ReviewBiomolecular detection and quantification2014
A survey of tools for the analysis of quantitative PCR (qPCR) data.
Review in Biomolecular detection and quantification, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 86 papers, 1 of them a synthesis that pooled it.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
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.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
86 citing papers in PubMed, 1 synthesis or guideline pooled it.
- With Reference to Reference Genes: A Systematic Review of Endogenous Controls in Gene Expression Studies.PloS one · 2015Pooled it
- Iron Supplementation with Ferrous Sulfate or Ferrous Bisglycinate for 12 Weeks Does Not Influence Group B Streptococcus Colonization in Cambodian Women: A Secondary Analysis of a Randomized Controlled Trial.The Journal of nutrition · 2025Trial
- Differential gene expression drives cell-cycle-dependent transition from monopolar to bipolar growth in Schizosaccharomyces pombe.G3 (Bethesda, Md.) · 2026Article
- A Novel CsYABBY3-CsAS1 Feedback Loop Coordinates Trichome Differentiation and Cannabinoid Biosynthesis in Cannabis sativa L.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Article
- Evaluation of Differentially Expressed Candidate Genes in Benzo[a]pyrene Degradation by Burkholderia vietnamiensis G4.Molecular biotechnology · 2025Article
- RQdeltaCT: an open-source R package for relative quantification of gene expression using delta Ct methods.Scientific reports · 2025Article
- Development of a Machine Learning Model for Aspyre Lung Blood: A New Assay for Rapid Detection of Actionable Variants From Plasma in Patients With Non-Small Cell Lung Cancer.JCO clinical cancer informatics · 2025Article
- Role of artificial intelligence in advancing immunology.Immunologic research · 2025Review
- Multi-omics analysis of the mechanism of alfalfa and wheat-induced rumen flatulence in Xizang sheep.Microbiology spectrum · 2025Article
- Rapid and accurate testing for urinary tract infection: new clothes for the emperor.Clinical microbiology reviews · 2025Review
- Transcriptome Complexity Disentangled: A Regulatory Molecules Approach.International journal of molecular sciences · 2025Article
- The quest for environmental analytical microbiology: absolute quantitative microbiome using cellular internal standards.Microbiome · 2025Review
- Article
- Current rates ofFrontiers in cellular and infection microbiology · 2025Article
- Article
- Comparing Gene Expression Between Planktonic and Biofilm Cells of Foodborne Bacterial Pathogens Through RT-qPCR.Methods in molecular biology (Clifton, N.J.) · 2025Article
- Challenges and opportunities in processing NanoString nCounter data.Computational and structural biotechnology journal · 2024Review
- Detection ofMicroorganisms · 2024Article
- ExonSurfer: a web-tool to design primers at exon-exon junctions.BMC genomics · 2024Article
- Embryonic methionine triggers post-natal developmental programming in Japanese quail.Journal of comparative physiology. B, Biochemical, systemic, and environmental physiology · 2024Article
26 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Real-time quantitative polymerase-chain-reaction (qPCR) is a standard technique in most laboratories used for various applications in basic research. Analysis of qPCR data is a crucial part of the entire experiment, which has led to the development of a plethora of methods. The released tools either cover specific parts of the workflow or provide complete analysis solutions. Here, we surveyed 27 open-access software packages and tools for the analysis of qPCR data. The survey includes 8 Microsoft Windows, 5 web-based, 9 R-based and 5 tools from other platforms. Reviewed packages and tools support the analysis of different qPCR applications, such as RNA quantification, DNA methylation, genotyping, identification of copy number variations, and digital PCR. We report an overview of the functionality, features and specific requirements of the individual software tools, such as data exchange formats, availability of a graphical user interface, included procedures for graphical data presentation, and offered statistical methods. In addition, we provide an overview about quantification strategies, and report various applications of qPCR. Our comprehensive survey showed that most tools use their own file format and only a fraction of the currently existing tools support the standardized data exchange format RDML. To allow a more streamlined and comparable analysis of qPCR data, more vendors and tools need to adapt the standardized format to encourage the exchange of data between instrument software, analysis tools, and researchers.
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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.