ArticleMethods (San Diego, Calif.)2010
Automated pipeline for atlas-based annotation of gene expression patterns: application to postnatal day 7 mouse brain.
Article in Methods (San Diego, Calif.), 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
11 citing papers in PubMed.
- Spatial distribution of marker gene activity in the mouse lung during alveolarization.Data in brief · 2019Article
- Geometry processing of conventionally produced mouse brain slice images.Journal of neuroscience methods · 2018Article
- Hemodynamics Modify Collagen Deposition in the Early Embryonic Chicken Heart Outflow Tract.Journal of cardiovascular development and disease · 2017Article
- A chicken embryo cardiac outflow tract atlas for registering changes due to abnormal blood flow.Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference · 2016Article
- A digital atlas of ion channel expression patterns in the two-week-old rat brain.Neuroinformatics · 2015Article
- Similarity-based appearance-prior for fitting a subdivision mesh in gene expression images.Medical image computing and computer-assisted intervention : MICCAI ... International Conference on Medical Image Computing and Computer-Assisted Intervention · 2012Article
- Markov Random Field-based Fitting of a Subdivision-based Geometric Atlas.Proceedings. IEEE International Conference on Computer Vision · 2011Article
- Landmark/Image-based Deformable Registration of Gene Expression Data.Proceedings. IEEE Computer Society Conference on Computer Vision and Pattern Recognition · 2011Article
- Ct3d: tracking microglia motility in 3D using a novel cosegmentation approach.Bioinformatics (Oxford, England) · 2011Article
- Lossless 3-D reconstruction and registration of semi-quantitative gene expression data in the mouse brain.Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference · 2011Article
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Authors and funding
8 authors.
Funding
Abstract
Massive amounts of image data have been collected and continue to be generated for representing cellular gene expression throughout the mouse brain. Critical to exploiting this key effort of the post-genomic era is the ability to place these data into a common spatial reference that enables rapid interactive queries, analysis, data sharing, and visualization. In this paper, we present a set of automated protocols for generating and annotating gene expression patterns suitable for the establishment of a database. The steps include imaging tissue slices, detecting cellular gene expression levels, spatial registration with an atlas, and textual annotation. Using high-throughput in situ hybridization to generate serial sets of tissues displaying gene expression, this process was applied toward the establishment of a database representing over 200 genes in the postnatal day 7 mouse brain. These data using this protocol are now well-suited for interactive comparisons, analysis, queries, and visualization.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.