ArticleMethods in molecular biology (Clifton, N.J.)2022
A High-Throughput 3'-Tag RNA Sequencing for Large-Scale Time-Series Transcriptome Studies.
Article in Methods in molecular biology (Clifton, N.J.), 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.
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12 citing papers in PubMed, 12 citations in OpenAlex.
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- Gene Expression Divergence Between Locally Adapted Inland Annual and Coastal Perennial Ecotypes of Mimulus guttatus Across Developmental Stages.Molecular ecology · 2025Article
- Transcriptomic profiling of hypothalamic development in female rats.Molecular and cellular endocrinology · 2025Article
- Transcriptomic Changes Across the HPG Axis Following Prenatal Exposure to the EDC Mixture NeuroMix.Endocrinology · 2025Article
- Transcriptomic analysis of effects of developmental PCB exposure in the hypothalamus of female rats.Molecular and cellular endocrinology · 2025Article
- A Pilot Trial of Nicotinamide Riboside and Coenzyme Q10 on Inflammation and Oxidative Stress in CKD.Clinical journal of the American Society of Nephrology : CJASN · 2025Article
- Ancient Secretory Pathways Contributed to the Evolutionary Origin of an Ecologically Impactful Bioluminescence System.Molecular biology and evolution · 2024Article
- Randomized Crossover Clinical Trial of Nicotinamide Riboside and Coenzyme Q10 on Metabolic Health and Mitochondrial Bioenergetics in CKD.medRxiv : the preprint server for health sciences · 2024Article
- Evolutionary Analyses of Gene Expression Divergence in Panicum hallii: Exploring Constitutive and Plastic Responses Using Reciprocal Transplants.Molecular biology and evolution · 2023Article
- Time-series analysis of transcriptomic changes due to permethrin exposure reveals that Aedes aegypti undergoes detoxification metabolism over 24 h.Scientific reports · 2023Article
- Validation of a high-confidence regulatory network for gene-to-NUE phenotype in field-grown rice.Frontiers in plant science · 2022Article
Corrections and comments
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Authors and funding
2 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
RNA sequencing (RNA-seq) has proven invaluable for exploring gene expression variation under complex environmental cues. However, the cost of standard RNA-seq (e.g., Illumina TruSeq or NEBNext) remains a barrier for high-throughput applications. 3'-Tag RNA-seq (3'-TagSeq) is a cost-effective solution that permits large-scale experiments. Unlike standard RNA-seq, which generates sequencing libraries for full-length mRNAs, 3'-TagSeq only generates a single fragment from the 3' end of each transcript (a tag read) and quantifies gene expression by tag abundance. Consequently, 3'-TagSeq requires lower sequencing depth (~5 million reads per sample) than standard RNA-seq (~30 million reads per sample), which reduces costs and allows increased technical and biological replication in experiments. Because 3'-TagSeq is considerably cheaper than standard RNA-seq while exhibiting comparable accuracy and reproducibility, researchers focusing on gene expression levels in large or extensive time-series experiments might find 3'-TagSeq to be superior to standard RNA-seq. In this chapter, we describe 3'-TagSeq sequencing library preparation and provide example bioinformatics and statistical analyses of gene expression data.
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