ReviewChromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology2008
Spatial quantitative analysis of fluorescently labeled nuclear structures: problems, methods, pitfalls.
Review in Chromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 45 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.
The trial behind it
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
45 citing papers in PubMed, 89 citations in OpenAlex.
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- A New Tool to Decrease Interobserver Variability in Biomarker Annotation in Solid Tumor Tissue for Spatial Transcriptomic Analysis.Current issues in molecular biology · 2025Article
- AneRBC dataset: a benchmark dataset for computer-aided anemia diagnosis using RBC images.Database : the journal of biological databases and curation · 2024Article
- Rrp1 translocase and ubiquitin ligase activities restrict the genome destabilising effects of Rad51 in fission yeast.Nucleic acids research · 2021Article
- Spatial modeling of biological patterns shows multiscale organization of Arabidopsis thaliana heterochromatin.Scientific reports · 2021Article
- FISH Going Meso-Scale: A Microscopic Search for Chromatin Domains.Frontiers in cell and developmental biology · 2021Review
- An annotated fluorescence image dataset for training nuclear segmentation methods.Scientific data · 2020Article
- 3D-FISH Analysis of the Spatial Genome Organization in Skin Cells in Situ.Methods in molecular biology (Clifton, N.J.) · 2020Article
- Rod nuclear architecture determines contrast transmission of the retina and behavioral sensitivity in mice.eLife · 2019Article
- 5C analysis of the Epidermal Differentiation Complex locus reveals distinct chromatin interaction networks between gene-rich and gene-poor TADs in skin epithelial cells.PLoS genetics · 2017Article
- Small chromosomal regions position themselves autonomously according to their chromatin class.Genome research · 2017Article
- Quick and reliable method for retina dissociation and separation of rod photoreceptor perikarya from adult mice.MethodsX · 2015Article
- Bleomycin-induced γH2AX foci map preferentially to replicating domains in CHO9 interphase nuclei.Chromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology · 2014Article
- Observation of the molecular organization of calcium release sites in fast- and slow-twitch skeletal muscle with nanoscale imaging.Journal of the Royal Society, Interface · 2014Article
- The dynamic architectural and epigenetic nuclear landscape: developing the genomic almanac of biology and disease.Journal of cellular physiology · 2014Review
- Targeting and tracing of specific DNA sequences with dTALEs in living cells.Nucleic acids research · 2014Article
- Spatial quantitation of FISH signals in diploid versus aneuploid nuclei.Cytometry. Part A : the journal of the International Society for Analytical Cytology · 2014Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
9 authors at 5 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The vast majority of microscopic data in biology of the cell nucleus is currently collected using fluorescence microscopy, and most of these data are subsequently subjected to quantitative analysis. The analysis process unites a number of steps, from image acquisition to statistics, and at each of these steps decisions must be made that may crucially affect the conclusions of the whole study. This often presents a really serious problem because the researcher is typically a biologist, while the decisions to be taken require expertise in the fields of physics, computer image analysis, and statistics. The researcher has to choose between multiple options for data collection, numerous programs for preprocessing and processing of images, and a number of statistical approaches. Written for biologists, this article discusses some of the typical problems and errors that should be avoided. The article was prepared by a team uniting expertise in biology, microscopy, image analysis, and statistics. It considers the options a researcher has at the stages of data acquisition (choice of the microscope and acquisition settings), preprocessing (filtering, intensity normalization, deconvolution), image processing (radial distribution, clustering, co-localization, shape and orientation of objects), and statistical analysis.
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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.