ORIGINAL RESEARCH

Interactions between gene pools of russian and finnish-speaking populations from Tver region: analysis of 4 million SNP markers

Balanovsky OP1,2,3, Gorin IO1,2, Zapisetskaya YuS2, Golubeva AA2, Kostryukova ES4, Balanovska EV2,3
About authors

1 Vavilov Institute of General Genetics, Moscow, Russia

2 Research Center for Medical Genetics, Moscow, Russia

3 Biobank of North Eurasia, Moscow, Russia

4 Federal Research and Clinical Center of Physical-Chemical Medicine, Moscow, Russia

Correspondence should be addressed: Oleg P. Balanovsky
Gubkina, 3, Moscow, 119991; ur.xobni@yksvonalab

About paper

Funding: the study was supported by the Russian Ministry and Science and Higher Education (Government Contact # 011–17 dated September 26, 2017). Genotyping and manuscript preparation were done under the DNA-based identification Research and Technology Project of the Union State. Bioinformatic analysis and interpretation of the obtained results were carried out under the State Assignment of the Russian Ministry of Science and Higher Education for Bochkov Research Centre for Medical Genetics.

Acknowledgement: we thank all the donors who took part in this study, the Biobank of North Eurasia for DNA collections and Napolskikh VV, the corresponding member of RAS, for his contribution to data interpretation.

10.24075/brsmu.2020.072

Received: 2020-10-10 Accepted: 2020-10-27 Published online: 2020-11-26
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  1. Savinova AI, Stepanova UV. Karel’skaya diaspora uzhnih rayonov Tverskogo Povolgya: istoria formirovaniya i istorycheskaya sud’ba. CARELiCA. 2018; 1 (19): 26–37. Russian.
  2. Savinova AI, Stepanova UV. Rasselenie karel v Verhnevolzhie v seredine — vtoroy polovine XVII v.: opit izucheniya s primeneniem gis-technologiy. Istoricheskaya informatika. 2018; 4: 57–72. Russian.
  3. Vishnevskiy AG, editor. Perepisi naseleniya Rossiyskoy Imperii, SSSR, 15 novykh nezavisimykh gosudarstv. Demoskop Weekly. [Internet]. [cited 2020 Oct 9]. Available from: http://www. demoscope.ru/weekly/ssp/census_types.php?ct=6.
  4. Golovkin AN. Istoriya Tverskoy Karelii. Tver': Studiya-S, 2008; 432 s. Russian.
  5. Agdzhoyan AT, Daragan DM, Skhalyakho RA, Reutov PP, Balanovskiy OP, Balanovskaya EV, et al. Vozmozhnost' sokhraneniya genofonda v diaspore na primere tverskikh karel. Genetika. 2018; 54 (Application S): 91–94. DOI: 10.1134/S0016675818130027. Russian.
  6. Rajman I, Knapp L, Morgan T, Masimirembwa C. African Genetic Diversity: Implications for Cytochrome P450-mediated Drug Metabolism and Drug Development. EBioMedicine. 2017; 17: 67–74.
  7. Jing L, Haiyi L, Xiong Y, Dongsheng L, Shilin L, Jin L, et al. Genetic architectures of ADME genes in five Eurasian admixed populations and implications for drug safety and efficacy. Journal of Medical Genetics. 2014; 51 (9): 614–22.
  8. Mirzaev KB, Fedorinov DS, Ivashchenko1 DV, Sychev DA. ADME pharmacogenetics: future outlook for Russia. Pharmacogenomics. 2019; 20 (11): 847–65.
  9. Kidd KK, Speed WC, Pakstis AJ, Furtado MR, Fang R, Madbouly A, et al. Progress toward an efficient panel of SNPs for ancestry inference. Forensic Science International: Genetics. 2014; 10: 23–32.
  10. Nassir R, Kosoyn R, Tian C, White PA, Butler LM, Silva G, et al. An ancestry informative marker set for determining continental origin: validation and extension using human genome diversity panels. BMC Genetics. 2009; 10: 39.
  11. Balanovskaya EV, Agdzhoyan AT, Chukhryaeva MI, Markina NV, Balaganskaya OA, Balanovskiy OP, et al. Populyatsionnye biobanki: printsipy organizatsii i perspektivy primeneniya v genogeografii i personalizirovannoy meditsine. Genetika. 2016; (12): 1371–87. Russian.
  12. Agdzhoyan AT, Skhalyakho RA, Balaganskaya OA, Kozlov SA, Palipana SD, Balanovskiy OP, et al. Genofond novgorodtsev: mezhdu severom i yugom. Genetika. 2017; 53 (11): 1338–1348. Russian.
  13. Chuhriaev MI, Pavlova ES, Napolskih VV, Garin EV, Balanovsky OP, Balanovska EV, et al. Sohranilis’ li sledy finno-ugorskogo vliyaniya v genofonde russkogo naseleniya Yaroslavskoy oblasti? Svidetel’stva Y-chromosomi. Genetica. 2017; 53 (3): 378–89.
  14. GG-base [Internet]. [cited 2020 Oct 9]. Available from: https:// www.gg-base.org/.
  15. Purcell S, Neale B, Todd-Brown K, Thomas L, Ferreira M, Bender D, et al. PLINK: A Tool Set for Whole-Genome Association and Population-Based Linkage Analyses. The American Journal of Human Genetics. 2007; 559–75.
  16. Alexander DH, Novembre J, Lange K. Fast model-based estimation of ancestry in unrelated individuals. Genome Research. 2009; (19): 1655–64.
  17. Chang CC, Chow CC, Tellier LC, Vattikuti S, Purcell SM, Lee JJ. Second-generation PLINK: rising to the challenge of larger and richer datasets. GigaScience. 2015 Feb 25; 4 (7). Available from: DOI: 10.1186/s13742-015-0047-8.
  18. Price A, Patterson N, Plenge R. et al. Principal components analysis corrects for stratification in genome-wide association studies. Nature Genetics. 2006; 38: 904–9.
  19. Patterson N, Price AL, Reich D. Population Structure and Eigenanalysis. PLOS Genetics [Internet]. 2006; 2 (12): e190 [cited 2020 Oct 9]. Available from: https://doi.org/10.1371/journal. pgen.0020190.
  20. McKinney W. Data structures for statistical computing in Python. SciPy 2010: Proceedings of the 9th Python in Science Conference; 2010 Jun 28 – Jul 3. Austin, Texas. Available from: https://conference.scipy.org/proceedings/scipy2010/mckinney.html.
  21. Reback J, McKinney W, jbrockmendel, Augspurger T, Cloud F, Mehyar M, et al. pandas-dev/pandas: Pandas 1.0.3. Version 1.0.3 [software]. Zenodo. 2020 Mar 18 [cited 2020 Oct 9]. Available from: http://doi.org/10.5281/zenodo.3715232.
  22. Hunter JD. Matplotlib: A 2D Graphics Environment. Computing in Science & Engineering. IEEE Xplore. 2007; 9 (3): 90–95.
  23. Waskom M, Botvinnik O, O'Kane D, Hobson P, Lukauskas S, Qalieh A, et al. mwaskom/seaborn: v0.8.1 (September 2017). Version 0.8.1 [software]. Zenodo. 2017 Sep 3 [cited 2020 Oct 9]. Available from: http://doi.org/10.5281/zenodo.883859.
  24. Alexander DH, Novembre J, Lange K. ADMIXTURE Software. Version 1.3.0 [software]. 2020 May 3 [cited 2020 Oct 9]. Available from: http://dalexander.github.io/admixture/index.html.
  25. Patterson N, Moorjani P, Luo Y, Mallick S, Rohland N, Zhan Y, et al. Ancient Admixture in Human History. GENETICS. 2012; 192 (3): 1065–93.
  26. Auton A, Abecasis G, Altshuler D, et al. A global reference for human genetic variation. Nature. 2015; (526): 68–74.