Partition function and base pairing probabilities of RNA heterodimers. - Stephan H. Bernhart; Hakim Tafer; Ulrike Mückstein; Christoph Flamm; Peter F. Stadler; Ivo L. Hofacker (Algorithms Mol. Biol., 2006)

Thermodynamics of RNA-RNA binding. - Ulrike Mückstein; Hakim Tafer; Jörg Hackermüller; Stephan H. Bernhart; Peter F. Stadler; Ivo L. Hofacker (Bioinform., 2006)

RNAplex a Fast and Flexible RNA-RNA Interaction Search Tool. - Hakim Tafer (German Conference on Bioinformatics, 2007)

Translational Control by RNA-RNA Interaction: Improved Computation of RNA-RNA Binding Thermodynamics. - Ulrike Mückstein; Hakim Tafer; Stephan H. Bernhart; Maribel Hernandez-Rosales; Jörg Vogel 002; Peter F. Stadler; Ivo L. Hofacker (BIRD, 2008)

RNAplex: a fast tool for RNA-RNA interaction search. - Hakim Tafer; Ivo L. Hofacker (Bioinform., 2008)

www.rnaworkbench.com: A new program for analyzing RNA interference. - Radka Svobodová Vareková; Ivan Bradác; Martin Plchút; Michal Skrdla; Michael Wacenovsky; Helmuth Mahr; Georg Mayer; Herbert Tanner; Hermann Brugger; Josef Withalm; Peter Lederer; Heinrich J. Huber; et al. (Comput. Methods Programs Biomed., 2008)

RNAsnoop: efficient target prediction for H/ACA snoRNAs. - Hakim Tafer; Stephanie Kehr; Jana Hertel; Ivo L. Hofacker; Peter F. Stadler (Bioinform., 2010)

MicroRNA or Not MicroRNA? - David Langenberger; Sebastian Bartschat; Jana Hertel; Steve Hoffmann; Hakim Tafer; Peter F. Stadler (BSB, 2011)

ViennaRNA Package 2.0. - Ronny Lorenz; Stephan H. Bernhart; Christian Höner zu Siederdissen; Hakim Tafer; Christoph Flamm; Peter F. Stadler; Ivo L. Hofacker (Algorithms Mol. Biol., 2011)

PLEXY: efficient target prediction for box C/D snoRNAs. - Stephanie Kehr; Sebastian Bartschat; Peter F. Stadler; Hakim Tafer (Bioinform., 2011)

Fast accessibility-based prediction of RNA-RNA interactions. - Hakim Tafer; Fabian Amman; Florian Eggenhofer; Peter F. Stadler; Ivo L. Hofacker (Bioinform., 2011)

RNApredator: fast accessibility-based prediction of sRNA targets. - Florian Eggenhofer; Hakim Tafer; Peter F. Stadler; Ivo L. Hofacker (Nucleic Acids Res., 2011)

The RNAsnp web server: predicting SNP effects on local RNA secondary structure. - Radhakrishnan Sabarinathan; Hakim Tafer; Stefan E. Seemann; Ivo L. Hofacker; Peter F. Stadler; Jan Gorodkin (Nucleic Acids Res., 2013)

snoStrip: a snoRNA annotation pipeline. - Sebastian Bartschat; Stephanie Kehr; Hakim Tafer; Peter F. Stadler; Jana Hertel (Bioinform., 2014)

The genome of the recently domesticated crop plant sugar beet (Beta vulgaris) Open. - Juliane C. Dohm; André E. Minoche; Daniela Holtgräwe; Salvador Capella-Gutiérrez; Falk Zakrzewski; Hakim Tafer; Oliver Rupp; Thomas Rosleff Sörensen; Ralf Stracke; Richard Reinhardt; Alexander Goesmann; Thomas Kraft; et al. (Nat., 2014)