Items where Author is "Gorodkin, Jan"

Backofen, Rolf and Gorodkin, Jan and Hofacker, Ivo L. and Stadler, Peter F. In: Comparative Genomics. Methods in Molecular Biology, 1704 Humana Press, pp. 363-400 ISBN 978-1-4939-7461-0 (2018)

RIsearch2: suffix array-based large-scale prediction of RNA-RNA interactions and siRNA off-targets

Alkan, Ferhat and Wenzel, Anne and Palasca, Oana and Kerpedjiev, Peter and Rudebeck, Anders Frost and Stadler, Peter F. and Hofacker, Ivo L. and Gorodkin, Jan e60 ISSN 0305-1048 (2017)

Differential transcriptional responses to Ebola and Marburg virus infection in bat and human cells

Hölzer, Martin and Krähling , Verena and Amman, Fabian and Barth, Emanuel and Bernhart, Stephan H. and Carmelo, Victor and Collatz, Maximilian and Doose, Gero and Eggenhofer, Florian and Ewald, Jan and Fallmann, Jörg and Feldhahn, Lasse and Fricke, Markus and Gebauer, Juliane and Gruber, Andreas R and Hufsky, Franziska and Indrischek, Henrike and Kanton, Sabina and Linde, Jörg and Mostajo, Nelly and Ochsenreiter, Roman and Riege, Konstantin and Rivarola-Duarte, Lorena and Sahyoun, Abdullah and Saunders, Sita and Seemann, Stefan E and Tanzer, Andrea and Vorgel, bertram and Wehner, Stefanie and Wolfinger, Michael T. and Backofen, Rolf and Gorodkin, Jan and Grosse, Ivo and Hoffmann, Steve and Hofacker, Ivo L. and Kaleta, Christoph and Stadler, Peter F. and Becker, Stephan and Marz, Manja ISSN 2045-2322 (2016)

Optimizing RNA structures by sequence extensions using RNAcop

Hecker, Nikolai and Christensen-Dalsgaard, Mikkel and Seemann, Stefan E and Havgaard, Jakob H and Stadler, Peter F and Hofacker, Ivo L. and Nielsen, Henrik and Gorodkin, Jan Nucleic acids research, 43 (17). pp. 8135-8145 ISSN 0305-1048 (2015)

RNA 3D modules in genome-wide predictions of RNA 2D structure

Theis, Corinna and Zirbel, Craig and Höner zu Siederdissen, Christian and Anthon, Christian and Hofacker, Ivo L. and Nielsen, Henrik and Gorodkin, Jan PLoS ONE, 10 (10). ISSN 1932-6203 (2015)

Concepts and introduction to RNA bioinformatics

Gorodkin, Jan and Ruzzo, Larry and Hofacker, Ivo L. In: RNA Sequence, Structure, and Function: Computational and Bioinformatic Methods. Meth. Mol. Biol., 1097 Humana Press, New York, pp. 1-31 (2014)

Automated identification of RNA 3D modules with discriminative power in RNA structural alignments

Theis, Corinna and Höner zu Siederdissen, Christian and Hofacker, Ivo L. and Gorodkin, Jan Nucleic acids research, 41. pp. 9999-10009 ISSN 0305-1048 (2013)

The RNAsnp Web Server: Predicting SNP effects on local RNA secondary structure

Sabarinathan, Radhakrishnan and Tafer, Hakim and Seemann, Stefan and Hofacker, Ivo L. and Stadler, Peter F. and Gorodkin, Jan Nucleic Acids Res., 41. W475-W479 ISSN 0305-1048 (2013)

RNAsnp: Efficient detection of local RNA secondary structure changes induced by SNPs

Sabarinathan, Radhakrishnan and Tafer, Hakim and Seemann, Stefan E. and Hofacker, Ivo L. and Stadler, Peter F. and Gorodkin, Jan Human Mutation, 34. 546-556 ISSN 1059-7794 (2013)

From structure prediction to genomic screens for novel non-coding RNAs.

Gorodkin, Jan and Hofacker, Ivo L PLoS computational biology, 7 (8). e1002100 ISSN 1553-7358 PLoS (2011)

PETcofold: predicting conserved interactions and structures of two multiple alignments of RNA sequences.

Seemann, Stefan E and Richter, Andreas S and Gesell, Tanja and Backofen, Rolf and Gorodkin, Jan Bioinformatics (Oxford, England), 27 (2). pp. 211-9 ISSN 1367-4811 (2011)