Effects of distinct drugs on gene transcription in an osteosarcoma cell line

Oncology Letters
Hui ZhouDongxu Zhao

Abstract

Osteosarcoma (OS) is a common cancerous bone tumor which has a detrimental impact on the lives of patients and their families. The present study aimed at investigating the underlying molecular mechanism of various drug treatments pertaining to OS, including dimethyl sulfoxide (DMSO), doxorubicin (DXP), Nutlin-3, actinomycin D (ActD) and etoposide (Eto). Microarray and p53 chromatin immunoprecipitation combined with sequencing (ChIP-seq) datasets of the OS cell line U2OS treated with distinct drugs were acquired from the Gene Expression Omnibus and differentially-expressed genes (DEGs) were screened for alignment analysis. The p53-binding target genes were identified and ChIP-seq and microarray gene expression data were combined to identify directly and indirectly targeted genes. A regulatory network of p53 was constructed with the acquired data. Finally, the Database for Annotation, Visualization and Integrated Discovery was interrogated for annotation of target genes. A total of 212 p53-binding peaks were obtained in the untreated group, whereas thousands of peaks were obtained in the treated groups. In total, ~1,000 target genes were identified in each of DXP, DMSO, Eto and ActD treatment groups, whereas the Nutlin-3 treatmen...Continue Reading

References

May 14, 1992·The New England Journal of Medicine·J ToguchidaM S Sasaki
Aug 1, 1990·Proceedings of the National Academy of Sciences of the United States of America·L M MulliganW K Cavenee
Aug 1, 1985·Proceedings of the National Academy of Sciences of the United States of America·H M Sobell
Jan 20, 1999·European Journal of Cancer : Official Journal for European Organization for Research and Treatment of Cancer (EORTC) [and] European Association for Cancer Research (EACR)·K R Hande
Dec 1, 2000·Nature·B VogelsteinA J Levine
Feb 13, 2004·Bioinformatics·Laurent GautierRafael A Irizarry
Mar 17, 2004·Archives of Dermatological Research·Susann MaijgrenRune Toftgård
Nov 24, 2004·Nature Cell Biology·Shigeomi ShimizuYoshihide Tsujimoto
Mar 25, 2005·The Journal of Biological Chemistry·Pritam SenguptaBarbara D Smith
Sep 19, 2008·Genome Biology·Yong ZhangX Shirley Liu
Nov 4, 2008·Nature Biotechnology·Hongkai JiWing H Wong
May 16, 2009·Science·Gwenael BadisMartha L Bulyk
Jun 11, 2009·Clinical Cancer Research : an Official Journal of the American Association for Cancer Research·Mitsuru MiyachiHajime Hosoi
Aug 25, 2010·Clinical Cancer Research : an Official Journal of the American Association for Cancer Research·Haishan Xu, Geoffrey W Krystal
Feb 22, 2011·Modern Pathology : an Official Journal of the United States and Canadian Academy of Pathology, Inc·Fanny DujardinGonzague de Pinieux
Mar 12, 2011·PloS One·Leonie SmeenkMarion Lohrum
Mar 6, 2012·Nature Methods·Ben Langmead, Steven L Salzberg
Jul 13, 2013·Archives of Medical Science : AMS·Yi LuoJing Chen
Dec 19, 2013·Cancer Treatment Reviews·Anja LuetkeHeribert Juergens
Aug 28, 2014·Molecular Cancer Research : MCR·Dana J LukinJames J Manfredi

❮ Previous
Next ❯

Citations


❮ Previous
Next ❯

Methods Mentioned

BETA
immunoprecipitation
ChIP-seq

Software Mentioned

Bowtie 2
CisGenome
Affy
Bioconductor
R

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.