altcdfenvs

"altcdfenvs" is a software tool to address the challenge of keeping microarray analyses relevant amid the rapidly evolving landscape of biological knowledge. Specifically, it tackles the issue of probe selection in short oligonucleotide arrays, a crucial factor affecting the quality of gene expression measurements. Despite the static nature of probes synthesized on arrays, "altcdfenvs" offers a dynamic approach by allowing for the re-evaluation of microarray results through updated mappings of probes to genes, incorporating the latest advancements in biological databases.

Topic

Gene expression;Mapping

Detail

  • Operation: Sequence tag mapping

  • Software interface: Command-line user interface,Library

  • Language: R

  • License: GNU General Public License, version 2

  • Cost: Free

  • Version name: 2.64.0

  • Credit: The Danish Biotechnology Instrument Center.

  • Input: Sequence record [FASTA]

  • Output: Map [Map format]

  • Contact: Laurent Gautier lgautier@gmail.com

  • Collection: -

  • Maturity: Stable

Publications

  • Alternative mapping of probes to genes for Affymetrix chips.
  • Gautier L, et al. Alternative mapping of probes to genes for Affymetrix chips. Alternative mapping of probes to genes for Affymetrix chips. 2004; 5:111. doi: 10.1186/1471-2105-5-111
  • https://doi.org/10.1186/1471-2105-5-111
  • PMID: 15310390
  • PMC: PMC514699

Download and documentation

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