Bicoid signal extraction: Another powerful approach

Math Biosci. 2018 Sep:303:52-61. doi: 10.1016/j.mbs.2018.06.002. Epub 2018 Jul 4.

Abstract

This belief has been widely accepted that Bicoid (Bcd) protein distributes in a concentration gradient that organizes the anterior/posterior axis of the Drosophila embryo. Segment polarity protein provides positional cues for the development of head and thoracic segments. Therefore As a result of its essential role, modeling the Bicoid gradient has been welcomed by many researchers in various scientific fields. In this paper, We present investigation of gene expression profiles by means of Singular Spectrum Decomposition (SSD), an optimizing version of Singular Spectrum Analysis for filtering and extracting the bicoid gene expression signal. The results with strong evidence suggest that the proposed technique is capable of eliminating noise and can be considered as an acceptable method for filtering gene expression.

Keywords: Bicoid; Drosophila melanogaster; Signal extraction; Singular spectrum analysis.

Publication types

  • Comparative Study

MeSH terms

  • Algorithms
  • Animals
  • Body Patterning
  • Computer Simulation
  • Drosophila Proteins / genetics
  • Drosophila Proteins / metabolism*
  • Drosophila melanogaster / embryology*
  • Drosophila melanogaster / genetics
  • Drosophila melanogaster / metabolism*
  • Gene Expression Profiling / statistics & numerical data
  • Gene Expression Regulation, Developmental
  • Homeodomain Proteins / genetics
  • Homeodomain Proteins / metabolism*
  • Mathematical Concepts
  • Models, Biological
  • Signal-To-Noise Ratio
  • Trans-Activators / genetics
  • Trans-Activators / metabolism*

Substances

  • Drosophila Proteins
  • Homeodomain Proteins
  • Trans-Activators
  • bcd protein, Drosophila