Literature DB >> 33668793

A Workflow for Selection of Single Nucleotide Polymorphic Markers for Studying of Genetics of Ischemic Stroke Outcomes.

Gennady Khvorykh1, Andrey Khrunin1, Ivan Filippenkov1, Vasily Stavchansky1, Lyudmila Dergunova1, Svetlana Limborska1.   

Abstract

In this paper we propose a workflow for studying the genetic architecture of ischemic stroke outcomes. It develops further the candidate gene approach. The workflow is based on the animal model of brain ischemia, comparative genomics, human genomic variations, and algorithms of selection of tagging single nucleotide polymorphisms (tagSNPs) in genes which expression was changed after ischemic stroke. The workflow starts from a set of rat genes that changed their expression in response to brain ischemia and results in a set of tagSNPs, which represent other SNPs in the human genes analyzed and influenced on their expression as well.

Entities:  

Keywords:  human orthologues; ischemic stroke; models of brain ischemia; single nucleotide polymorphisms

Year:  2021        PMID： 33668793      PMCID： PMC7996278          DOI： 10.3390/genes12030328

Source DB:  PubMed          Journal:  Genes (Basel)        ISSN： 2073-4425            Impact factor:   4.096


  30 in total

Review 1.  Digital candidate gene approach (DigiCGA) for identification of cancer genes.

Authors:  Meng-Jin Zhu; Xiang Li; Shu-Hong Zhao
Journal:  Methods Mol Biol       Date:  2010

2.  Evaluation of HapMap data in six populations of European descent.

Authors:  Per E Lundmark; Ulrika Liljedahl; Dorret I Boomsma; Heikki Mannila; Nicholas G Martin; Aarno Palotie; Leena Peltonen; Markus Perola; Tim D Spector; Ann-Christine Syvänen
Journal:  Eur J Hum Genet       Date:  2008-04-09       Impact factor: 4.246

Review 3.  Different strokes for different folks: the rich diversity of animal models of focal cerebral ischemia.

Authors:  David W Howells; Michelle J Porritt; Sarah S J Rewell; Victoria O'Collins; Emily S Sena; H Bart van der Worp; Richard J Traystman; Malcolm R Macleod
Journal:  J Cereb Blood Flow Metab       Date:  2010-05-19       Impact factor: 6.200

Review 4.  Current concepts and clinical applications of stroke genetics.

Authors:  Guido J Falcone; Rainer Malik; Martin Dichgans; Jonathan Rosand
Journal:  Lancet Neurol       Date:  2014-04       Impact factor: 44.182

5.  MetaPhOrs: orthology and paralogy predictions from multiple phylogenetic evidence using a consistency-based confidence score.

Authors:  Leszek P Pryszcz; Jaime Huerta-Cepas; Toni Gabaldón
Journal:  Nucleic Acids Res       Date:  2010-12-11       Impact factor: 16.971

6.  Ensembl variation resources.

Authors:  Sarah E Hunt; William McLaren; Laurent Gil; Anja Thormann; Helen Schuilenburg; Dan Sheppard; Andrew Parton; Irina M Armean; Stephen J Trevanion; Paul Flicek; Fiona Cunningham
Journal:  Database (Oxford)       Date:  2018-01-01       Impact factor: 3.451

Review 7.  Clinical Variables and Genetic Risk Factors Associated with the Acute Outcome of Ischemic Stroke: A Systematic Review.

Authors:  Nuria P Torres-Aguila; Caty Carrera; Elena Muiño; Natalia Cullell; Jara Cárcel-Márquez; Cristina Gallego-Fabrega; Jonathan González-Sánchez; Alejandro Bustamante; Pilar Delgado; Laura Ibañez; Laura Heitsch; Jerzy Krupinski; Joan Montaner; Joan Martí-Fàbregas; Carlos Cruchaga; Jin-Moo Lee; Israel Fernandez-Cadenas
Journal:  J Stroke       Date:  2019-09-30       Impact factor: 6.967

8.  A genome-wide analysis of populations from European Russia reveals a new pole of genetic diversity in northern Europe.

Authors:  Andrey V Khrunin; Denis V Khokhrin; Irina N Filippova; Tõnu Esko; Mari Nelis; Natalia A Bebyakova; Natalia L Bolotova; Janis Klovins; Liene Nikitina-Zake; Karola Rehnström; Samuli Ripatti; Stefan Schreiber; Andre Franke; Milan Macek; Veronika Krulišová; Jan Lubinski; Andres Metspalu; Svetlana A Limborska
Journal:  PLoS One       Date:  2013-03-07       Impact factor: 3.240

9.  Standardized benchmarking in the quest for orthologs.

Authors:  Adrian M Altenhoff; Brigitte Boeckmann; Salvador Capella-Gutierrez; Daniel A Dalquen; Todd DeLuca; Kristoffer Forslund; Jaime Huerta-Cepas; Benjamin Linard; Cécile Pereira; Leszek P Pryszcz; Fabian Schreiber; Alan Sousa da Silva; Damian Szklarczyk; Clément-Marie Train; Peer Bork; Odile Lecompte; Christian von Mering; Ioannis Xenarios; Kimmen Sjölander; Lars Juhl Jensen; Maria J Martin; Matthieu Muffato; Toni Gabaldón; Suzanna E Lewis; Paul D Thomas; Erik Sonnhammer; Christophe Dessimoz
Journal:  Nat Methods       Date:  2016-04-04       Impact factor: 28.547

10.  The mutational constraint spectrum quantified from variation in 141,456 humans.

Authors:  Konrad J Karczewski; Laurent C Francioli; Grace Tiao; Beryl B Cummings; Jessica Alföldi; Qingbo Wang; Ryan L Collins; Kristen M Laricchia; Andrea Ganna; Daniel P Birnbaum; Laura D Gauthier; Harrison Brand; Matthew Solomonson; Nicholas A Watts; Daniel Rhodes; Moriel Singer-Berk; Eleina M England; Eleanor G Seaby; Jack A Kosmicki; Raymond K Walters; Katherine Tashman; Yossi Farjoun; Eric Banks; Timothy Poterba; Arcturus Wang; Cotton Seed; Nicola Whiffin; Jessica X Chong; Kaitlin E Samocha; Emma Pierce-Hoffman; Zachary Zappala; Anne H O'Donnell-Luria; Eric Vallabh Minikel; Ben Weisburd; Monkol Lek; James S Ware; Christopher Vittal; Irina M Armean; Louis Bergelson; Kristian Cibulskis; Kristen M Connolly; Miguel Covarrubias; Stacey Donnelly; Steven Ferriera; Stacey Gabriel; Jeff Gentry; Namrata Gupta; Thibault Jeandet; Diane Kaplan; Christopher Llanwarne; Ruchi Munshi; Sam Novod; Nikelle Petrillo; David Roazen; Valentin Ruano-Rubio; Andrea Saltzman; Molly Schleicher; Jose Soto; Kathleen Tibbetts; Charlotte Tolonen; Gordon Wade; Michael E Talkowski; Benjamin M Neale; Mark J Daly; Daniel G MacArthur
Journal:  Nature       Date:  2020-05-27       Impact factor: 69.504
View more
  3 in total

1.  Genome-Wide RNA-Sequencing Reveals Massive Circular RNA Expression Changes of the Neurotransmission Genes in the Rat Brain after Ischemia-Reperfusion.

Authors:  Ivan B Filippenkov; Vasily V Stavchansky; Alina E Denisova; Liya V Valieva; Julia A Remizova; Ivan V Mozgovoy; Elizaveta I Zaytceva; Leonid V Gubsky; Svetlana A Limborska; Lyudmila V Dergunova
Journal:  Genes (Basel)       Date:  2021-11-24       Impact factor: 4.096

2.  Examination of Genetic Variants Revealed from a Rat Model of Brain Ischemia in Patients with Ischemic Stroke: A Pilot Study.

Authors:  Andrey V Khrunin; Gennady V Khvorykh; Alexandra V Rozhkova; Evgeniya A Koltsova; Elizaveta A Petrova; Ekaterina I Kimelfeld; Svetlana A Limborska
Journal:  Genes (Basel)       Date:  2021-11-30       Impact factor: 4.096

3.  Special Issue: "Genomics of Stroke".

Authors:  Svetlana A Limborska; Ivan B Filippenkov
Journal:  Genes (Basel)       Date:  2022-02-25       Impact factor: 4.096
  3 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.