ArticleNucleic acids research2011
Whole-transcriptome RNAseq analysis from minute amount of total RNA.
Article in Nucleic acids research, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 87 papers.
What it found
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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.
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Who cites it
87 citing papers in PubMed, 146 citations in OpenAlex.
- HyDRA: A pipeline for integrating long- and short-read RNAseq data for custom transcriptome assembly.iScience · 2026Article
- Diversity of U1 Small Nuclear RNAs and Diagnostic Methods for Their Mutations.Cancer science · 2025Article
- EFFICIENT RIBOSOMAL RNA DEPLETION FROMWellcome open research · 2025Article
- Blocking of amino acid transporter OsAAP7 promoted tillering and yield by determining basic and neutral amino acids accumulation in rice.BMC plant biology · 2024Article
- De novo assembly of Iron-Heart Cunninghamia lanceolata transcriptome and EST-SSR marker development for genetic diversity analysis.PloS one · 2023Article
- RNA-seq profiling reveals different pathways between remodeled vessels and myocardium in hypertrophic cardiomyopathy.Microcirculation (New York, N.Y. : 1994) · 2022Article
- Article
- Systematic comparative analysis of strand-specific RNA-seq library preparation methods for low input samples.Scientific reports · 2022Article
- Culture-Independent Discovery of Viroids by Deep Sequencing and Computational Algorithms.Methods in molecular biology (Clifton, N.J.) · 2022Article
- Transcription Factors Active in the Anterior Blastema ofBiomolecules · 2021Article
- Bias in RNA-seq Library Preparation: Current Challenges and Solutions.BioMed research international · 2021Review
- Cancer systems immunology.eLife · 2020Review
- A reverse transcriptase-mediated ribosomal RNA depletion (RTR2D) strategy for the cost-effective construction of RNA sequencing libraries.Journal of advanced research · 2020Article
- Article
- Return to the Sea, Get Huge, Beat Cancer: An Analysis of Cetacean Genomes Including an Assembly for the Humpback Whale (Megaptera novaeangliae).Molecular biology and evolution · 2019Article
- The haustorial transcriptome of the cucurbit pathogen Podosphaera xanthii reveals new insights into the biotrophy and pathogenesis of powdery mildew fungi.BMC genomics · 2019Article
- Evaluation of ultra-low input RNA sequencing for the study of human T cell transcriptome.Scientific reports · 2019Article
- Transcriptome analysis of responses to bluetongue virus infection in Aedes albopictus cells.BMC microbiology · 2019Article
- Systematic analysis of TruSeq, SMARTer and SMARTer Ultra-Low RNA-seq kits for standard, low and ultra-low quantity samples.Scientific reports · 2019Article
- Deletion of the KH1 Domain of Fmr1 Leads to Transcriptional Alterations and Attentional Deficits in Rats.Cerebral cortex (New York, N.Y. : 1991) · 2019Article
27 more citing papers are in PubMed but not listed here.
Corrections and comments
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Authors and funding
4 authors at 2 institutions in 1 country.
Funding
Abstract
RNA sequencing approaches to transcriptome analysis require a large amount of input total RNA to yield sufficient mRNA using either poly-A selection or depletion of rRNA. This feature makes it difficult to miniaturize transcriptome analysis for greater efficiency. To address this challenge, we devised and validated a simple procedure for the preparation of whole-transcriptome cDNA libraries from a minute amount (500 pg) of total RNA. We compared a single-sample library prepared by this Ovation RNA-Seq system with two available methods of mRNA enrichment (TruSeq poly-A enrichment and RiboMinus rRNA depletion). Using the Ovation preparation method for a set of eight mouse tissue samples, the RNA sequencing data obtained from two different next-generation sequencing platforms (SOLiD and Illumina Genome Analyzer IIx) yielded negligible rRNA reads (<3.5%) while retaining transcriptome sequencing fidelity. We further validated the Ovation amplification technique by examining the resulting library complexity, reproducibility, evenness of transcript coverage, 5' and 3' bias and platform-specific biases. Notably, in this side-by-side comparison, SOLiD sequencing chemistry is biased toward higher GC content of transcriptome and Illumina Genome analyzer IIx is biased away from neutral to lower GC content of the transcriptomics regions.
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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.