Genome-wide Coexpression Dynamics in Lung Adenocarcinoma Öffentlichkeit
Lin, Pei-Yu (2011)
Published
Abstract
Genome-wide Coexpression Dynamics in Lung
Adenocarcinoma
By Pei-Yu Lin
Lung cancer is one of the leading cause of cancer death in the
United States and
worldwide. Lung cancer in never smokers is almost universally
non-small cell lung
carcinoma (NSCLC), with a sizeable majority being adenocarcinoma. A
microarray is
a multiplex lab-on-a-chip consisting of an arrayed series of
thousands of microscopic
spots of DNA oligonucleotides that are used to hybridize a cDNA or
cRNA sample.
The high- throughput technology can accomplish many genetic tests
in parallel and
has dramatically accelerated many types of investigation. Liquid
Association (LA) is
a method to systematically study the co-expression pattern between
functionally
related genes as the cellular-state changes. In this study we used
LA to analyze
NSCLC DNA microarray data from 4 different lung cancer institutes.
We found genes
APOL3 and CEACAM1 to be a potential gene pair that exhibit dynamic
correlations
for blood glucose level maintenance when using CMKLR1 as the
surrogate of the
cellular-status. A study from Sergentanis et al. pointed out that
the defect of glucose
metabolism is a meaningful factor to elevate lung cancer risk. Our
result on the
potential dynamic correlation of genes APOL3 and CEACAM1 could
provide
biologists and doctors candidate genes for further study of the
relationship between
glucose metabolism and lung cancer formation.
Table of Contents
Table of contents
Introduction
....................................................................................................................
1
Lung cancer
............................................................................................................
1
DNA Microarray
....................................................................................................
2
Theoretical Concepts
.............................................................................................
3
Study Goal
.............................................................................................................
5
Data Description
....................................................................................................
5
Methods..........................................................................................................................
7
Gene filtering
.........................................................................................................
7
Gene selection
........................................................................................................
8
Results
..........................................................................................................................
12
Two gene pairs were selected by Liquid Association
.......................................... 12
Interpretation of significant finding
.....................................................................
13
Discussion
....................................................................................................................
18
Table 1. Summary statistics of the clinical and survival data
...................................... 22
Figure 1. The flow chart of analysis procedure
...........................................................
23
Figure 2. Co-expression dynamics.
..............................................................................
24
Reference
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25
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