Data Perturbation and Recovery of Time Series Gene Expression Data

Abstract

Cells, in order to regulate their activities, process transcripts by controlling which genes to transcribe and by what amount. The transcription level of genes often change over time. Rate of change of gene transcription varies between genes. It can even change for the same gene across different members of a population. Thus, for a given gene, it is important to study the transcription level not only at a single time point, but across multiple time points to capture changes in patterns of gene expression which underlies several phenotypic or external factors. In such a dataset perturbation can happen due to which it may have missing transcription values for different samples at different time points. In this paper, we define three data perturbation models that are significant with respect to random deletion. We also define a recovery method that recovers data loss in the perturbed dataset such that the error is minimized. Our experimental results show that the recovery method compensates for the loss made by perturbation models. We show by means of two measures, namely, normalized distance and Pearson's correlation coefficient that the distance between the original and perturbed dataset is more than the distance between original and recovered dataset.