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How to Use SNP_TATA_Comparator to Find a Significant Change in Gene Expression Caused by the Regulatory SNP of This Gene’s Promoter via a Change in Affinity of the TATA-Binding Protein for This Promoter
Joint Authors
Ponomarenko, M. P.
Ponomarenko, Mikhail
Rasskazov, Dmitry
Arkova, Olga
Suslov, Valentin
Savinkova, Ludmila
Kolchanov, Nikolay
Source
Issue
Vol. 2015, Issue 2015 (31 Dec. 2015), pp.1-17, 17 p.
Publisher
Hindawi Publishing Corporation
Publication Date
2015-10-04
Country of Publication
Egypt
No. of Pages
17
Main Subjects
Abstract EN
The use of biomedical SNP markers of diseases can improve effectiveness of treatment.
Genotyping of patients with subsequent searching for SNPs more frequent than in norm is the only commonly accepted method for identification of SNP markers within the framework of translational research.
The bioinformatics applications aimed at millions of unannotated SNPs of the “1000 Genomes” can make this search for SNP markers more focused and less expensive.
We used our Web service involving Fisher’s Z-score for candidate SNP markers to find a significant change in a gene’s expression.
Here we analyzed the change caused by SNPs in the gene’s promoter via a change in affinity of the TATA-binding protein for this promoter.
We provide examples and discuss how to use this bioinformatics application in the course of practical analysis of unannotated SNPs from the “1000 Genomes” project.
Using known biomedical SNP markers, we identified 17 novel candidate SNP markers nearby: rs549858786 (rheumatoid arthritis); rs72661131 (cardiovascular events in rheumatoid arthritis); rs562962093 (stroke); rs563558831 (cyclophosphamide bioactivation); rs55878706 (malaria resistance, leukopenia), rs572527200 (asthma, systemic sclerosis, and psoriasis), rs371045754 (hemophilia B), rs587745372 (cardiovascular events); rs372329931, rs200209906, rs367732974, and rs549591993 (all four: cancer); rs17231520 and rs569033466 (both: atherosclerosis); rs63750953, rs281864525, and rs34166473 (all three: malaria resistance, thalassemia).
American Psychological Association (APA)
Ponomarenko, Mikhail& Rasskazov, Dmitry& Arkova, Olga& Ponomarenko, M. P.& Suslov, Valentin& Savinkova, Ludmila…[et al.]. 2015. How to Use SNP_TATA_Comparator to Find a Significant Change in Gene Expression Caused by the Regulatory SNP of This Gene’s Promoter via a Change in Affinity of the TATA-Binding Protein for This Promoter. BioMed Research International،Vol. 2015, no. 2015, pp.1-17.
https://search.emarefa.net/detail/BIM-1055186
Modern Language Association (MLA)
Ponomarenko, Mikhail…[et al.]. How to Use SNP_TATA_Comparator to Find a Significant Change in Gene Expression Caused by the Regulatory SNP of This Gene’s Promoter via a Change in Affinity of the TATA-Binding Protein for This Promoter. BioMed Research International No. 2015 (2015), pp.1-17.
https://search.emarefa.net/detail/BIM-1055186
American Medical Association (AMA)
Ponomarenko, Mikhail& Rasskazov, Dmitry& Arkova, Olga& Ponomarenko, M. P.& Suslov, Valentin& Savinkova, Ludmila…[et al.]. How to Use SNP_TATA_Comparator to Find a Significant Change in Gene Expression Caused by the Regulatory SNP of This Gene’s Promoter via a Change in Affinity of the TATA-Binding Protein for This Promoter. BioMed Research International. 2015. Vol. 2015, no. 2015, pp.1-17.
https://search.emarefa.net/detail/BIM-1055186
Data Type
Journal Articles
Language
English
Notes
Includes bibliographical references
Record ID
BIM-1055186