ArticleComparative and functional genomics2012
Comparison between Normalised and Unnormalised 454-Sequencing Libraries for Small-Scale RNA-Seq Studies.
Article in Comparative and functional genomics, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 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.
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
11 citing papers in PubMed, 20 citations in OpenAlex.
- De novo transcriptome assembly and annotation for gene discovery in avocado, macadamia and mango.Scientific data · 2020Article
- The Impact of cDNA Normalization on Long-Read Sequencing of a Complex Transcriptome.Frontiers in genetics · 2019Article
- Transcriptomes analysis of Aeromonas molluscorum Av27 cells exposed to tributyltin (TBT): Unravelling the effects from the molecular level to the organism.Marine environmental research · 2015Article
- Transcriptome Analysis in Domesticated Species: Challenges and Strategies.Bioinformatics and biology insights · 2015Review
- Transcriptome sequencing of two wild barley (Hordeum spontaneum L.) ecotypes differentially adapted to drought stress reveals ecotype-specific transcripts.BMC genomics · 2014Article
- Highly variable recombinational landscape modulates efficacy of natural selection in birds.Genome biology and evolution · 2014Article
- Transcriptomic analysis of Petunia hybrida in response to salt stress using high throughput RNA sequencing.PloS one · 2014Article
- Transcriptome of Atlantic cod (Gadus morhua L.) early embryos from farmed and wild broodstocks.Marine biotechnology (New York, N.Y.) · 2013Article
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Corrections and comments
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Authors and funding
5 authors at 2 institutions in 2 countries.
Funding
Abstract
Next-generation sequencing of transcriptomes (RNA-Seq) is being used increasingly in studies of nonmodel organisms. Here, we evaluate the effectiveness of normalising cDNA libraries prior to sequencing in a small-scale study of the zebra finch. We find that assemblies produced from normalised libraries had a larger number of contigs but used fewer reads compared to unnormalised libraries. Considerably more genes were also detected using the contigs produced from normalised cDNA, and microsatellite discovery was up to 73% more efficient in these. There was a positive correlation between the detected expression level of genes in normalised and unnormalised cDNA, and there was no difference in the number of genes identified as being differentially expressed between blood and spleen for the normalised and unnormalised libraries. We conclude that normalised cDNA libraries are preferable for many applications of RNA-Seq and that these can also be used in quantitative gene expression studies.
Identifiers
What OpenQuestion holds
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.