Comparative genomics at the vertebrate extremes - PubMed (original) (raw)

• Identification of constrained sequence elements across 239 primate genomes.
  Kuderna LFK, Ulirsch JC, Rashid S, Ameen M, Sundaram L, Hickey G, Cox AJ, Gao H, Kumar A, Aguet F, Christmas MJ, Clawson H, Haeussler M, Janiak MC, Kuhlwilm M, Orkin JD, Bataillon T, Manu S, Valenzuela A, Bergman J, Rouselle M, Silva FE, Agueda L, Blanc J, Gut M, de Vries D, Goodhead I, Harris RA, Raveendran M, Jensen A, Chuma IS, Horvath JE, Hvilsom C, Juan D, Frandsen P, Schraiber JG, de Melo FR, Bertuol F, Byrne H, Sampaio I, Farias I, Valsecchi J, Messias M, da Silva MNF, Trivedi M, Rossi R, Hrbek T, Andriaholinirina N, Rabarivola CJ, Zaramody A, Jolly CJ, Phillips-Conroy J, Wilkerson G, Abee C, Simmons JH, Fernandez-Duque E, Kanthaswamy S, Shiferaw F, Wu D, Zhou L, Shao Y, Zhang G, Keyyu JD, Knauf S, Le MD, Lizano E, Merker S, Navarro A, Nadler T, Khor CC, Lee J, Tan P, Lim WK, Kitchener AC, Zinner D, Gut I, Melin AD, Guschanski K, Schierup MH, Beck RMD, Karakikes I, Wang KC, Umapathy G, Roos C, Boubli JP, Siepel A, Kundaje A, Paten B, Lindblad-Toh K, Rogers J, Marques Bonet T, Farh KK. Kuderna LFK, et al. Nature. 2024 Jan;625(7996):735-742. doi: 10.1038/s41586-023-06798-8. Epub 2023 Nov 29. Nature. 2024. PMID: 38030727 Free PMC article.
• Identification of ancestral gnathostome Gli3 enhancers with activity in mammals.
  Ali S, Abrar M, Hussain I, Batool F, Raza RZ, Khatoon H, Zoia M, Visel A, Shubin NH, Osterwalder M, Abbasi AA. Ali S, et al. Dev Growth Differ. 2024 Jan;66(1):75-88. doi: 10.1111/dgd.12901. Epub 2023 Dec 20. Dev Growth Differ. 2024. PMID: 37925606
• GC-biased gene conversion drives accelerated evolution of ultraconserved elements in mammalian and avian genomes.
  Liu A, Wang N, Xie G, Li Y, Yan X, Li X, Zhu Z, Li Z, Yang J, Meng F, Dou M, Chen W, Ma N, Jiang Y, Gao Y, Wang Y. Liu A, et al. Genome Res. 2023 Oct;33(10):1673-1689. doi: 10.1101/gr.277784.123. Epub 2023 Oct 26. Genome Res. 2023. PMID: 37884342 Free PMC article.
• Site pleiotropy of a stickleback Bmp6 enhancer.
  Rowley AJ, Square TA, Miller CT. Rowley AJ, et al. Dev Biol. 2022 Dec;492:111-118. doi: 10.1016/j.ydbio.2022.09.012. Epub 2022 Oct 2. Dev Biol. 2022. PMID: 36198347 Free PMC article.
• Identification of functional tumor necrosis factor-alpha promoter variants associated with Helicobacter pylori infection in the Sudanese population: Computational approach.
  Idris AB, Idris AB, Gumaa MA, Idris MB, Elgoraish A, Mansour M, Allam D, Arbab BM, Beirag N, Ibrahim EM, Hassan MA. Idris AB, et al. World J Gastroenterol. 2022 Jan 14;28(2):242-262. doi: 10.3748/wjg.v28.i2.242. World J Gastroenterol. 2022. PMID: 35110948 Free PMC article.