Home| About us| Widget| login/register| For authors| For reviewers |Submit a paper
(close)

(Ctrl-click to select multiple journals)


How should we address you?

Your email address


 Yes, sign up now
 Sign up for general news too

Privacy Statement
 
 
 

Gene Regulation and Systems Biology

Synopsis: An open access, peer reviewed electronic journal that covers regulation of genes and proteins they encode and the broader field of systems biology.


Indexing: 8 major databases. Pubmed indexing for NIH-funded research.

Processing time: Decision in 2 weeks for 90% of papers.

Visibility: Most popular article read 7600+ times.

RSS

NEWS

TWITTER
View factor
for journal
113635


About this journal

ISSN: 1177-6250



Aims and scope:

Gene Regulation and Systems Biology is concerned with the regulation of genes and the proteins they encode and the relationship between gene regulation and the wider field of systems biology.

The regulation of genes and the proteins they encode is at the core of systems biology. Understanding the role of gene regulation in the context of the entire system as it relates to disease processes will aid therapeutic development. Therefore, combining our knowledge of gene expression and promoter control, improving gene and protein networks, and determining the role of signal transduction will enhance our ability to treat complex diseases.

Systems biology is concerned with the integration of different levels of information to understand how complex biological systems function. By studying the relationships and interactions between various parts of a biological system (including gene and protein networks involved in cell signaling) it may be possible to create an understandable model of the whole system. Mathematical, analytic, and particularly computer simulation and heuristics are used as research methods.

Editorial standards and procedures:

Submissions, excluding editorials, letters to the editor and dedications, will be peer reviewed by two reviewers.  Reviewers are required to provide fair, balanced and constructive reports.  

Under our Fairness in Peer Review Policy authors may appeal against reviewers' recommendations which are ill-founded, unobjective or unfair.  Appeals are considered by the Editor in Chief or Associate Editor.

Papers are not sent to peer reviewers following submission of a revised manuscript. Editorial decisions on re-submitted papers are based on the author's response to the initial peer review report.

Indexing:

This journal is indexed by the following services:

  • Embase
  • Embiology
  • Google Scholar
  • CAS
  • DOAJ
  • Intute
  • OAIster

SPARC Europe Seal award winner:

This journal has been awarded a SPARC Europe Seal. The Seal is an initiative of SPARC Europe (Scholarly Publishing and Academic Resources Coalition) and the Directory of Open Access Journals (DOAJ) which is awarded to journals applying a Creative Commons CC-BY copyright license and that make journal metadata accessible to DOAJ.  

Amongst other important services DOAJ makes metadata OAI-compliant.  This in turn enhances the visibility of papers and allows OAI-harvesters to include the details of journal articles in their services. We encourage readers to make use of this valuable resource.  The DOAJ search page is available here.

National Institutes of Health Public Access Policy compliant:

As of April 7 2008, the US NIH Public Access Policy requires that all peer reviewed articles resulting from research carried out with NIH funding be deposited in the Pubmed Central archive.

If you are an NIH employee or grantee Libertas Academica will ensure that you comply with the policy by depositing your paper at Pubmed Central on your behalf. 



 
 
 


Gene Expression Analysis of Biological Systems Driving an Organotypic Model of Endometrial Carcinogenesis and Chemoprevention

Authors: Doris M. Benbrook, Stan Lightfoot, James Ranger-Moore, Tongzu Liu, Shylet Chengedza, William L. Berry and Igor Dozmorov
Publication Date: 10 Feb 2008
Gene Regulation and Systems Biology 2008:2 21-42

Doris M. Benbrook1,2, Stan Lightfoot3, James Ranger-Moore4, Tongzu Liu1, Shylet Chengedza2, William L. Berry5 and Igor Dozmorov6

1Department of Obstetrics and Gynecology, University of Oklahoma Health Sciences Center, Oklahoma City, OK. 2Department of Biochemistry and Molecular Biology, University of Oklahoma Health Sciences Center, Oklahoma City, OK. 3Department of Pathology, University of Oklahoma Health Sciences Center, Oklahoma City, OK. 4Arizona Cancer Center, AZ. 5Department of Cell Biology, University of Oklahoma Health Sciences Center, Oklahoma City, OK. 6Oklahoma Medical Research Foundation, Oklahoma City, OK.

Abstract

An organotypic model of endometrial carcinogenesis and chemoprevention was developed in which normal endometrial organotypic cultures exposed to the carcinogen, DMBA (7,12-dimethylbenz[a]anthracene), developed a cancerous phenotype in the absence, but not presence of subsequent treatment with a fl exible heteroarotinoid (Flex-Het), called SHetA2. A discriminant function based on karyometric features of cellular nuclei and an agar clonogenic assay confirmed these histologic changes. Interpretation of microarray data using an internal standard approach identified major pathways associated with carcinogenesis and chemoprevention governed by c-myc, p53, TNFα and Jun genes. Cluster analysis of functional associations of hypervariable genes demonstrated that carcinogenesis is accompanied by a stimulating association between a module of genes that includes tumor necrosis factor α (TNFα), c-myc, and epidermal growth factor-receptor (EGF-R) and a module that includes insulin-like growth factor I-receptor (IGF-IR), p53, and Jun genes. Two secreted proteins involved in these systems, tenascin C and inhibin A, were validated at the protein level. Tenascin C is an EGF-R ligand, and therefore may contribute to the increased EGF-R involvement in carcinogenesis. The known roles of the identifi ed molecular systems in DMBA and endometrial carcinogenesis and chemoprevention supports the validity of this model and the potential clinical utility of SHetA2 in chemoprevention.



Post comment




No comments yet...Be the first to comment.

Bookmark this article

LINKEDIN FACEBOOK

Add to Mixx! MIXX YAHOO! BUZZ

PERMALINK DIGG


Sign up for free journal updates

How should we address you?
Your email address
 Yes, sign up now


Recently published in this journal

Evaluation of the Role of FGF23 in Mineral Metabolism
- 03/Aug/2009

The Goldfish SG2NA Gene Encodes Two α-Type Regulatory Subunits for PP-2A and Displays Distinct Developmental Expression Pattern
- 21/Jul/2009

Application of Petri Nets in Bone Remodeling
- 06/Jul/2009

Letter to the Editor: Does Dicer Expression Affect shRNA Processing?
- 19/Jun/2009

Safety and in vivo Expression of a GNE-Transgene: A Novel Treatment Approach for Hereditary Inclusion Body Myopathy-2
- 08/May/2009

Sigma Factors for Cyanobacterial Transcription
- 22/Apr/2009

An Effective Tri-Clustering Algorithm Combining Expression Data with Gene Regulation Information
- 15/Apr/2009

A Novel Function of Ethylene
- 07/Apr/2009

Post-Transcriptional Control of Chloroplast Gene Expression
- 12/Mar/2009

RNAi-Mediated Knockdown Showing Impaired Cell Survival in Drosophila Wing Imaginal Disc
- 19/Feb/2009

Patterns of Stochastic Behavior in Dynamically Unstable High-Dimensional Biochemical Networks
- 29/Jan/2009

The MAPK Signaling Cascade is a Central Hub in the Regulation of Cell Cycle, Apoptosis and Cytoskeleton Remodeling by Tripeptidyl-Peptidase II
- 24/Nov/2008

Systems Biology and Cancer Prevention: All Options on the Table
- 10/Oct/2008

Advances in Antisense Oligonucleotide Development for Target Identification, Validation, and as Novel Therapeutics
- 22/Sep/2008

Role of Cytokines During Epileptogenesis and in the Transition from the Interictal to the Ictal State in the Epileptic Mutant EL Mouse
- 27/Aug/2008

Molecular Mechanisms of Uterine Leiomyosarcomas: Involvement of Defect in LMP2 Expression
- 22/Jul/2008

Preclinical Assessment of wt GNE Gene Plasmid for Management of Hereditary Inclusion Body Myopathy 2 (HIBM2)
- 20/Jun/2008

Level of Expression of the Nonmutant Ferrochelatase Allele is a Determinant of Biochemical Phenotype in a Mouse Model of Erythropoietic Protoporphyria
- 29/May/2008

Gene Expression in Pre-MBT Embryos and Activation of Maternally-Inherited Program of Apoptosis to be Executed at around MBT as a Fail-Safe Mechanism in Xenopus Early Embryogenesis
- 29/May/2008

RNA Processing and mRNA Surveillance in Monogenic Diabetes
- 21/May/2008

Centrality Analysis Methods for Biological Networks and Their Application to Gene Regulatory Networks
- 15/May/2008

The Remarkable Mechanism of Prostaglandin E2 on Synaptic Plasticity
- 09/May/2008

Multi-Target Approaches in Colon Cancer Chemoprevention Based on Systems Biology of Tumor Cell-Signaling
- 02/May/2008

Pharmacodynamic/Pharmacogenomic Modeling of Insulin Resistance Genes in Rat Muscle After Methylprednisolone Treatment: Exploring Regulatory Signaling Cascades
- 23/Apr/2008

MicroRNAs Regulate Osteogenesis and Chondrogenesis of Mouse Bone Marrow Stromal Cells
- 22/Apr/2008

Association of Vascular Endothelial Growth Factor Polymorphisms with Asthma in Tunisian Children
- 10/Apr/2008

Calcitriol and TO-901317 Interact in Human Prostate Cancer LNCaP Cells
- 17/Mar/2008

Butyrate Induced Cell Cycle Arrest in Bovine Cells through Targeting Gene Expression Relevant to DNA Replication Apparatus
- 17/Mar/2008

Image Analysis and Data Normalization Procedures are Crucial for Microarray Analyses
- 17/Mar/2008

Comparison of Statistical Data Models for Identifying Differentially Expressed Genes Using a Generalized Likelihood Ratio Test
- 17/Mar/2008

Gene Regulation System of Vasopressin and Corticotoropin-Releasing Hormone
- 03/Mar/2008

TAK1 mRNA Expression in the Tumor Tissue of Locally Advanced Head and Neck Cancer Patients
- 14/Feb/2008

Pharmacodynamic Modeling of Acute and Chronic Effects of Methylprednisolone on Hepatic Urea Cycle Genes in Rats
- 14/Feb/2008

Genomic Loci Modulating the Retinal Transcriptome in Wound Healing
- 14/Feb/2008

Gene Expression Analysis of Biological Systems Driving an Organotypic Model of Endometrial Carcinogenesis and Chemoprevention
- 10/Feb/2008

Oxygen and Cell Fate Decisions
- 10/Feb/2008

Reconstructing a Network of Stress-Response Regulators via Dynamic System Modeling of Gene Regulation
- 10/Feb/2008

Gene Module Identification from Microarray Data Using Nonnegative Independent Component Analysis
- 15/Jan/2008

MicroRNA Expression in Alzheimer Blood Mononuclear Cells
- 20/Dec/2007

Transcription Initiation by Mix and Match Elements: Flexibility for Polymerase Binding to Bacterial Promoters
- 17/Dec/2007

Prostate Cancer Epigenetics: A Review on Gene Regulation
- 11/Dec/2007

Vectors Encoding Seven Oikosin Signal Peptides Transfected into CHO Cells Differ Greatly in Mediating Gaussia luciferase and Human Endostatin Production although mRNA Levels are Largely Unaffected
- 11/Dec/2007

Early Onset of Heat-Shock Response in Mouse Embryos Revealed by Quantification of Stress-Inducible hsp70i RNA
- 06/Dec/2007

New Insights into the Genetic Regulation of Plasmodium Falciparum Obtained by Bayesian Modeling
- 29/Nov/2007

Variability of DNA Microarray Gene Expression Profiles in Cultured Rat Primary Hepatocytes
- 18/Nov/2007

Current Status of Monocyte Differentiation-Inducing (MDI) Factors Derived from Human Fetal Membrane Chorion Cells Undergoing Apoptosis after Infl uenza Virus Infection
- 12/Nov/2007

Trichoderma Biocontrol: Signal Transduction Pathways Involved in Host Sensing and Mycoparasitism
- 08/Nov/2007

Proposed Regulation of Gene Expression by Glucose in Rodent Heart
- 05/Nov/2007

Enterobacterial Small Mobile Sequences Carry Open Reading Frames and are Found Intragenically—Evolutionary Implications for Formation of New Peptides
- 16/Oct/2007

Signaling Mechanisms of Endogenous Angiogenesis Inhibitors Derived from Type IV Collagen
- 14/Oct/2007

β1-Integrin Signaling is Essential for Lens Fiber Survival
- 12/Oct/2007

Nonlinear Dynamic Trans/Cis Regulatory Circuit for Gene Transcription via Microarray Data
- 12/Oct/2007

CGI: Java Software for Mapping and Visualizing Data from Array-based Comparative Genomic Hybridization and Expression Profiling
- 06/Oct/2007

Role of SP-1 in SDS-Induced Adipose Differentiation Related Protein Synthesis in Human Keratinocytes
- 04/Oct/2007

The Role and Regulation of Receptor-Like Kinases in Plant Defense
- 26/Sep/2007

The Effect of Aromatic Hydrocarbon Receptor on the Phenotype of the Hepa 1c1c7 Murine Hepatoma Cells in the Absence of Dioxin
- 18/Sep/2007

Computational Systems Biology in Cancer: Modeling Methods and Applications
- 17/Sep/2007

Insulin Sensitizing Pharmacology of Thiazolidinediones Correlates with Mitochondrial Gene Expression rather than Activation of PPARγ
- 17/Sep/2007

Role of Fetal Stem Cells in Maternal Tissue Regeneration
- 06/Sep/2007

Intensity Dependent Confidence Intervals on Microarray Measurements of Differentially Expressed Genes: A Case Study of the Effect of MK5, FKRP and TAF4 on the Transcriptome
- 17/Jul/2007

A Discussion Concerning the Inclusion of Variety Effect when Analysis of Variance is Used to Detect Differentially Expressed Genes
- 15/Jun/2007

Developing a Systems Biology Approach to Study Disease Progression Caused by Heterodera glycines in Glycine max
- 05/Jun/2007

Practical Lessons from Theoretical Models about the Somitogenesis
- 28/May/2007

Evaluation of Two Outlier-Detection-Based Methods for Detecting Tissue-Selective Genes from Microarray Data
- 01/May/2007

Systems Biology-Based Identification of Crosstalk between E2F Transcription Factors and the Fanconi Anemia Pathway
- 01/May/2007



Related journals...