedings; Part of 8th International Joint Conference on Biomedical Engineering Systems and Technologies, BIOSTEC 2015",

note = "6th International Conference on Bioinformatics Models, Methods and Algorithms, BIOINFORMATICS 2015 ; Conference date: 12-01-2015 Through 15-01-2015",

}

Dolbniak, M, Zyla, J, Kabacik, S, Manning, G, Badie, C, Alsbeih, G & Polanska, J 2015, Is the identification of SNP-miRNA interactions supporting the prediction of human lymphocyte transcriptional radiation responses? w O Pastor, C Sinoquet, A Fred, H Gamboa & D Elias (red), BIOINFORMATICS 2015 - 6th International Conference on Bioinformatics Models, Methods and Algorithms, Proceedings; Part of 8th International Joint Conference on Biomedical Engineering Systems and Technologies, BIOSTEC 2015. BIOINFORMATICS 2015 - 6th International Conference on Bioinformatics Models, Methods and Algorithms, Proceedings; Part of 8th International Joint Conference on Biomedical Engineering Systems and Technologies, BIOSTEC 2015, SciTePress, str. 243-250, 6th International Conference on Bioinformatics Models, Methods and Algorithms, BIOINFORMATICS 2015, Lisbon, Portugalia, 12/01/15. https://doi.org/10.5220/0005286102430250

Is the identification of SNP-miRNA interactions supporting the prediction of human lymphocyte transcriptional radiation responses? / Dolbniak, Marzena; Zyla, Joanna; Kabacik, Sylwia i in.
BIOINFORMATICS 2015 - 6th International Conference on Bioinformatics Models, Methods and Algorithms, Proceedings; Part of 8th International Joint Conference on Biomedical Engineering Systems and Technologies, BIOSTEC 2015. red. / Oscar Pastor; Christine Sinoquet; Ana Fred; Hugo Gamboa; Dirk Elias. SciTePress, 2015. str. 243-250 (BIOINFORMATICS 2015 - 6th International Conference on Bioinformatics Models, Methods and Algorithms, Proceedings; Part of 8th International Joint Conference on Biomedical Engineering Systems and Technologies, BIOSTEC 2015).

Wyniki badań: Rozdział w książce/raport/materiał konferencyjny › Wkład w konferencję › recenzja