Evolutionary Perspective and Expression Analysis of Intronless Genes Highlight the Conservation of Their Regulatory Role.

Autor: Aviña-Padilla K; Instituto de Neurobiología, Universidad Nacional Autónoma de México, Querétaro, Mexico.; Centro de Investigacioìn y de Estudios Avanzados del IPN, Unidad Irapuato, Guanajuato, Mexico., Ramírez-Rafael JA; Centro de Física Aplicada y Tecnología Avanzada, Universidad Nacional Autónoma de México, Querétaro, Mexico., Herrera-Oropeza GE; Instituto de Neurobiología, Universidad Nacional Autónoma de México, Querétaro, Mexico.; Centre for Developmental Neurobiology, Institute of Psychiatry, Psychology, and Neuroscience, King's College London, London, United Kingdom., Muley VY; Instituto de Neurobiología, Universidad Nacional Autónoma de México, Querétaro, Mexico., Valdivia DI; Centro de Investigacioìn y de Estudios Avanzados del IPN, Unidad Irapuato, Guanajuato, Mexico., Díaz-Valenzuela E; Centro de Investigacioìn y de Estudios Avanzados del IPN, Unidad Irapuato, Guanajuato, Mexico., García-García A; Centro de Física Aplicada y Tecnología Avanzada, Universidad Nacional Autónoma de México, Querétaro, Mexico., Varela-Echavarría A; Instituto de Neurobiología, Universidad Nacional Autónoma de México, Querétaro, Mexico., Hernández-Rosales M; Centro de Investigacioìn y de Estudios Avanzados del IPN, Unidad Irapuato, Guanajuato, Mexico.

Publikováno v: Frontiers in genetics [Front Genet] 2021 Jul 09; Vol. 12, pp. 654256. Date of Electronic Publication: 2021 Jul 09 (Print Publication: 2021).

Positive Selection in Gene Regulatory Factors Suggests Adaptive Pleiotropic Changes During Human Evolution.

Autor: Jovanovic VM; Human Biology and Primate Evolution, Freie Universität Berlin, Berlin, Germany.; Bioinformatics Solution Center, Freie Universität Berlin, Berlin, Germany., Sarfert M; Human Biology and Primate Evolution, Freie Universität Berlin, Berlin, Germany., Reyna-Blanco CS; Department of Biology, University of Fribourg, Fribourg, Switzerland.; Swiss Institute of Bioinformatics, Fribourg, Switzerland., Indrischek H; Max Planck Institute of Molecular Cell Biology and Genetics, Dresden, Germany.; Max Planck Institute for the Physics of Complex Systems, Dresden, Germany.; Center for Systems Biology Dresden, Dresden, Germany., Valdivia DI; Evolutionary Genomics Laboratory and Genome Topology and Regulation Laboratory, Genetic Engineering Department, Center for Research and Advanced Studies of the National Polytechnic Institute (CINVESTAV-Irapuato), Irapuato, Mexico., Shelest E; Centre for Enzyme Innovation, University of Portsmouth, Portsmouth, United Kingdom., Nowick K; Human Biology and Primate Evolution, Freie Universität Berlin, Berlin, Germany.

Publikováno v: Frontiers in genetics [Front Genet] 2021 May 17; Vol. 12, pp. 662239. Date of Electronic Publication: 2021 May 17 (Print Publication: 2021).

From pairs of most similar sequences to phylogenetic best matches.

Autor: Stadler PF; 1Bioinformatics Group, Department of Computer Science, and Interdisciplinary Center for Bioinformatics, Universität Leipzig, Härtelstraße 16-18, 04107 Leipzig, Germany.; 2Competence Center for Scalable Data Services and Solutions Dresden/Leipzig, Interdisciplinary Center for Bioinformatics, German Centre for Integrative Biodiversity Research (iDiv), and Leipzig Research Center for Civilization Diseases, Universität Leipzig, Augustusplatz 12, 04107 Leipzig, Germany.; 3Max Planck Institute for Mathematics in the Sciences, Inselstraße 22, 04103 Leipzig, Germany.; 4Department of Theoretical Chemistry, University of Vienna, Währinger Straße 17, 1090 Vienna, Austria.; 5Facultad de Ciencias, Universidad National de Colombia, Sede Bogotá, Ciudad Universitaria, 111321 Bogotá, D.C. Colombia.; 6Santa Fe Institute, 1399 Hyde Park Rd., Santa Fe, NM87501 USA., Geiß M; 1Bioinformatics Group, Department of Computer Science, and Interdisciplinary Center for Bioinformatics, Universität Leipzig, Härtelstraße 16-18, 04107 Leipzig, Germany.; 7Software Competence Center Hagenberg GmbH, Softwarepark 21, 4232 Hagenberg, Austria., Schaller D; 1Bioinformatics Group, Department of Computer Science, and Interdisciplinary Center for Bioinformatics, Universität Leipzig, Härtelstraße 16-18, 04107 Leipzig, Germany., López Sánchez A; CONACYT-Instituto de Matemáticas, UNAM Juriquilla, Blvd. Juriquilla 3001, 76230 Juriquilla, Querétaro, QRO México., González Laffitte M; CONACYT-Instituto de Matemáticas, UNAM Juriquilla, Blvd. Juriquilla 3001, 76230 Juriquilla, Querétaro, QRO México., Valdivia DI; 10Departamento de Ingeniería Genética, Centro de Investigación y de Estudios Avanzados del IPN (CINVESTAV), Km. 9.6 Libramiento Norte Carretera Irapuato-León, 36821 Irapuato, GTO México., Hellmuth M; 8School of Computing, University of Leeds, E C Stoner Building, Leeds, LS2 9JT UK., Hernández Rosales M; CONACYT-Instituto de Matemáticas, UNAM Juriquilla, Blvd. Juriquilla 3001, 76230 Juriquilla, Querétaro, QRO México.

Publikováno v: Algorithms for molecular biology : AMB [Algorithms Mol Biol] 2020 Apr 09; Vol. 15, pp. 5. Date of Electronic Publication: 2020 Apr 09 (Print Publication: 2020).

Best match graphs.

Autor: Geiß M; Bioinformatics Group, Department of Computer Science, University of Leipzig, Härtelstraße 16-18, 04107, Leipzig, Germany.; Interdisciplinary Center of Bioinformatics, University of Leipzig, Härtelstraße 16-18, 04107, Leipzig, Germany., Chávez E; CONACYT-Instituto de Matemáticas, UNAM Juriquilla, Blvd. Juriquilla 3001, 76230, Juriquilla, Querétaro, QRO, Mexico., González Laffitte M; CONACYT-Instituto de Matemáticas, UNAM Juriquilla, Blvd. Juriquilla 3001, 76230, Juriquilla, Querétaro, QRO, Mexico., López Sánchez A; CONACYT-Instituto de Matemáticas, UNAM Juriquilla, Blvd. Juriquilla 3001, 76230, Juriquilla, Querétaro, QRO, Mexico., Stadler BMR; Max-Planck-Institute for Mathematics in the Sciences, Inselstraße 22, 04103, Leipzig, Germany., Valdivia DI; Centro de Ciencias Básicas, Universidad Autónoma de Aguascalientes, Av. Universidad 940, 20131, Aguascalientes, AGS, Mexico.; Instituto de Matemáticas, UNAM Juriquilla, Blvd. Juriquilla 3001, 76230, Juriquilla, Querétaro, QRO, Mexico., Hellmuth M; Institute of Mathematics and Computer Science, University of Greifswald, Walther-Rathenau-Straße 47, 17487, Greifswald, Germany.; Center for Bioinformatics, Saarland University, Building E 2.1, P.O. Box 151150, 66041, Saarbrücken, Germany., Hernández Rosales M; CONACYT-Instituto de Matemáticas, UNAM Juriquilla, Blvd. Juriquilla 3001, 76230, Juriquilla, Querétaro, QRO, Mexico., Stadler PF; Bioinformatics Group, Department of Computer Science, University of Leipzig, Härtelstraße 16-18, 04107, Leipzig, Germany. studla@bioinf.uni-leipzig.de.; Interdisciplinary Center of Bioinformatics, University of Leipzig, Härtelstraße 16-18, 04107, Leipzig, Germany. studla@bioinf.uni-leipzig.de.; Max-Planck-Institute for Mathematics in the Sciences, Inselstraße 22, 04103, Leipzig, Germany. studla@bioinf.uni-leipzig.de.; German Centre for Integrative Biodiversity Research (iDiv) Halle-Jena-Leipzig, Leipzig University, Härtelstraße 16-18, 04107, Leipzig, Germany. studla@bioinf.uni-leipzig.de.; Competence Center for Scalable Data Services and Solutions, Leipzig University, Härtelstraße 16-18, 04107, Leipzig, Germany. studla@bioinf.uni-leipzig.de.; Leipzig Research Center for Civilization Diseases, Leipzig University, Härtelstraße 16-18, 04107, Leipzig, Germany. studla@bioinf.uni-leipzig.de.; Institute of Theoretical Chemistry, University of Vienna, Währingerstraße 17, 1090, Vienna, Austria. studla@bioinf.uni-leipzig.de.; Facultad de Ciencias, Universidad National de Colombia, Sede Bogotá, Colombia. studla@bioinf.uni-leipzig.de.; Santa Fe Institute, 1399 Hyde Park Rd, Santa Fe, NM, 87501, USA. studla@bioinf.uni-leipzig.de.

Publikováno v: Journal of mathematical biology [J Math Biol] 2019 Jun; Vol. 78 (7), pp. 2015-2057. Date of Electronic Publication: 2019 Apr 09.

Relative timing information and orthology in evolutionary scenarios.

Autor: Schaller, David¹ (AUTHOR), Hartmann, Tom¹ (AUTHOR), Lafond, Manuel² (AUTHOR), Stadler, Peter F.^1,3,4,5,6,7 (AUTHOR), Wieseke, Nicolas⁸ (AUTHOR), Hellmuth, Marc⁹ (AUTHOR) marc.hellmuth@math.su.se

Publikováno v: Algorithms for Molecular Biology. 11/8/2023, Vol. 18 Issue 1, p1-43. 43p.