ArticlePhysiological genomics2014
Integrative RNA-seq and microarray data analysis reveals GC content and gene length biases in the psoriasis transcriptome.
Article in Physiological genomics, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 papers, 1 of them a synthesis that pooled it.
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
24 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Cross-Disease Transcriptomics: Unique IL-17A Signaling in Psoriasis Lesions and an Autoimmune PBMC Signature.The Journal of investigative dermatology · 2016Pooled it
- Meta-Analysis of Gene Expression in Bulk-Processed Post-Mortem Spinal Cord from ALS Patients and Normal Controls.NeuroSci · 2025Article
- Transcriptomic signatures of prostate cancer progression: a comprehensive RNA-seq study.3 Biotech · 2025Article
- Aquaporins in Skin.Advances in experimental medicine and biology · 2023Article
- Transcriptomic Profiling of Peripheral Edge of Lesions to Elucidate the Pathogenesis of Psoriasis Vulgaris.International journal of molecular sciences · 2022Article
- Know your enemy - transcriptome of myxozoanParasitology · 2021Article
- Human Aquaporins: Functional Diversity and Potential Roles in Infectious and Non-infectious Diseases.Frontiers in genetics · 2021Review
- Transcriptomic Signature of Human Embryonic Thyroid Reveals Transition From Differentiation to Functional Maturation.Frontiers in cell and developmental biology · 2021Article
- Aquaporin-3 in the epidermis: more than skin deep.American journal of physiology. Cell physiology · 2020Review
- Keratinocytes Derived from Patient-Specific Induced Pluripotent Stem Cells Recapitulate the Genetic Signature of Psoriasis Disease.Stem cells and development · 2020Article
- Review-Current Concepts in Inflammatory Skin Diseases Evolved by Transcriptome Analysis: In-Depth Analysis of Atopic Dermatitis and Psoriasis.International journal of molecular sciences · 2020Review
- Codon Usage Differences among Genes Expressed in Different Tissues of Drosophila melanogaster.Genome biology and evolution · 2019Article
- On the length, weight and GC content of the human genome.BMC research notes · 2019Article
- Article
- Rapid detection of exosomal microRNA biomarkers by electrokinetic concentration for liquid biopsy on chip.Biomicrofluidics · 2018Article
- IFN-γ and TNF-α synergism may provide a link between psoriasis and inflammatory atherogenesis.Scientific reports · 2017Article
- RNA sequencing and transcriptome arrays analyses show opposing results for alternative splicing in patient derived samples.BMC genomics · 2017Article
- Induction of Alternative Proinflammatory Cytokines Accounts for Sustained Psoriasiform Skin Inflammation in IL-17C+IL-6KO Mice.The Journal of investigative dermatology · 2017Article
- Network analysis of psoriasis reveals biological pathways and roles for coding and long non-coding RNAs.BMC genomics · 2016Article
- Future microfluidic and nanofluidic modular platforms for nucleic acid liquid biopsy in precision medicine.Biomicrofluidics · 2016Review
Corrections and comments
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Authors and funding
6 authors.
Funding
Abstract
Gene expression profiling of psoriasis has driven research advances and may soon provide the basis for clinical applications. For expression profiling studies, RNA-seq is now a competitive technology, but RNA-seq results may differ from those obtained by microarray. We therefore compared findings obtained by RNA-seq with those from eight microarray studies of psoriasis. RNA-seq and microarray datasets identified similar numbers of differentially expressed genes (DEGs), with certain genes uniquely identified by each technology. Correspondence between platforms and the balance of increased to decreased DEGs was influenced by mRNA abundance, GC content, and gene length. Weakly expressed genes, genes with low GC content, and long genes were all biased toward decreased expression in psoriasis lesions. The strength of these trends differed among array datasets, most likely due to variations in RNA quality. Gene length bias was by far the strongest trend and was evident in all datasets regardless of the expression profiling technology. The effect was due to differences between lesional and uninvolved skin with respect to the genome-wide correlation between gene length and gene expression, which was consistently more negative in psoriasis lesions. These findings demonstrate the complementary nature of RNA-seq and microarray technology and show that integrative analysis of both data types can provide a richer view of the transcriptome than strict reliance on a single method alone. Our results also highlight factors affecting correspondence between technologies, and we have established that gene length is a major determinant of differential expression in psoriasis lesions.
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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 Socratic graph.