ArticleGenome biology2003
A high performance test of differential gene expression for oligonucleotide arrays.
Article in Genome biology, 2003. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 31 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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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
31 citing papers in PubMed.
- TheProceedings of the National Academy of Sciences of the United States of America · 2021Article
- WRKY23 is a component of the transcriptional network mediating auxin feedback on PIN polarity.PLoS genetics · 2018Article
- MicroRNA miR396 Regulates the Switch between Stem Cells and Transit-Amplifying Cells in Arabidopsis Roots.The Plant cell · 2015Article
- A note on an exon-based strategy to identify differentially expressed genes in RNA-seq experiments.PloS one · 2014Article
- A mechanistic link between STM and CUC1 during Arabidopsis development.Plant physiology · 2011Article
- The FANTASTIC FOUR proteins influence shoot meristem size in Arabidopsis thaliana.BMC plant biology · 2010Article
- Lazarus1, a DUF300 protein, contributes to programmed cell death associated with Arabidopsis acd11 and the hypersensitive response.PloS one · 2010Article
- Control of cell proliferation in Arabidopsis thaliana by microRNA miR396.Development (Cambridge, England) · 2010Article
- Article
- Controlled indole-3-acetaldoxime production through ethanol-induced expression of CYP79B2.Planta · 2009Article
- Probe-level estimation improves the detection of differential splicing in Affymetrix exon array studies.Genome biology · 2009Article
- Determining gene expression on a single pair of microarrays.BMC bioinformatics · 2008Article
- Control of jasmonate biosynthesis and senescence by miR319 targets.PLoS biology · 2008Article
- Reduced V-ATPase activity in the trans-Golgi network causes oxylipin-dependent hypocotyl growth Inhibition in Arabidopsis.The Plant cell · 2008Article
- Empirical Bayes models for multiple probe type microarrays at the probe level.BMC bioinformatics · 2008Article
- Mutation of Prkar1a causes osteoblast neoplasia driven by dysregulation of protein kinase A.Molecular endocrinology (Baltimore, Md.) · 2008Article
- Validation and quality control of protein microarray-based analytical methods.Molecular biotechnology · 2008Review
- Autoimmune response as a mechanism for a Dobzhansky-Muller-type incompatibility syndrome in plants.PLoS biology · 2007Article
- Genome-wide gene expression analysis reveals a critical role for CRYPTOCHROME1 in the response of Arabidopsis to high irradiance.Plant physiology · 2007Article
- Fisher's combined p-value for detecting differentially expressed genes using Affymetrix expression arrays.BMC genomics · 2007Article
Corrections and comments
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Authors and funding
3 authors.
Funding
Abstract
Logit-t employs a logit-transformation for normalization followed by statistical testing at the probe-level. Using four publicly-available datasets, together providing 2,710 known positive incidences of differential expression and 2,913,813 known negative incidences, performance of statistical tests were: Logit-t provided 75% positive-predictive value, compared with 5% for Affymetrix Microarray Suite 5, 6% for dChip perfect match (PM)-only, and 9% for Robust Multi-array Analysis at the p < 0.01 threshold. Logit-t provided 70% sensitivity, Microarray Suite 5 provided 46%, dChip provided 53% and Robust Multi-array Analysis provided 63%.
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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.