ArticlePlant biotechnology journal2021
Chorus2: design of genome-scale oligonucleotide-based probes for fluorescence in situ hybridization.
Article in Plant biotechnology journal, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 42 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
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.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
42 citing papers in PubMed.
- An integrated molecular cytogenetic platform enables precise characterization of Thinopyrum ponticum chromatin and its structural modifications in wheat background.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2026Article
- Chromosome painting in plants: history and future perspectives.Chromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology · 2026Review
- Review
- Comparative Oligo-FISH Mapping Illuminates Chromosomal Evolution Among Rutaceae Species Diverged Over 50 Million Years.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Article
- Article
- Article
- Fine mapping and candidate gene identification of the stripe rust resistance gene Yr83 using mutated wheat-rye translocation lines.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2026Article
- Chromosome-specific painting provides insights into the karyotype evolutionary direction and trajectory in the genusHorticulture research · 2026Article
- Recreating viable YYNature communications · 2026Article
- Cytogenomic and phylogenomic evidence for new infrageneric relationships in Macroptilium (Benth.) beans.Annals of botany · 2026Article
- Graph pan-genome illuminates evolutionary trajectories and agronomic trait architecture in allotetraploid cotton.Nature genetics · 2026Article
- Chromosomal variations and evolution in Arachis species revealed by single-copy FISH karyotyping.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2025Article
- Kinetochore mutations and histone phosphorylation pattern changes accompany holo- and macro-monocentromere evolution.Nature communications · 2025Article
- Whole Genome Development of Specific Alien-Chromosome Oligo (SAO) Markers for Wild Peanut Chromosomes Based on Chorus2.Plants (Basel, Switzerland) · 2025Article
- Chromosome-specific oligo-painting provides insights into the cytogenetic basis of karyotypic stasis in paleo-allotetraploidHorticulture research · 2025Article
- OligoY pipeline for full Y chromosome painting.Briefings in bioinformatics · 2025Article
- Rapid formation of stable autotetraploid rice from genome-doubled F1 hybrids of japonica-indica subspecies.Nature plants · 2025Article
- Meiotic crossovers revealed by differential visualization of homologous chromosomes using enhanced haplotype oligo-painting in cucumber.Plant biotechnology journal · 2025Article
- A cost-effective oligo-based barcode system for chromosome identification in longan and lychee.Horticulture research · 2025Article
- Oligo-FISH barcode chromosome identification system provides novel insights into the natural chromosome aberrations propensity in the autotetraploid cultivated alfalfa.Horticulture research · 2025Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Oligonucleotide (oligo)-fluorescence in situ hybridization (FISH) has rapidly becoming the new generation of FISH technique in plant molecular cytogenetics research. Genome-scale identification of single-copy oligos is the foundation of successful oligo-FISH experiments. Here, we introduce Chorus2, a software that is developed specifically for oligo selection. We demonstrate that Chorus2 is highly effective to remove all repetitive elements in selection of single-copy oligos, which is critical for the development of successful FISH probes. Chorus2 is more effective than Chorus, the original version of the pipeline, and OligoMiner for repeat removal. Chorus2 allows to select oligos that are conserved among related species, which extends the usage of oligo-FISH probes among phylogenetically related plant species. We also implemented a new function in Chorus2 that allows development of FISH probes from plant species without an assembled genome. We anticipate that Chorus2 can be used in plants as well as in mammalian and other non-plant species. Chorus2 will broadly facilitate the design of FISH probes for various types of application in molecular cytogenetics research.
Indexed as
Identifiers
What OpenQuestion holds
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.