Cluster of Excellence –
University of Freiburg

Prof. Dr. Rolf Backofen

Prof. Dr. Rolf Backofen

Faculty of Engineering, Institute for Bioinformatics
University of Freiburg

 

10 selected publications:

  • hnRNP R and its main interactor, the noncoding RNA 7SK, coregulate the axonal transcriptome of motoneurons.
    Briese M, Saal-Bauernschubert L, Ji C, Moradi M, Ghanawi H, Uhl M, Appenzeller S, Backofen R, Sendtner M (2018).
    Proc Natl Acad Sci U S A 115:E2859-E2868.
  • GraphDDP: a graph-embedding approach to detect differentiation pathways in single-cell-data using prior class knowledge.
    Costa F, Grun D, Backofen R (2018).
    Nat Commun 9:3685.
  • uvCLAP is a fast and non-radioactive method to identify in vivo targets of RNA-binding proteins.
    Maticzka D, Ilik IA, Aktas T, Backofen R, Akhtar A (2018).
    Nat Commun 9:1142.
  • Analysis of the androgen receptor-regulated lncRNA landscape identifies a role for ARLNC1 in prostate cancer progression.
    Zhang Y, Pitchiaya S, Cieslik M, Niknafs YS, Tien JC, Hosono Y, Iyer MK, Yazdani S, Subramaniam S, Shukla SK, Jiang X, Wang L, Liu TY, Uhl M, Gawronski AR, Qiao Y, Xiao L, Dhanasekaran SM, Juckette KM, Kunju LP, Cao X, Patel U, Batish M, Shukla GC, Paulsen MT, Ljungman M, Jiang H, Mehra R, Backofen R, Sahinalp CS, Freier SM, Watt AT, Guo S, Wei JT, Feng FY, Malik R, Chinnaiyan AM (2018).
    Nat Genet 50:814-824.
  • DHX9 suppresses RNA processing defects originating from the Alu invasion of the human genome.
    Aktas T, Avsar Ilik I, Maticzka D, Bhardwaj V, Pessoa Rodrigues C, Mittler G, Manke T, Backofen R, Akhtar A (2017).
    Nature 544:115-119.
  • An updated evolutionary classification of CRISPR-Cas systems.
    Makarova KS, Wolf YI, Alkhnbashi OS, Costa F, Shah SA, Saunders SJ, Barrangou R, Brouns SJ, Charpentier E, Haft DH, Horvath P, Moineau S, Mojica FJ, Terns RM, Terns MP, White MF, Yakunin AF, Garrett RA, van der Oost J, Backofen R, Koonin EV (2015).
    Nat Rev Microbiol 13:722-736.
  • GraphProt: modeling binding preferences of RNA-binding proteins.
    Maticzka D, Lange SJ, Costa F, and Backofen R (2014).
    Genome Biol 15:R17.
  • Comparative genomics boosts target prediction for bacterial small RNAs.
    Wright PR, Richter AS, Papenfort K, Mann M, Vogel J, Hess WR, Backofen R, Georg J (2013).
    Proc Natl Acad Sci U S A 110:E3487-3496.
  • Global or local? Predicting secondary structure and accessibility in mRNAs.
    Lange SJ, Maticzka D, Mohl M, Gagnon JN, Brown CM, Backofen R (2012).
    Nucleic Acids Res 40:5215-5226.
  • Widespread occurrence of alternative splicing at NAGNAG acceptors contributes to proteome plasticity.
    Hiller M, Huse K, Szafranski K, Jahn N, Hampe J, Schreiber S, Backofen R, Platzer M (2004).
    Nat Genet 36:1255-1257.