ArticleChromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology2011
Fluorescence in situ hybridization with high-complexity repeat-free oligonucleotide probes generated by massively parallel synthesis.
Article in Chromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 84 papers.
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Who cites it
84 citing papers in PubMed, 152 citations in OpenAlex.
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- A guide to studying 3D genome structure and dynamics in the kidney.Nature reviews. Nephrology · 2025Review
- Efficient and highly amplified imaging of nucleic acid targets in cellular and histopathological samples with pSABER.Nature methods · 2025Article
- Tigerfish designs oligonucleotide-based in situ hybridization probes targeting intervals of highly repetitive DNA at the scale of genomes.Nature communications · 2024Article
- Image-based 3D genomics through chromatin tracing.Nature reviews. Methods primers · 2024Article
- FISH analysis reveals CDKN2A and IFNA14 co-deletion is heterogeneous and is a prominent feature of glioblastoma.Brain tumor pathology · 2024Article
- An integrated platform for high-throughput nanoscopy.Nature biotechnology · 2023Article
- Spatial and temporal organization of the genome: Current state and future aims of the 4D nucleome project.Molecular cell · 2023Review
- Three-dimensional genome structure and function.MedComm · 2023Review
- Oligonucleotide Fluorescence In Situ Hybridization: An Efficient Chromosome Painting Method in Plants.Plants (Basel, Switzerland) · 2023Review
- Chromosome-level assembly of the Rangifer tarandus genome and validation of cervid and bovid evolution insights.BMC genomics · 2023Article
- Elucidating the structure and function of the nucleus-The NIH Common Fund 4D Nucleome program.Molecular cell · 2023Review
- Simultaneous mapping of 3D structure and nascent RNAs argues against nuclear compartments that preclude transcription.Cell reports · 2022Article
- RASER-FISH: non-denaturing fluorescence in situ hybridization for preservation of three-dimensional interphase chromatin structure.Nature protocols · 2022Review
- Mitotic Antipairing of Homologous Chromosomes.Results and problems in cell differentiation · 2022Article
- Full-length LTR retroelements in Capsicum annuum revealed a few species-specific family bursts with insertional preferences.Chromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology · 2021Article
- The 3D Genome: From Structure to Function.International journal of molecular sciences · 2021Review
- Validation and tuning of in situ transcriptomics image processing workflows with crowdsourced annotations.PLoS computational biology · 2021Article
24 more citing papers are in PubMed but not listed here.
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Authors and funding
5 authors at 3 institutions in 3 countries.
Funding
Abstract
The ability to visualize specific DNA sequences, on chromosomes and in nuclei, by fluorescence in situ hybridization (FISH) is fundamental to many aspects of genetics, genomics and cell biology. Probe selection is currently limited by the availability of DNA clones or the appropriate pool of DNA sequences for PCR amplification. Here, we show that liquid-phase probe pools from sequence capture technology can be adapted to generate fluorescently labelled pools of oligonucleotides that are very effective as repeat-free FISH probes in mammalian cells. As well as detection of small (15 kb) and larger (100 kb) specific loci in both cultured cells and tissue sections, we show that complex oligonucleotide pools can be used as probes to visualize features of nuclear organization. Using this approach, we dramatically reveal the disposition of exons around the outside of a chromosome territory core and away from the nuclear periphery.
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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.