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Citations per year

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BALL specifications


Unique identifier OMICS_04968
Alternative name Biochemical Algorithms Library
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages C++, Python
License GNU Lesser General Public License version 3.0
Computer skills Advanced
Stability Stable
Maintained Yes




No version available


  • person_outline Andreas Hildebrandt

Publications for Biochemical Algorithms Library

BALL citations


A computational method for designing diverse linear epitopes including citrullinated peptides with desired binding affinities to intravenous immunoglobulin

BMC Bioinformatics
PMCID: 4826543
PMID: 27059896
DOI: 10.1186/s12859-016-1008-7

[…] We use rigid docking to estimate the binding affinity between IVIg and a candidate peptide. We computed a hypothesized 3-dimensional structure for each peptide using the Biochemical Algorithms Library (BALL) []. We built a starting model for each peptide p by positioning the side chains for each amino acid by choosing the most frequently occurring rotamer position fro […]


Elucidating the evolutionary conserved DNA binding specificities of WRKY transcription factors by molecular dynamics and in vitro binding assays

Nucleic Acids Res
PMCID: 3834811
PMID: 23975197
DOI: 10.1093/nar/gkt732
call_split See protocol

[…] ribed by Duan et al. (,,). We mapped the AtWRKY1 cDBD protein onto the MmGCM1a protein using root mean square deviation (RMSD)-minimizing superposition (as implemented by the atom bijection method in biochemical algorithms library (BALL)) (). We defined certain Cα atoms of both proteins and stored them in a paired list. The resulting RMSD value for the optimal aligned β-sheet atoms (26 Cα atoms) w […]


Flexible nets: disorder and induced fit in the associations of p53 and 14 3 3 with their partners

BMC Genomics
PMCID: 2386051
PMID: 18366598
DOI: 10.1186/1471-2164-9-S1-S1
call_split See protocol

[…] Solvent accessible surface area (ASA) was calculated from atomic protein structure numerically using the double cubic lattice method [] as implemented in the Biochemical Algorithms Library []. Using this algorithm, ASA of residues and entire chains can be calculated.To determine interface areas, for example between two chains, the ASA of each individual ch […]

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BALL institution(s)
Center for Bioinformatics Saar, Saarland University, Saarbrücken, Germany; Center for Bioinformatics Tübingen, Eberhard-Karls-Universität Tübingen, Germany; Intel Visual Computing Institute of Saarland University, Germany

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