Identification of Potential Key Genes and Pathways in Early-Onset Colorectal Cancer Through Bioinformatics Analysis

Cancer Control : Journal of the Moffitt Cancer Center
Bin ZhaoYilin Zhao

Abstract

This study was designed to identify the potential key protein interaction networks, genes, and correlated pathways in early-onset colorectal cancer (CRC) via bioinformatics methods. We selected microarray data GSE4107 consisting 12 patient's colonic mucosa and 10 healthy control mucosa; initially, the GSE4107 were downloaded and analyzed using limma package to identify differentially expressed genes (DEGs). A total of 131 DEGs consisting of 108 upregulated genes and 23 downregulated genes of patients in early-onset CRC were selected by the criteria of adjusted P values <.01 and |log2 fold change (FC)| ≥ 2. The gene ontology functional enrichment analysis and the Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis were accomplished to view the biological process, cellular components, molecular function, and the KEGG pathways of DEGs. Finally, protein-protein interactions (PPIs) were constructed, and the hub protein module was identified. Genes such as ACTA2, ACTG2, MYH11, CALD1, MYL9, TPM2, and LMOD1 were strongly implicated in CRC. In summary, in this study, we indicated that molecular mechanisms were involved in muscle contraction and vascular smooth muscle contraction signaling pathway, which improve our understan...Continue Reading

References

Jul 25, 1990·Nucleic Acids Research·T Miwa, S Kamada
Apr 1, 1993·American Journal of Medical Genetics·R MatsuokaA Takao
May 15, 2001·American Journal of Physiology. Cell Physiology·C A Conley
Dec 26, 2001·Nucleic Acids Research·Ron EdgarAlex E Lash
Mar 16, 2002·Cell Biochemistry and Biophysics·C L Wang
Apr 25, 2003·Nucleic Acids Research·Chen-An TsaiJames J Chen
Dec 31, 2005·Nucleic Acids Research·UNKNOWN Gene Ontology Consortium
Feb 24, 2007·Clinical Cancer Research : an Official Journal of the American Association for Cancer Research·Yi HongPeh Yean Cheah
Aug 9, 2007·Advances in Clinical Chemistry·Janine KirbyFreddie C Hamdy
Nov 7, 2007·Nucleic Acids Research·UNKNOWN Gene Ontology Consortium
Oct 23, 2008·Nucleic Acids Research·Tanya BarrettRon Edgar
Jan 10, 2009·Nature Protocols·Da Wei HuangRichard A Lempicki
Mar 12, 2010·The Korean Journal of Physiology & Pharmacology : Official Journal of the Korean Physiological Society and the Korean Society of Pharmacology·Sun Young ParkUy Dong Sohn
Nov 5, 2010·BMC Research Notes·Nicolas ServantPhilippe Hupé
Dec 4, 2012·Nucleic Acids Research·Andrea FranceschiniLars J Jensen
Mar 30, 2013·Science·Bert VogelsteinKenneth W Kinzler
Sep 3, 2013·Clinical Cancer Research : an Official Journal of the American Association for Cancer Research·Hye Won LeeKyeung Min Joo
Sep 3, 2014·Tumour Biology : the Journal of the International Society for Oncodevelopmental Biology and Medicine·Xiang Tan, Mingwu Chen
Sep 16, 2014·International Journal of Cancer. Journal International Du Cancer·Jacques FerlayFreddie Bray
Sep 18, 2014·Asian Pacific Journal of Cancer Prevention : APJCP·Ren-Jie WangSan-Jun Cai
Jan 7, 2015·CA: a Cancer Journal for Clinicians·Rebecca L SiegelAhmedin Jemal
Feb 24, 2015·Nature Genetics·Claudio IsellaEnzo Medico
Sep 16, 2015·International Journal of Cancer. Journal International Du Cancer·Mitsuru YokotaAtsushi Ochiai
Oct 29, 2015·International Journal of Cancer. Journal International Du Cancer·Eiji SakaiAtsushi Kaneda
Jan 26, 2016·CA: a Cancer Journal for Clinicians·Wanqing ChenJie He
Apr 8, 2017·Biochemical and Biophysical Research Communications·Yu WuWei Dong Li

❮ Previous
Next ❯

Citations

Aug 19, 2020·Cancer Control : Journal of the Moffitt Cancer Center·Ting-Miao WuDa Fu
Jul 19, 2020·BMC Cancer·Fuyan HuXiaoping Liu
May 29, 2020·BioMed Research International·Houxi XuJiege Huo
Mar 7, 2021·Cancers·Nayden G NaydenovAndrei I Ivanov
Mar 25, 2021·Translational Oncology·Rahul Suresh, Roberto J Diaz
Apr 22, 2021·BioMed Research International·Guangyu GaoYulong Liu
Jun 3, 2021·International Journal of Environmental Research and Public Health·Abhijeet R PatilSourav Roy

❮ Previous
Next ❯

Datasets Mentioned

BETA
GSE4107

Methods Mentioned

BETA
chip

Software Mentioned

Search Tool for the Retrieval of ( STRING
Affymetrix
DAVID
Cytoscape
Limma
Rstudio
Affy
STRING
MCODE

Related Concepts

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Blastomycosis

Blastomycosis fungal infections spread through inhaling Blastomyces dermatitidis spores. Discover the latest research on blastomycosis fungal infections here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.