Estimating robustness of the tileShuffle method with repeated probes
Sigrun Helga Lund, Asgeir Sigurdsson, Sigurjon Axel Gudjonsson, Julius, Gudmundsson, Daniel Fannar Gudbjartsson, Thorunn Rafnar, Kari Stefansson and, Gunnar Stefansson
TL;DR
This paper evaluates the robustness of the TileShuffle method for identifying candidate lncRNAs at 8q24.2 using repeated microarray experiments and Monte Carlo simulations to assess consistency.
Contribution
It introduces a systematic evaluation of TileShuffle's robustness through repeated experiments and Monte Carlo simulations, providing insights into its reliability.
Findings
TileShuffle shows consistent candidate selection within microarrays.
The method's robustness varies between different microarrays.
Monte Carlo simulations effectively estimate selection coherence.
Abstract
In this paper the TileShuffle method is evaluated as a search method for candidate lncRNAs at 8q24.2. The method is run on three microarrays. Microarrays which all contained the same sample and repeated copies of tiled probes. This allows the coherence of the selection method within and between microarrays to be estimated by Monte Carlo simulations on the repeated probes.
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Taxonomy
TopicsGene expression and cancer classification · Molecular Biology Techniques and Applications · Genomics and Phylogenetic Studies