Semi-automated 3D Leaf Reconstruction and Analysis of Trichome Patterning from Light Microscopic Images
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Summary
This paper focuses on the most challenging young leaf stages that require the analysis in three dimensions, as the leaves are typically not flat, and shows that 3D modeling removes biases of simpler 2D models and that novel trichome patterning features increase the sensitivity for inter-accession comparisons.
- Type
- article
- Published
- 2013-04-01
- Cited by
- 25
- References
- 27
- Access
- Open access
- OpenAlex
- https://openalex.org/W2012452912
- Semantic Scholar
- https://api.semanticscholar.org/CorpusID:16134442
Keywords
Trichome, Biology, Biological system, Botany, Computational biology
References
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- New insights into the mechanism of development of Arabidopsis root hairs and trichomes.
- Morphological Image Analysis: Principles and Applications
- Nuclear trapping by GL3 controls intercellular transport and redistribution of TTG1 protein in Arabidopsis
- Complex wavelets for extended depth‐of‐field: A new method for the fusion of multichannel microscopy images
- On the extended depth of focus algorithms for bright field microscopy.
- Quantitative analysis of heterogeneous spatial distribution of Arabidopsis leaf trichomes using micro X-ray computed tomography.
- Extended depth of focus in optical microscopy: Assessment of existing methods and a new proposal
- Exit from proliferation during leaf development in Arabidopsis thaliana: a not-so-gradual process.
- TRIPTYCHON and CAPRICE mediate lateral inhibition during trichome and root hair patterning in Arabidopsis
- One, two, three...models for trichome patterning in Arabidopsis?
- Fast extraction of minimal paths in 3D images and applications to virtual endoscopy
- On the accuracy of the Sobel edge detector
- Elastic Principal Graphs and Manifolds and their Practical Applications
- Genetic dissection of trichome cell development in Arabidopsis.
- Image analysis of Arabidopsis trichome patterning in 4D confocal datasets
- Model-Based 2.5-D Deconvolution for Extended Depth of Field in Brightfield Microscopy
- A Threshold Selection Method from Gray-Level Histograms
- Visualizing Plant Development and Gene Expression in Three Dimensions Using Optical Projection Tomography[W]
Cited by
- Overcoming Complexity of Biological Systems: from Data Analysis to Mathematical Modeling
- ViDaExpert: user-friendly tool for nonlinear visualization and analysis of multidimensional vectorial data
- Rapid Identification of a Natural Knockout Allele of ARMADILLO REPEAT-CONTAINING KINESIN1 That Causes Root Hair Branching by Mapping-By-Sequencing1[C][W]
- Plant cell shape: modulators and measurements
- Themes and variations in cell type patterning in the plant epidermis.
- Non-Cell-Autonomous Regulation of Root Hair Patterning Genes by WRKY75 in Arabidopsis1[W]
- Analysis of TTG1 function in Arabis alpina
- Fast and user-friendly non-linear principal manifold learning by method of elastic maps
- Quantifying morphogenesis in plants in 4D.
- Genetic elaborations of glandular and non-glandular trichomes in Mentha arvensis genotypes: assessing genotypic and phenotypic correlations along with gene expressions
- Macro optical projection tomography for large scale 3D imaging of plant structures and gene activity
- Robust and scalable learning of data manifolds with complex topologies via ElPiGraph
- MowJoe: a method for automated-high throughput dissected leaf phenotyping
- Robust and Scalable Learning of Complex Intrinsic Dataset Geometry via ElPiGraph
- Incorporating the geometry of dispersal and migration to understand spatial patterns of species distributions
- Taxonomy through the lens of neutral helium microscopy
- TRANSPARENT TESTA GLABRA 1 participates in flowering time regulation in Arabidopsis thaliana
- Identification of the Trichome Patterning Core Network Using Data from Weak ttg1 Alleles to Constrain the Model Space.
- Initial embedding of TRANSPARENT TESTA GLABRA 1 in the Arabidopsis thaliana flowering time regulatory pathway
- Characterization of Trichome Phenotypes to Assess Maturation and Flower Development in Cannabis Sativa L. (Cannabis) by Automatic Trichome Gland Analysis
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