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Gemma B. Danks

Researcher
Sars internasjonale senter for marin molekylærbiologisk forskning
  • E-mailGemma.Danks@uib.no
  • Phone+47 55 58 43 48
  • Visitor Address
    Thormøhlensgt. 55
  • Postal Address
    Postboks 7800
    5020 Bergen

Gene regulation in the marine chordate Oikopleura dioica:

  • spliced-leader led RNA trans-splicing
  • nutrient-dependent translational control
  • dynamics of promoter usage
  • epigenetic modifications
  • growth arrest
  • developmental transcriptome
Journal articles
  • Navratilova, Pavla; Danks, Gemma Barbara; Long, Abby; Butcher, Stephen; Manak, John Robert; Thompson, Eric. 2017. Sex-specific chromatin landscapes in an ultra-compact chordate genome. Epigenetics & Chromatin. 10:3: 1-18. doi: 10.1186/s13072-016-0110-4
  • Danks, Gemma Barbara; Raasholm, Martina; Campsteijn, Coen; Long, Abby M.; Manak, J Robert; Lenhard, Boris; Thompson, Eric. 2015. Trans-splicing and operons in metazoans: Translational control in maternally regulated development and recovery from growth arrest. Molecular biology and evolution. 32: 585-599. doi: 10.1093/molbev/msu336
  • Danks, Gemma Barbara; Campsteijn, Coen; Parida, Mruyunjaya; Butcher, Stephen; Doddapaneni, Harsha; Fu, Bolei; Petrin, Raul; Metpally, Raghu; Lenhard, Boris; Wincker, Patrick; Chourrout, Daniel; Thompson, Eric; Manak, J Robert. 2013. OikoBase: a genomics and developmental transcriptomics resource for the urochordate Oikopleura dioica. Nucleic Acids Research. 41: D845-D853. doi: 10.1093/nar/gks1159
  • Hosp, Julia; Sagane, Yoshimasa; Danks, Gemma Barbara; Thompson, Eric. 2012. The evolving proteome of a complex extracellular matrix, the Oikopleura House. PLoS ONE. 7. 15 pages. doi: 10.1371/journal.pone.0040172
  • Denoeud, France; Henriet, Simon; Mungpakdee, Sutada; Aury, Jean-Marc; Da Silva, Corinne; Brinkmann, Henner; Mikhaleva, Iana; Olsen, Lisbeth Charlotte; Jubin, Claire; Canestro, Cristian; Bouquet, Jean-Marie; Danks, Gemma Barbara; Poulain, Julie; Campsteijn, Coen; Adamski, Marcin; Cross, Ismael; Yadetie, Fekadu; Muffato, Matthieu; Louis, Alexandra; Butcher, Stephen; Tsagkogeorga, Georgia; Konrad, Anke; Singh, Sarabdeep; Jensen, Marit Flo; Cong, Evelyne Huynh; Otterå, Helen Eikeseth; Noel, Benjamin; Anthouard, Veronique; Porcel, Betina M; Kachouri-Lafond, Rym; Nishino, Atsuo; Ugolini, Matteo; Chourrout, Pascal; Nishida, Hiroki; Aasland, Rein; Huzurbazar, Snehalata; Westhof, Eric; Delsuc, Frédéric; Lehrach, Hans; Reinhardt, Richard; Weissenbach, Jean; Roy, Scott W; Artiguenave, Francois; Postlethwait, John H; Manak, J Robert; Thompson, Eric; Jaillon, Olivier; Du Pasquier, Louis; Boudinot, Pierre; Liberles, David A; Volff, Jean-Nicolas; Philippe, Hervé; Lenhard, Boris; Crollius, Hugues Roest; Wincker, Patric; Chourrout, Daniel. 2010. Plasticity of Animal Genome Architecture Unmasked by Rapid Evolution of a Pelagic Tunicate. Science. 330: 1381-1385. doi: 10.1126/science.1194167

More information in national current research information system (CRIStin)

*G.B. Danks, *P. Navratilova, B. Lenhard, and +E.M. Thompson. Distinct core promoter codes drive transcription initiation at developmental transitions. bioRxiv. 2017. https://doi.org/10.1101/140764

*Navratilova P, *Danks GB, Long A, Butcher S, Manak JR, & Thompson EM. (2017). Sex-specific chromatin landscapes in an ultra-compact chordate genome. Epigenetics and Chromatin, 10(1). http://doi.org/10.1186/s13072-016-0110-4

Danks G, Thompson EM. (2015). Trans-splicing in metazoans: A link to translational control? Worm. 4(3):e1046030. http://dx.doi.org/10.1080/21624054.2015.1046030 

Danks GB, Raasholm M, Campsteijn C, Long AM, Manak JR, Lenhard B, Thompson EM. (2015).Trans-splicing and operons in metazoans: translational control in maternally regulated development and recovery from growth arrest. Mol Biol Evol. 32(3):585-99. https://doi.org/10.1093/molbev/msu336

Danks G, Campsteijn C, Parida M, Butcher S, Doddapaneni H, Fu B, Petrin R, Metpally R, Lenhard B, Wincker P, Chourrout D, Thompson EM, Manak JR. (2013) OikoBase: a genomics and developmental transcriptomics resource for the urochordate Oikopleura dioica. Nucleic Acids Res. 41(Database issue):D845-53. https://doi.org/10.1093/nar/gks1159

Hosp J, Sagane Y, Danks G, Thompson EM. (2012). The evolving proteome of a complex extracellular matrix, the Oikopleura house. PLoS One. 7(7):e40172. http://dx.doi.org/10.1371/journal.pone.0040172

Denoeud F, Henriet S, Mungpakdee S, Aury JM, Da Silva C, Brinkmann H, Mikhaleva J, Olsen LC, Jubin C, Cañestro C, Bouquet JM, Danks G, Poulain J, Campsteijn C, Adamski M, Cross I, Yadetie F, Muffato M, Louis A, Butcher S, Tsagkogeorga G, Konrad A, Singh S, Jensen MF, Huynh Cong E, Eikeseth-Otteraa H, Noel B, Anthouard V, Porcel BM, Kachouri-Lafond R, Nishino A, Ugolini M, Chourrout P, Nishida H, Aasland R, Huzurbazar S, Westhof E, Delsuc F, Lehrach H, Reinhardt R, Weissenbach J, Roy SW, Artiguenave F, Postlethwait JH, Manak JR, Thompson EM, Jaillon O, Du Pasquier L, Boudinot P, Liberles DA, Volff JN, Philippe H, Lenhard B, Roest Crollius H, Wincker P, Chourrout D. (2010). Plasticity of animal genome architecture unmasked by rapid evolution of a pelagic tunicate. Science. 330(6009):1381-5. https://doi.org/10.1126/science.1194167

Danks GB, Stepney S and Caves LSD. (2009). Cotranslational protein folding with L-systems. Proceedings of ECAL 2009. LNCS. 5777:289-296. Springer, 2011 https://doi.org/10.1007/978-3-642-21283-3_36

Danks GB, Stepney S and Caves LSD. (2008). Protein folding with stochastic L-systems. Proceedings of ALife XI. 150-157. MIT Press.

Danks GB, Stepney S and Caves LSD. (2007). Folding protein-like structures with open L-systems. Proceedings of ECAL2007. LNCS. 4648, 1100-1109 https://doi.org/10.1007/978-3-540-74913-4_110