Source 1primary paper2003Development
Toolkit/Microarray gene expression profiling
Microarray gene expression profiling
Taxonomy: Technique Branch / Method. Workflows sit above the mechanism and technique branches rather than replacing them.
Summary
Microarray gene expression profiling is a transcriptome-scale assay method used in Arabidopsis seedlings to measure genome-wide expression changes under genetic and light-regulated perturbations. In the cited studies, it was applied to define how COP/DET/FUS loci and COP1 regulate light-responsive gene expression and seedling development.
Usefulness & Problems
Why this is useful
This assay is useful for comparing global gene expression states across developmental, genetic, and light conditions in Arabidopsis. The cited work used it to connect pleiotropic photomorphogenesis regulators with genome expression outputs rather than single-gene readouts.
Problem solved
It addresses the problem of determining how mutations in COP/DET/FUS loci or perturbation of COP1 affect genome-wide transcriptional programs during Arabidopsis seedling development. It also enables comparison of dark-grown dominant-negative COP1 conditions with white-light and cop1 mutant expression states.
Problem links
Need precise spatiotemporal control with light input
DerivedMicroarray gene expression profiling is a transcriptome-scale assay method used to measure genome expression changes in Arabidopsis seedlings under genetic and light-regulated perturbations. In the cited studies, it was applied to analyze the roles of COP/DET/FUS loci and COP1 in regulating light-responsive gene expression and seedling development.
Taxonomy & Function
Primary hierarchy
Technique Branch
Method: A concrete measurement method used to characterize an engineered system.
Mechanisms
comparative genome-wide expression profilingcomparative genome-wide expression profilinghybridization-based transcript detectionhybridization-based transcript detectionTarget processes
No target processes tagged yet.
Input: Light
Implementation Constraints
cofactor dependency: cofactor requirement unknownencoding mode: genetically encodedimplementation constraint: context specific validationimplementation constraint: spectral hardware requirementoperating role: sensor
The reported applications involved Arabidopsis seedlings and comparisons across genetic perturbations and light conditions, including darkness, white light, cop1 mutations, and overexpression of the dominant-negative COP1 N terminus N282. The evidence does not specify array chemistry, sample preparation workflow, normalization strategy, or expression system details for the N282 construct.
The supplied evidence supports use in Arabidopsis seedling transcript profiling, but does not provide details on array platform, probe design, dynamic range, or validation by orthogonal assays. No evidence here addresses temporal resolution, single-cell resolution, or applicability beyond the reported plant contexts.
Validation
Cell-freeBacteriaMammalianMouseHumanTherapeuticIndep. Replication
Supporting Sources
Source 2primary paper2002The Plant Cell
Ranked Claims
Microarray gene expression profiling was used to examine the role of pleiotropic COP/DET/FUS loci and other partially photomorphogenic loci during Arabidopsis seedling development and genome expression regulation.
Microarray gene expression profiling was used to examine the role of pleiotropic COP/DET/FUS loci as well as other partially photomorphogenic loci during Arabidopsis seedling development and genome expression regulation.
Microarray gene expression profiling was used to examine the role of pleiotropic COP/DET/FUS loci and other partially photomorphogenic loci during Arabidopsis seedling development and genome expression regulation.
Microarray gene expression profiling was used to examine the role of pleiotropic COP/DET/FUS loci as well as other partially photomorphogenic loci during Arabidopsis seedling development and genome expression regulation.
Microarray gene expression profiling was used to examine the role of pleiotropic COP/DET/FUS loci and other partially photomorphogenic loci during Arabidopsis seedling development and genome expression regulation.
Microarray gene expression profiling was used to examine the role of pleiotropic COP/DET/FUS loci as well as other partially photomorphogenic loci during Arabidopsis seedling development and genome expression regulation.
Microarray gene expression profiling was used to examine the role of pleiotropic COP/DET/FUS loci and other partially photomorphogenic loci during Arabidopsis seedling development and genome expression regulation.
Microarray gene expression profiling was used to examine the role of pleiotropic COP/DET/FUS loci as well as other partially photomorphogenic loci during Arabidopsis seedling development and genome expression regulation.
Microarray gene expression profiling was used to examine the role of pleiotropic COP/DET/FUS loci and other partially photomorphogenic loci during Arabidopsis seedling development and genome expression regulation.
Microarray gene expression profiling was used to examine the role of pleiotropic COP/DET/FUS loci as well as other partially photomorphogenic loci during Arabidopsis seedling development and genome expression regulation.
Microarray gene expression profiling was used to examine the role of pleiotropic COP/DET/FUS loci and other partially photomorphogenic loci during Arabidopsis seedling development and genome expression regulation.
Microarray gene expression profiling was used to examine the role of pleiotropic COP/DET/FUS loci as well as other partially photomorphogenic loci during Arabidopsis seedling development and genome expression regulation.
Microarray gene expression profiling was used to examine the role of pleiotropic COP/DET/FUS loci and other partially photomorphogenic loci during Arabidopsis seedling development and genome expression regulation.
Microarray gene expression profiling was used to examine the role of pleiotropic COP/DET/FUS loci as well as other partially photomorphogenic loci during Arabidopsis seedling development and genome expression regulation.
Microarray gene expression profiling was used to examine the role of pleiotropic COP/DET/FUS loci and other partially photomorphogenic loci during Arabidopsis seedling development and genome expression regulation.
Microarray gene expression profiling was used to examine the role of pleiotropic COP/DET/FUS loci as well as other partially photomorphogenic loci during Arabidopsis seedling development and genome expression regulation.
Microarray gene expression profiling was used to examine the role of pleiotropic COP/DET/FUS loci and other partially photomorphogenic loci during Arabidopsis seedling development and genome expression regulation.
Microarray gene expression profiling was used to examine the role of pleiotropic COP/DET/FUS loci as well as other partially photomorphogenic loci during Arabidopsis seedling development and genome expression regulation.
Microarray gene expression profiling was used to examine the role of pleiotropic COP/DET/FUS loci and other partially photomorphogenic loci during Arabidopsis seedling development and genome expression regulation.
Microarray gene expression profiling was used to examine the role of pleiotropic COP/DET/FUS loci as well as other partially photomorphogenic loci during Arabidopsis seedling development and genome expression regulation.
Microarray gene expression profiling was used to examine the role of pleiotropic COP/DET/FUS loci and other partially photomorphogenic loci during Arabidopsis seedling development and genome expression regulation.
Microarray gene expression profiling was used to examine the role of pleiotropic COP/DET/FUS loci as well as other partially photomorphogenic loci during Arabidopsis seedling development and genome expression regulation.
Microarray gene expression profiling was used to examine the role of pleiotropic COP/DET/FUS loci and other partially photomorphogenic loci during Arabidopsis seedling development and genome expression regulation.
Microarray gene expression profiling was used to examine the role of pleiotropic COP/DET/FUS loci as well as other partially photomorphogenic loci during Arabidopsis seedling development and genome expression regulation.
Microarray gene expression profiling was used to examine the role of pleiotropic COP/DET/FUS loci and other partially photomorphogenic loci during Arabidopsis seedling development and genome expression regulation.
Microarray gene expression profiling was used to examine the role of pleiotropic COP/DET/FUS loci as well as other partially photomorphogenic loci during Arabidopsis seedling development and genome expression regulation.
Microarray gene expression profiling was used to examine the role of pleiotropic COP/DET/FUS loci and other partially photomorphogenic loci during Arabidopsis seedling development and genome expression regulation.
Microarray gene expression profiling was used to examine the role of pleiotropic COP/DET/FUS loci as well as other partially photomorphogenic loci during Arabidopsis seedling development and genome expression regulation.
Microarray gene expression profiling was used to examine the role of pleiotropic COP/DET/FUS loci and other partially photomorphogenic loci during Arabidopsis seedling development and genome expression regulation.
Microarray gene expression profiling was used to examine the role of pleiotropic COP/DET/FUS loci as well as other partially photomorphogenic loci during Arabidopsis seedling development and genome expression regulation.
Microarray gene expression profiling was used to examine the role of pleiotropic COP/DET/FUS loci and other partially photomorphogenic loci during Arabidopsis seedling development and genome expression regulation.
Microarray gene expression profiling was used to examine the role of pleiotropic COP/DET/FUS loci as well as other partially photomorphogenic loci during Arabidopsis seedling development and genome expression regulation.
Microarray gene expression profiling was used to examine the role of pleiotropic COP/DET/FUS loci and other partially photomorphogenic loci during Arabidopsis seedling development and genome expression regulation.
Microarray gene expression profiling was used to examine the role of pleiotropic COP/DET/FUS loci as well as other partially photomorphogenic loci during Arabidopsis seedling development and genome expression regulation.
Overexpression of the dominant-negative COP1 N terminus N282 in darkness produced a genome expression profile similar to those produced by white light and cop1 mutations.
overexpression of the dominant-negative-acting N terminus of COP1 (N282) in darkness produced a genome expression profile similar to those produced by white light and the cop1 mutations
Overexpression of the dominant-negative COP1 N terminus N282 in darkness produced a genome expression profile similar to those produced by white light and cop1 mutations.
overexpression of the dominant-negative-acting N terminus of COP1 (N282) in darkness produced a genome expression profile similar to those produced by white light and the cop1 mutations
Overexpression of the dominant-negative COP1 N terminus N282 in darkness produced a genome expression profile similar to those produced by white light and cop1 mutations.
overexpression of the dominant-negative-acting N terminus of COP1 (N282) in darkness produced a genome expression profile similar to those produced by white light and the cop1 mutations
Overexpression of the dominant-negative COP1 N terminus N282 in darkness produced a genome expression profile similar to those produced by white light and cop1 mutations.
overexpression of the dominant-negative-acting N terminus of COP1 (N282) in darkness produced a genome expression profile similar to those produced by white light and the cop1 mutations
Overexpression of the dominant-negative COP1 N terminus N282 in darkness produced a genome expression profile similar to those produced by white light and cop1 mutations.
overexpression of the dominant-negative-acting N terminus of COP1 (N282) in darkness produced a genome expression profile similar to those produced by white light and the cop1 mutations
Approval Evidence
2 sources1 linked approval claimfirst-pass slug microarray-gene-expression-profiling
Microarray gene expression profiling was used to examine the role of pleiotropic COP/DET/FUS loci
Source:
Microarray gene expression profiling was used to examine the role of COP1 in the light control of Arabidopsis genome expression.
Source:
method usagesupports
Microarray gene expression profiling was used to examine the role of pleiotropic COP/DET/FUS loci and other partially photomorphogenic loci during Arabidopsis seedling development and genome expression regulation.
Microarray gene expression profiling was used to examine the role of pleiotropic COP/DET/FUS loci as well as other partially photomorphogenic loci during Arabidopsis seedling development and genome expression regulation.
Source:
Comparisons
Source-backed strengths
The method provides comparative genome-wide expression profiles, allowing overlapping and non-identical regulatory roles of COP/DET/FUS loci to be examined in a single assay framework. In the cited studies, it was sufficiently sensitive to show that overexpression of the dominant-negative COP1 N terminus N282 in darkness produced an expression profile similar to white light and cop1 mutations.
Compared with native green gel system
Microarray gene expression profiling and native green gel system address a similar problem space.
Shared frame: same top-level item type; same primary input modality: light
Strengths here: appears more independently replicated; looks easier to implement in practice.
Compared with open-source microplate reader
Microarray gene expression profiling and open-source microplate reader address a similar problem space.
Shared frame: same top-level item type; same primary input modality: light
Strengths here: appears more independently replicated; looks easier to implement in practice.
Compared with plant transcriptome profiling
Microarray gene expression profiling and plant transcriptome profiling address a similar problem space.
Shared frame: same top-level item type; same primary input modality: light
Strengths here: appears more independently replicated; looks easier to implement in practice.
Ranked Citations
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- 2.