Bioinformatic Prediction of Bulked Oligonucleotide Probes for FISH Using Chorus2.
Bioinformatics
Chorus2
FISH
Oligonucleotide
Repeats
Shotgun reads
Single-copy
Journal
Methods in molecular biology (Clifton, N.J.)
ISSN: 1940-6029
Titre abrégé: Methods Mol Biol
Pays: United States
ID NLM: 9214969
Informations de publication
Date de publication:
2023
2023
Historique:
medline:
21
6
2023
pubmed:
19
6
2023
entrez:
19
6
2023
Statut:
ppublish
Résumé
Fluorescence in situ hybridization (FISH) provides great conveniences for detection and visualization of specific genomic segments. Oligonucleotide (Oligo)-based FISH further broadened the applications in plant cytogenetics researches. High-specific single-copy oligo probes are essential for successful oligo-FISH experiments. Here, we introduce the bioinformatic pipeline to design genome-scaled single-copy oligos and filter repeat-related probes with Chorus2 software. Robust probes are accessible for both well-assembled genome and species without a reference genome based on this pipeline.
Identifiants
pubmed: 37335491
doi: 10.1007/978-1-0716-3226-0_25
doi:
Substances chimiques
Oligonucleotide Probes
0
Types de publication
Journal Article
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
389-408Informations de copyright
© 2023. The Author(s), under exclusive license to Springer Science+Business Media, LLC, part of Springer Nature.
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