Works by Rother, Kristian

Results: 28

The GOBLET training portal: a global repository of bioinformatics training materials, courses and trainers.

Published in:

Bioinformatics, 2015, v. 31, n. 1, p. 140, doi. 10.1093/bioinformatics/btu601

By:

Corpas, Manuel;
Jimenez, Rafael C.;
Bongcam-Rudloff, Erik;
Budd, Aidan;
Brazas, Michelle D.;
Fernandes, Pedro L.;
Gaeta, Bruno;
van Gelder, Celia;
Korpelainen, Eija;
Lewitter, Fran;
McGrath, Annette;
MacLean, Daniel;
Palagi, Patricia M.;
Rother, Kristian;
Taylor, Jan;
Via, Allegra;
Watson, Mick;
Schneider, Maria Victoria;
Attwood, Teresa K.

Publication type:

Article

MetalionRNA: computational predictor of metal-binding sites in RNA structures.

Published in:

Bioinformatics, 2012, v. 28, n. 2, p. 198, doi. 10.1093/bioinformatics/btr636

By:

Philips, Anna;
Milanowska, Kaja;
Lach, Grzegorz;
Boniecki, Michal;
Rother, Kristian;
Bujnicki, Janusz M.

Publication type:

Article

ModeRNA server: an online tool for modeling RNA 3D structures.

Published in:

Bioinformatics, 2011, v. 27, n. 17, p. 2441, doi. 10.1093/bioinformatics/btr400

By:

Rother, Magdalena;
Milanowska, Kaja;
Puton, Tomasz;
Jeleniewicz, Jaroslaw;
Rother, Kristian;
Bujnicki, Janusz M.

Publication type:

Article

Inhomogeneous molecular density: reference packing densities and distribution of cavities within proteins.

Published in:

Bioinformatics, 2003, v. 19, n. 16, p. 2112, doi. 10.1093/bioinformatics/btg292

By:

Kristian Rother;
Robert Preissner;
Andrean Goede;
Cornelius Frömmel

Publication type:

Article

HepatoNet1: a comprehensive metabolic reconstruction of the human hepatocyte for the analysis of liver physiology.

Published in:

Molecular Systems Biology, 2010, v. 6, n. 1, p. 1, doi. 10.1038/msb.2010.62

By:

Gille, Christoph;
Bölling, Christian;
Hoppe, Andreas;
Bulik, Sascha;
Hoffmann, Sabrina;
Hübner, Katrin;
Karlstädt, Anja;
Ganeshan, Ramanan;
König, Matthias;
Rother, Kristian;
Weidlich, Michael;
Behre, Jörn;
Holzhütter, Herrmann‐Georg

Publication type:

Article

RNA and protein 3D structure modeling: similarities and differences.

Published in:

Journal of Molecular Modeling, 2011, v. 17, n. 9, p. 2325, doi. 10.1007/s00894-010-0951-x

By:

Rother, Kristian;
Rother, Magdalena;
Boniecki, Michał;
Puton, Tomasz;
Bujnicki, Janusz

Publication type:

Article

A topologically related singularity suggests a maximum preferred size for protein domains.

Published in:

Proteins, 2007, v. 66, n. 3, p. 621, doi. 10.1002/prot.21179

By:

Zbilut, Joseph P.;
Chua, Gek Huey;
Krishnan, Arun;
Bossa, Cecilia;
Rother, Kristian;
Webber, Charles L.;
Giuliani, Alessandro

Publication type:

Article

How well are protein structures annotated in secondary databases?

Published in:

Proteins, 2005, v. 60, n. 4, p. 571, doi. 10.1002/prot.20520

By:

Rother, Kristian;
Michalsky, Elke;
Leser, Ulf

Publication type:

Article

Best practices in bioinformatics training for life scientists.

Published in:

Briefings in Bioinformatics, 2013, v. 14, n. 5, p. 528, doi. 10.1093/bib/bbt043

By:

Via, Allegra;
Blicher, Thomas;
Bongcam-Rudloff, Erik;
Brazas, Michelle D.;
Brooksbank, Cath;
Budd, Aidan;
De Las Rivas, Javier;
Dreyer, Jacqueline;
Fernandes, Pedro L.;
van Gelder, Celia;
Jacob, Joachim;
Jimenez, Rafael C.;
Loveland, Jane;
Moran, Federico;
Mulder, Nicola;
Nyrönen, Tommi;
Rother, Kristian;
Schneider, Maria Victoria;
Attwood, Teresa K.

Publication type:

Article

Bioinformatics Training Network (BTN): a community resource for bioinformatics trainers.

Published in:

Briefings in Bioinformatics, 2012, v. 13, n. 3, p. 383, doi. 10.1093/bib/bbr064

By:

Schneider, Maria V.;
Walter, Peter;
Blatter, Marie-Claude;
Watson, James;
Brazas, Michelle D.;
Rother, Kristian;
Budd, Aidan;
Via, Allegra;
van Gelder, Celia W. G.;
Jacob, Joachim;
Fernandes, Pedro;
Nyrönen, Tommi H.;
De Las Rivas, Javier;
Blicher, Thomas;
Jimenez, Rafael C.;
Loveland, Jane;
McDowall, Jennifer;
Jones, Phil;
Vaughan, Brendan W.;
Lopez, Rodrigo

Publication type:

Article

A toolbox for developing bioinformatics software.

Published in:

Briefings in Bioinformatics, 2012, v. 13, n. 2, p. 244, doi. 10.1093/bib/bbr035

By:

Rother, Kristian;
Potrzebowski, Wojciech;
Puton, Tomasz;
Rother, Magdalena;
Wywial, Ewa;
Bujnicki, Janusz M.

Publication type:

Article

RNA tertiary structure prediction with ModeRNA.

Published in:

Briefings in Bioinformatics, 2011, v. 12, n. 6, p. 601, doi. 10.1093/bib/bbr050

By:

Rother, Magdalena;
Rother, Kristian;
Puton, Tomasz;
Bujnicki, Janusz M.

Publication type:

Article

Multi-stage learning aids applied to hands-on software training.

Published in:

Briefings in Bioinformatics, 2010, v. 11, n. 6, p. 582, doi. 10.1093/bib/bbq024

By:

Rother, Kristian;
Rother, Magdalena;
Pleus, Alexandra;
zu Belzen, Annette Upmeier

Publication type:

Article

Bioinformatics training: a review of challenges, actions and support requirements.

Published in:

Briefings in Bioinformatics, 2010, v. 11, n. 6, p. 544, doi. 10.1093/bib/bbq021

By:

Schneider, Maria Victoria;
Watson, James;
Attwood, Teresa;
Rother, Kristian;
Budd, Aidan;
McDowall, Jennifer;
Via, Allegra;
Fernandes, Pedro;
Nyronen, Tommy;
Blicher, Thomas;
Jones, Phil;
Blatter, Marie-Claude;
De Las Rivas, Javier;
Judge, David Phillip;
van der Gool, Wouter;
Brooksbank, Cath

Publication type:

Article

RNAmap2D - calculation, visualization and analysis of contact and distance maps for RNA and protein-RNA complex structures.

Published in:

BMC Bioinformatics, 2012, v. 13, n. 1, p. 333, doi. 10.1186/1471-2105-13-333

By:

Pietal, Michal J.;
Szostak, Natalia;
Rother, Kristian M.;
Bujnicki, Janusz M.

Publication type:

Article

Columba: an integrated database of proteins, structures, and annotations.

Published in:

BMC Bioinformatics, 2005, v. 6, p. 81, doi. 10.1186/1471-2105-6-81

By:

Trißl, Silke;
Rother, Kristian;
Müller, Heiko;
Steinke, Thomas;
Koch, Ina;
Preissner, Robert;
Frömmel, Cornelius;
Leser, Ulf

Publication type:

Article

The complex of tmRNA-SmpB and EF-G on translocating ribosomes.

Published in:

Nature, 2012, v. 485, n. 7399, p. 526, doi. 10.1038/nature11006

By:

Ramrath, David J. F.;
Yamamoto, Hiroshi;
Rother, Kristian;
Wittek, Daniela;
Pech, Markus;
Mielke, Thorsten;
Loerke, Justus;
Scheerer, Patrick;
Ivanov, Pavel;
Teraoka, Yoshika;
Shpanchenko, Olga;
Nierhaus, Knud H.;
Spahn, Christian M. T.

Publication type:

Article

SimRNA: a coarse-grained method for RNA folding simulations and 3D structure prediction.

Published in:

Nucleic Acids Research, 2016, v. 44, n. 7, p. e63, doi. 10.1093/nar/gkv1479

By:

Boniecki, Michal J.;
Lach, Grzegorz;
Dawson, Wayne K.;
Tomala, Konrad;
Lukasz, Pawel;
Soltysinski, Tomasz;
Rother, Kristian M.;
Bujnicki, Janusz M.

Publication type:

Article

CompaRNA: a server for continuous benchmarking of automated methods for RNA secondary structure prediction.

Published in:

Nucleic Acids Research, 2014, v. 42, n. 8, p. 5403, doi. 10.1093/nar/gku208

By:

Puton, Tomasz;
Kozlowski, Lukasz P.;
Rother, Kristian M.;
Bujnicki, Janusz M.

Publication type:

Article

CompaRNA: a server for continuous benchmarking of automated methods for RNA secondary structure prediction.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 7, p. 4307, doi. 10.1093/nar/gkt101

By:

Puton, Tomasz;
Kozlowski, Lukasz P.;
Rother, Kristian M.;
Bujnicki, Janusz M.

Publication type:

Article

Voronoia4RNA—a database of atomic packing densities of RNA structures and their complexes.

Published in:

Nucleic Acids Research, 2013, v. 41, p. D280, doi. 10.1093/nar/gks1061

By:

Ismer, Jochen;
Rose, Alexander S.;
Tiemann, Johanna K. S.;
Goede, Andrean;
Rother, Kristian;
Hildebrand, Peter W.

Publication type:

Article

RNApathwaysDB—a database of RNA maturation and decay pathways.

Published in:

Nucleic Acids Research, 2013, v. 41, p. D268, doi. 10.1093/nar/gks1052

By:

Milanowska, Kaja;
Mikolajczak, Katarzyna;
Lukasik, Anna;
Skorupski, Marcin;
Balcer, Zuzanna;
Machnicka, Magdalena A.;
Nowacka, Martyna;
Rother, Kristian M.;
Bujnicki, Janusz M.

Publication type:

Article

MODOMICS: a database of RNA modification pathways—2013 update.

Published in:

Nucleic Acids Research, 2013, v. 41, p. D262, doi. 10.1093/nar/gks1007

By:

Machnicka, Magdalena A.;
Milanowska, Kaja;
Oglou, Okan Osman;
Purta, Elzbieta;
Kurkowska, Malgorzata;
Olchowik, Anna;
Januszewski, Witold;
Kalinowski, Sebastian;
Dunin-Horkawicz, Stanislaw;
Rother, Kristian M.;
Helm, Mark;
Bujnicki, Janusz M.;
Grosjean, Henri

Publication type:

Article

ModeRNA: a tool for comparative modeling of RNA 3D structure.

Published in:

Nucleic Acids Research, 2011, v. 39, n. 10, p. 4007, doi. 10.1093/nar/gkq1320

By:

Rother, Magdalena;
Rother, Kristian;
Puton, Tomasz;
Bujnicki, Janusz M.

Publication type:

Article

REPAIRtoire—a database of DNA repair pathways.

Published in:

Nucleic Acids Research, 2011, v. 39, n. suppl_1, p. D788, doi. 10.1093/nar/gkq1087

By:

Milanowska, Kaja;
Krwawicz, Joanna;
Papaj, Grzegorz;
Kosiński, Jan;
Poleszak, Katarzyna;
Lesiak, Justyna;
Osińska, Ewelina;
Rother, Kristian;
Bujnicki, Janusz M.

Publication type:

Article

Voronoia: analyzing packing in protein structures.

Published in:

Nucleic Acids Research, 2009, v. 37, n. suppl_1, p. D393, doi. 10.1093/nar/gkn769

By:

Rother, Kristian;
Hildebrand, Peter Werner;
Goede, Andrean;
Gruening, Bjoern;
Preissner, Robert

Publication type:

Article

MODOMICS: a database of RNA modification pathways. 2008 update.

Published in:

Nucleic Acids Research, 2009, v. 37, n. suppl_1, p. D118, doi. 10.1093/nar/gkn710

By:

Czerwoniec, Anna;
Dunin-Horkawicz, Stanislaw;
Purta, Elzbieta;
Kaminska, Katarzyna H.;
Kasprzak, Joanna M.;
Bujnicki, Janusz M.;
Grosjean, Henri;
Rother, Kristian

Publication type:

Article

SuperHapten: a comprehensive database for small immunogenic compounds.

Published in:

Nucleic Acids Research, 2007, v. 35, p. d906, doi. 10.1093/nar/gkl849

By:

Günther, Stefan;
Hempel, Dorothea;
Dunkel, Mathias;
Rother, Kristian;
Preissner, Robert

Publication type:

Article