A flexible data analysis tool for chemical genetic screens

Chem Biol. 2004 Nov;11(11):1495-503. doi: 10.1016/j.chembiol.2004.08.026.


High-throughput assays generate immense quantities of data that require sophisticated data analysis tools. We have created a freely available software tool, SLIMS (Small Laboratory Information Management System), for chemical genetics which facilitates the collection and analysis of large-scale chemical screening data. Compound structures, physical locations, and raw data can be loaded into SLIMS. Raw data from high-throughput assays are normalized using flexible analysis protocols, and systematic spatial errors are automatically identified and corrected. Various computational analyses are performed on tested compounds, and dilution-series data are processed using standard or user-defined algorithms. Finally, published literature associated with active compounds is automatically retrieved from Medline and processed to yield potential mechanisms of actions. SLIMS provides a framework for analyzing high-throughput assay data both as a laboratory information management system and as a platform for experimental analysis.

Publication types

  • Research Support, Non-U.S. Gov't
  • Research Support, U.S. Gov't, P.H.S.

MeSH terms

  • Cyclic AMP Response Element-Binding Protein
  • Databases, Genetic
  • Drug Evaluation, Preclinical*
  • Flavones
  • Flavonoids / pharmacology
  • Genes, Reporter
  • Humans
  • Muscular Atrophy, Spinal / genetics
  • Nerve Tissue Proteins / genetics
  • Nerve Tissue Proteins / metabolism
  • RNA-Binding Proteins
  • SMN Complex Proteins
  • Software*


  • 6,7-dihydroxyflavone
  • Cyclic AMP Response Element-Binding Protein
  • Flavones
  • Flavonoids
  • Nerve Tissue Proteins
  • RNA-Binding Proteins
  • SMN Complex Proteins