ArticleScientific data2018
Transcriptome-wide survey of pseudorabies virus using next- and third-generation sequencing platforms.
Article in Scientific data, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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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.
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Who cites it
18 citing papers in PubMed.
- DEMINERS enables clinical metagenomics and comparative transcriptomic analysis by increasing throughput and accuracy of nanopore direct RNA sequencing.Genome biology · 2025Article
- Mapping the temporal transcriptomic signature of a viral pathogen through CAGE and nanopore sequencing.PloS one · 2025Article
- Low thyroxine serves as an upstream regulator of ecophysiological adaptations in Ansell's mole-rats.Frontiers in endocrinology · 2024Article
- Identification of herpesvirus transcripts from genomic regions around the replication origins.Scientific reports · 2023Article
- Review
- Time-Course Transcriptome Profiling of a Poxvirus Using Long-Read Full-Length Assay.Pathogens (Basel, Switzerland) · 2021Article
- Time course profiling of host cell response to herpesvirus infection using nanopore and synthetic long-read transcriptome sequencing.Scientific reports · 2021Article
- Time-course transcriptome analysis of host cell response to poxvirus infection using a dual long-read sequencing approach.BMC research notes · 2021Article
- Combined Short and Long-Read Sequencing Reveals a Complex Transcriptomic Architecture of African Swine Fever Virus.Viruses · 2021Article
- An Integrated Sequencing Approach for Updating the Pseudorabies Virus Transcriptome.Pathogens (Basel, Switzerland) · 2021Article
- Visible Light-Generated Antiviral Effect on Plasmonic Ag-TiOFrontiers in bioengineering and biotechnology · 2021Article
- Dynamic Transcriptome Sequencing of Bovine Alphaherpesvirus Type 1 and Host Cells Carried Out by a Multi-Technique Approach.Frontiers in genetics · 2021Article
- Time-course profiling of bovine alphaherpesvirus 1.1 transcriptome using multiplatform sequencing.Scientific reports · 2020Article
- Long-read assays shed new light on the transcriptome complexity of a viral pathogen.Scientific reports · 2020Article
- Multiple Long-Read Sequencing Survey of Herpes Simplex Virus Dynamic Transcriptome.Frontiers in genetics · 2019Article
- Transcriptome-wide analysis of a baculovirus using nanopore sequencing.Scientific data · 2018Article
- Dynamic transcriptome profiling dataset of vaccinia virus obtained from long-read sequencing techniques.GigaScience · 2018Article
- Lytic Transcriptome Dataset of Varicella Zoster Virus Generated by Long-Read Sequencing.Frontiers in genetics · 2018Article
Corrections and comments
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Authors and funding
6 authors.
Funding
Abstract
Pseudorabies virus (PRV) is an alphaherpesvirus of swine. PRV has a large double-stranded DNA genome and, as the latest investigations have revealed, a very complex transcriptome. Here, we present a large RNA-Seq dataset, derived from both short- and long-read sequencing. The dataset contains 1.3 million 100 bp paired-end reads that were obtained from the Illumina random-primed libraries, as well as 10 million 50 bp single-end reads generated by the Illumina polyA-seq. The Pacific Biosciences RSII non-amplified method yielded 57,021 reads of inserts (ROIs) aligned to the viral genome, the amplified method resulted in 158,396 PRV-specific ROIs, while we obtained 12,555 ROIs using the Sequel platform. The Oxford Nanopore's MinION device generated 44,006 reads using their regular cDNA-sequencing method, whereas 29,832 and 120,394 reads were produced by using the direct RNA-sequencing and the Cap-selection protocols, respectively. The raw reads were aligned to the PRV reference genome (KJ717942.1). Our provided dataset can be used to compare different sequencing approaches, library preparation methods, as well as for validation and testing bioinformatic pipelines.
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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.