Putative synaptic genes defined from a Drosophila whole body developmental transcriptome by a machine learning approach

BMC Genomics. 2015 Sep 15;16(1):694. doi: 10.1186/s12864-015-1888-3.

Abstract

Background: Assembly and function of neuronal synapses require the coordinated expression of a yet undetermined set of genes. Although roughly a thousand genes are expected to be important for this function in Drosophila melanogaster, just a few hundreds of them are known so far.

Results: In this work we trained three learning algorithms to predict a "synaptic function" for genes of Drosophila using data from a whole-body developmental transcriptome published by others. Using statistical and biological criteria to analyze and combine the predictions, we obtained a gene catalogue that is highly enriched in genes of relevance for Drosophila synapse assembly and function but still not recognized as such.

Conclusions: The utility of our approach is that it reduces the number of genes to be tested through hypothesis-driven experimentation.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Algorithms
  • Animals
  • Computational Biology
  • Datasets as Topic
  • Drosophila / embryology*
  • Drosophila / genetics*
  • Gene Expression Profiling
  • Gene Expression Regulation, Developmental*
  • Humans
  • Machine Learning*
  • Models, Biological
  • Organ Specificity / genetics
  • Rats
  • Synapses / genetics*
  • Synapses / metabolism
  • Transcriptome*