MLPAinter for MLPA interpretation: an integrated approach for the analysis, visualisation and data management of Multiplex Ligation-dependent Probe Amplification

BMC Bioinformatics. 2010 Jan 29;11:67. doi: 10.1186/1471-2105-11-67.


Background: Multiplex Ligation-Dependent Probe Amplification (MLPA) is an application that can be used for the detection of multiple chromosomal aberrations in a single experiment. In one reaction, up to 50 different genomic sequences can be analysed. For a reliable work-flow, tools are needed for administrative support, data management, normalisation, visualisation, reporting and interpretation.

Results: Here, we developed a data management system, MLPAInter for MLPA interpretation, that is windows executable and has a stand-alone database for monitoring and interpreting the MLPA data stream that is generated from the experimental setup to analysis, quality control and visualisation. A statistical approach is applied for the normalisation and analysis of large series of MLPA traces, making use of multiple control samples and internal controls.

Conclusions: MLPAinter visualises MLPA data in plots with information about sample replicates, normalisation settings, and sample characteristics. This integrated approach helps in the automated handling of large series of MLPA data and guarantees a quick and streamlined dataflow from the beginning of an experiment to an authorised report.

MeSH terms

  • Algorithms
  • Amplified Fragment Length Polymorphism Analysis / methods*
  • Chromosome Aberrations*
  • Chromosome Mapping / methods*
  • Chromosome Painting / methods
  • Computer Graphics
  • Database Management Systems*
  • Databases, Genetic*
  • Software*
  • Systems Integration
  • User-Computer Interface*