• Integrating protein structural dynamics and evolutionary analysis with Bio3D 

      Skjærven, Lars; Yao, Xin-Qiu; Scarabelli, Guido; Grant, Barry J. (Peer reviewed; Journal article, 2014-12-10)
      Background: Popular bioinformatics approaches for studying protein functional dynamics include comparisons of crystallographic structures, molecular dynamics simulations and normal mode analysis. However, determining how ...
    • Long-range evolutionary constraints reveal cis-regulatory interactions on the human X chromosome 

      Naville, Magali; Ishibashi, Minaka; Ferg, Marco; Bengani, Hemant; Rinkwitz, Silke; Krecsmarik, Monika; Hawkins, Thomas A.; Wilson, Stephen W.; Manning, Elizabeth; Chilamakuri, Chandra Sekhar Reddy; Wilson, David I.; Louis, Alexandra; Raymond, F. Lucy; Rastegar, Sepand; Strähle, Uwe; Lenhard, Boris; Bally-Cuif, Laure; van Heyningen, Veronica; Fitzpatrick, David R.; Becker, Thomas S.; Crollius, Hugues Roest (Peer reviewed; Journal article, 2015-04-24)
      Enhancers can regulate the transcription of genes over long genomic distances. This is thought to lead to selection against genomic rearrangements within such regions that may disrupt this functional linkage. Here we test ...
    • Recently evolved human-specific methylated regions are enriched in schizophrenia signals 

      Banerjee, Niladri; Polushina, Tatiana; Bettella, Francesco; Giddaluru, Sudheer; Steen, Vidar Martin; Andreassen, Ole Andreas; Le Hellard, Stephanie (Peer reviewed; Journal article, 2018)
      Background: One explanation for the persistence of schizophrenia despite the reduced fertility of patients is that it is a by-product of recent human evolution. This hypothesis is supported by evidence suggesting that ...
    • Structural similarities and functional differences clarify evolutionary relationships between tRNA healing enzymes and the myelin enzyme CNPase 

      Muruganandam, Gopinath; Raasakka, Arne; Myllykoski, Matti; Kursula, Inari; Kursula, Petri (Peer reviewed; Journal article, 2017-05-16)
      Background: Eukaryotic tRNA splicing is an essential process in the transformation of a primary tRNA transcript into a mature functional tRNA molecule. 5′-phosphate ligation involves two steps: a healing reaction catalyzed ...