scholarly journals Comparisons of Robustness and Sensitivity between Cancer and Normal Cells by Microarray Data

2008 ◽  
Vol 6 ◽  
pp. CIN.S386 ◽  
Author(s):  
Liang-Hui Chu ◽  
Bor-Sen Chen
Keyword(s):  
Gene Expression ◽  
Microarray Data ◽  
Human Cancer ◽  
Expression Profiles ◽  
Gene Expression Profiles ◽  
Nonlinear Effects ◽  
Global Gene Expression ◽  
Feedback Loops ◽  
Cancer Drug ◽  
Normal Cells

Robustness is defined as the ability to uphold performance in face of perturbations and uncertainties, and sensitivity is a measure of the system deviations generated by perturbations to the system. While cancer appears as a robust but fragile system, few computational and quantitative evidences demonstrate robustness tradeoffs in cancer. Microarrays have been widely applied to decipher gene expression signatures in human cancer research, and quantification of global gene expression profiles facilitates precise prediction and modeling of cancer in systems biology. We provide several efficient computational methods based on system and control theory to compare robustness and sensitivity between cancer and normal cells by microarray data. Measurement of robustness and sensitivity by linear stochastic model is introduced in this study, which shows oscillations in feedback loops of p53 and demonstrates robustness tradeoffs that cancer is a robust system with some extreme fragilities. In addition, we measure sensitivity of gene expression to perturbations in other gene expression and kinetic parameters, discuss nonlinear effects in feedback loops of p53 and extend our method to robustness-based cancer drug design.

scholarly journals MUTYH is differentially expressed in glioblastoma.

2020 ◽  
Author(s):  
Shahan Mamoor
Keyword(s):  
Gene Expression ◽  
Differential Expression ◽  
Brain Tissue ◽  
Microarray Data ◽  
Brain Cancer ◽  
Expression Profiles ◽  
Gene Expression Profiles ◽  
Global Gene Expression ◽  
The Poor ◽  
The Brain

Glioblastoma is the most common brain cancer in adults (1, 2). The poor prognostic outlook for patients diagnosed with glioblastoma demands an enhanced understanding of the basic transcriptional nature of glioblastoma tumors (1, 2). In this study we compared global gene expression profiles of glioblastoma tumors to that of the brain in health using published microarray data (3, 4). We found that mutY DNA glycosylase, or MUTYH was among the genes whose expression was most different between the transcriptomes of glioblastoma tumors and non-affected brain tissue. Mutations in MUTYH have been identified in pediatric gliomas (5) and this is the first report of perturbed differential expression of MUTYH in primary human glioblastoma tumors.

scholarly journals Granulosa cells from human primordial and primary follicles show differential global gene expression profiles

2018 ◽  
Vol 33 (4) ◽  
pp. 666-679 ◽  
Author(s):  
E H Ernst ◽  
S Franks ◽  
K Hardy ◽  
P Villesen ◽  
K Lykke-Hartmann
Keyword(s):  
Gene Expression ◽  
Granulosa Cells ◽  
Expression Profiles ◽  
Gene Expression Profiles ◽  
Global Gene Expression

scholarly journals Dynamical consequences of regional heterogeneity in the brain’s transcriptional landscape

2020 ◽  
Author(s):  
Gustavo Deco ◽  
Kevin Aquino ◽  
Aurina Arnatkevičiūtė ◽  
Stuart Oldham ◽  
Kristina Sabaroedin ◽  
...  
Keyword(s):  
Gene Expression ◽  
Large Scale ◽  
Expression Profiles ◽  
Gene Expression Profiles ◽  
Global Gene Expression ◽  
Brain Regions ◽  
Biophysical Model ◽  
Neuronal Dynamics ◽  
Regional Heterogeneity ◽  
Magnetic Resonance Imaging Mri

AbstractBrain regions vary in their molecular and cellular composition, but how this heterogeneity shapes neuronal dynamics is unclear. Here, we investigate the dynamical consequences of regional heterogeneity using a biophysical model of whole-brain functional magnetic resonance imaging (MRI) dynamics in humans. We show that models in which transcriptional variations in excitatory and inhibitory receptor (E:I) gene expression constrain regional heterogeneity more accurately reproduce the spatiotemporal structure of empirical functional connectivity estimates than do models constrained by global gene expression profiles and MRI-derived estimates of myeloarchitecture. We further show that regional heterogeneity is essential for yielding both ignition-like dynamics, which are thought to support conscious processing, and a wide variance of regional activity timescales, which supports a broad dynamical range. We thus identify a key role for E:I heterogeneity in generating complex neuronal dynamics and demonstrate the viability of using transcriptional data to constrain models of large-scale brain function.

Global gene expression profiles in fibroblasts from synovial, skin and lymphoid tissue reveals distinct cytokine and chemokine expression patterns

2003 ◽  
Vol 90 (10) ◽  
pp. 688-697 ◽  
Author(s):  
Andrew Filer ◽  
Ewan Ross ◽  
Margarita Bofill ◽  
Stuart Martin ◽  
Mike Salmon ◽  
...  
Keyword(s):  
Gene Expression ◽  
Expression Profiles ◽  
Human Fibroblasts ◽  
Expression Patterns ◽  
Gene Expression Profiles ◽  
Global Gene Expression ◽  
Synovial Fibroblasts ◽  
Skin Fibroblasts ◽  
Inflammatory Reactions ◽  
Tnf Α

SummaryWe investigated the extent to which fibroblasts isolated from diverse tissues differ in their capacity to modulate inflammation by comparing the global gene expression profiles of cultured human fibroblasts from skin, acute and chronically inflamed synovium, lymph node and tonsil. The responses of these fibroblasts to TNF-α, IFN-γ and IL-4 stimulation were markedly different, as revealed by hierarchical cluster analysis and principal component analysis. In the absence of exogenous cytokine, syn-ovial and skin fibroblasts exhibited similar patterns of gene expression. However their transcriptional profiles diverged upon treatment with TNF-α.This proved to be biologically relevant, as TNF-α induced the secretion of different patterns and amounts of IL-6, IL-8 and CCL2 (MCP-1) in the two fibroblast types. Co-culture of skin or synovial fibroblasts with synovial fluid-derived mononuclear cells provided further evidence that these transcriptional differences were functionally significant in an ex vivo setting. Interestingly, the transcriptional response of skin fibroblasts to IL-4 converged with that of TNF-α-treated synovial fibroblasts, suggesting resident tissue fibroblasts and their blood-borne precursors may be imprinted by inflammatory cytokines that are characteristic of different tissues. Our data supports the concept that fibroblasts are heterogeneous, and that they contribute to the tissue-specificity of inflammatory reactions. Fibroblasts are therefore likely to play an active role in the persistence of chronic inflammatory reactions.This publication was partially financed by Serono Foundation for the Advancement of Medical Science.Part of this paper was originally presented at the 2nd International Workshop on New Therapeutic Targets in Vascular Biology from February 6-9, 2003 in Geneva, Switzerland.

Sign in / Sign up

Export Citation Format

Share Document