ArticleBio-protocol2021
Direct-TRI: High-throughput RNA-extracting Method for All Stages of Zebrafish Development.
Article in Bio-protocol, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 6 papers.
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Who cites it
6 citing papers in PubMed.
- Deficiency of Werner RecQ-type DNA helicase causes premature malnutrition in zebrafish.iScience · 2026Article
- BMP-Dependent Modulation of ROS Generation and Scavenging Controls Interdigital Cell Death.Development, growth & differentiation · 2026Article
- Comparative analysis of teratogen-induced malformations and gene expression across zebrafish strains in early development.Toxicology reports · 2025Article
- tomoseqr: A Bioconductor package for spatial reconstruction and visualization of 3D gene expression patterns based on RNA tomography.PloS one · 2025Article
- Article
- Intracellular and Intercellular Gene Regulatory Network Inference From Time-Course Individual RNA-Seq.Frontiers in bioinformatics · 2021Article
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Authors and funding
4 authors.
Funding
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Abstract
Recent popularization of next-generation sequencing enables conducting easy transcriptome analysis. Nevertheless, substantial RNA isolation work prior to RNA sequencing, as well as the high cost involved, still makes the routine use of large-scale transcriptome analysis difficult. For example, conventional phenol-chloroform RNA extraction cannot be easily applied to hundreds of samples. Therefore, we developed Direct-TRI, a new cost-effective and high throughput RNA-extraction method that uses a commercial guanidine-phenol-based RNA extraction reagent and a 96-well silica column plate. We applied Direct-TRI to zebrafish whole larvae and juvenile samples and obtained comparable RNA qualities by several different homogenization methods such as vortexing, manual homogenizing, and freezing/crushing. Direct-TRI enabled the extraction of 192 RNA samples in an hour with a cost of less than a dollar per sample. Direct-TRI is useful for large-scale transcriptome studies, manipulating hundreds of zebrafish individuals, and may be used with other animal samples.
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Registered trials
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