Publications

2008

• Web server to identify similarity of amino acid motifs to compounds (SAAMCO)

  CASEY Fergal P. DAVEY Norman E BARAN Ivan SVOBODOVÁ VAŘEKOVÁ Radka SHIELDS Denis C

  Article in Periodical

  Journal of Chemical Information and Modeling, year: 2008, volume: 48, edition: 7

• www.rnaworkbench.com: A new program for analyzing RNA interference

  SVOBODOVÁ VAŘEKOVÁ Radka BRADÁČ Ivan PLCHÚT Martin ŠKRDLA Michal WACENOVSKY Michael MAHR Helmuth MAYER Georg TANNER Herbert BRUGGER Hermann WITHALM Josef LEDERER Peter HUBER Heinrich GIERLINGER Gerhard GRAF Ronald TAFER Hakim HOFACKER Ivo SCHUSTER Peter POLCIK Martin

  Article in Periodical

  Computer Methods and Programs in Biomedicine, year: 2008, volume: 90, edition: 1

2007

• Electronegativity Equalization Method: Parameterization and Validation for Large Sets of Organic, Organohalogene and Organometal Molecule

  SVOBODOVÁ VAŘEKOVÁ Radka JIROUŠKOVÁ Zuzana VANĚK Jakub SUCHOMEL Šimon KOČA Jaroslav

  Article in Periodical

  International Journal of Molecular Sciences, year: 2007, volume: 2007, edition: 8

• Identification of potential small molecule peptidomimetics similar to motifs in proteins

  BARAN Ivan SVOBODOVÁ VAŘEKOVÁ Radka PARTHASARATHI Laavanya SUCHOMEL Šimon CASEY Fergal SHIELDS Denis C.

  Article in Periodical

  Journal of Chemical Information and Modeling, year: 2007, volume: 47, edition: 2

• siRNA selection criteria – statistical analyses of applicability and significance

  BRADÁČ Ivan PLCHÚT Martin SVOBODOVÁ VAŘEKOVÁ Radka POLČÍK Martin WACENOVSKY Michael ŠKRDLA Michal PLCHÚT Martin POLČÍK Martin

  Article in Periodical

  Biochemical and Biophysical Research Communications, year: 2007, volume: 359, edition: 1

2006

• Optimized and parallelized implementation of the electronegativity equalization method and the atom-bond electronegativity equalization method

  SVOBODOVÁ VAŘEKOVÁ Radka KOČA Jaroslav

  Article in Periodical

  J Comput Chem, year: 2006, volume: 27, edition: 3

2004

• Complexity and Convergence of Electrostatic and van der Waals Energies within PME and Cutoff Methods

  SVOBODOVÁ VAŘEKOVÁ Radka KOČA Jaroslav ZHAN Chang-Guo

  Article in Periodical

  International Journal of Molecular Sciences, year: 2004, volume: 2004, edition: 5