• 90 years of progesterone: molecular mechanisms of progesterone receptor action on the breast cancer genome 

      Beato, Miguel; Wright, Roni H.G.; Le Dily, François (Journal of Molecular Endocrinology, 2020)
      Gene regulation by steroid hormones has been at the forefront in elucidating the intricacies of transcriptional regulation in eukaryotes ever since the discovery by Karlson and Clever that the insect ...
    • Emergence of a multidrug-resistant and virulent Streptococcus pneumoniae lineage mediates serotype replacement after PCV13: an international whole-genome sequencing study 

      WLo, Stephanie; Mellor, Kate; Cohen, Robert; Redin Alonso, Alba; Belman, Sophie; Kumar, Narender; Hawkins, Paulina A.; Gladstone, Rebecca A.; Von Gottberg, Anne; Veeraraghavan, Balaji; Ravikumar, K. L.; Kandasamy, Rama; Pollard, Andrew J.; Saha, Samir K.; Bigogo, Godfrey; Antonio, Martin; Kwambana-Adams, Brenda; Mirza, Shaper; Shakoor, Sadia; Nisar, Imran; Cornick, Jennifer E.; Lehmann, Deborah; Ford, Rebecca L.; Sigauque, Betuel; Turner, Paul; Moïsi, Jennifer; Obaro, Stephen K.; Dagan, Ron; Diawara, Idrissa; Skoczyńska, Anna; Wang, Hui; Carter, Philip E.; Klugman, Keith P.; Rodgers, Gail; Breiman, Robert F.; McGee, Lesley; Bentley, Stephen D.; Muñoz-Almagro, Carmen; Varon, Emmanuelle; The Global Pneumococcal Sequencing Consortium (The Lancet Microbe, 2022-10)
      Background: Serotype 24F is one of the emerging pneumococcal serotypes after the introduction of pneumococcal conjugate vaccine (PCV). We aimed to identify lineages driving the increase of serotype 24F ...
    • Hormone-control regions mediate steroid receptor–dependent genome organization 

      Le Dily, François; Vidal, Enrique; Cuartero, Yasmina; Quilez Oliete, Javier; Nacht, A. Silvina; Vicent, Guillermo P.; Carbonell-Caballero, José; Sharma, Priyanka; Villanueva-Cañas, José Luis; Ferrari, Roberto; De Llobet, Lara Isabel; Verde, Gaetano; Wright, Roni H.G.; Beato, Miguel (Genome Research, 2019)
      In breast cancer cells, some topologically associating domains (TADs) behave as hormonal gene regulation units, within which gene transcription is coordinately regulated in response to steroid hormones. ...
    • The IronChip evaluation package: a package of perl modules for robust analysis of custom microarrays 

      Vainshtein, Yevhen; Sanchez, Mayka; Brazma, Alvis; W. Hentze, Matthias; Dandekar, Thomas; Muckenthaler, Martina U. (BMC Bioinformatics, 2010)
      Background: Gene expression studies greatly contribute to our understanding of complex relationships in gene regulatory networks. However, the complexity of array design, production and manipulations ...
    • Rapid identification, capsular typing and molecular characterization of streptococcus pneumoniae by using whole genome nanopore sequencing 

      Garcia-Garcia, Selene; Perez-Arguello, A.; Henares, Desirée; Timoneda, N.; Muñoz-Almagro, Carmen (BMC Microbiology, 2020)
      Background: Whole genome sequencing has emerged as a useful tool for identification and molecular characterization of pathogens. MinION (Oxford Nanopore) is a real-time third generation sequencer whose ...