ArticleNucleic acids research2012
MetaQC: objective quality control and inclusion/exclusion criteria for genomic meta-analysis.
Article in Nucleic acids research, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 57 papers, 6 of them syntheses that pooled it.
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Who cites it
57 citing papers in PubMed, 6 syntheses or guidelines pooled it.
- FOLFOX treatment response prediction in metastatic or recurrent colorectal cancer patients via machine learning algorithms.Cancer medicine · 2020Pooled it
- An insight to HTLV-1-associated myelopathy/tropical spastic paraparesis (HAM/TSP) pathogenesis; evidence from high-throughput data integration and meta-analysis.Retrovirology · 2019Pooled it
- Transcriptomic metaanalyses of autistic brains reveals shared gene expression and biological pathway abnormalities with cancer.Molecular autism · 2019Pooled it
- A Meta-Analysis of Alzheimer's Disease Brain Transcriptomic Data.Journal of Alzheimer's disease : JAD · 2019Pooled it
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- Meta-analysis of gene expression and integrin-associated signaling pathways in papillary renal cell carcinoma subtypes.Oncotarget · 2016Pooled it
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- From population science to the clinic? Limits of epigenetic clocks as personal biomarkers.Epigenomics · 2025Article
- Predicting prostate cancer recurrence: Introducing PCRPS, an advanced online web server.Heliyon · 2024Article
- Integrated Bioinformatic Analysis of Differentially Expressed Genes Associated with Wound Healing.Cell journal · 2023Article
- Holobiont Urbanism: sampling urban beehives reveals cities' metagenomes.Environmental microbiome · 2023Article
- Combination of furosemide, gold, and dopamine as a potential therapy for breast cancer.Functional & integrative genomics · 2023Article
- Drug repositioning prediction for psoriasis using the adverse event reporting database.Frontiers in medicine · 2023Article
- Identification of candidate hub genes correlated with the pathogenesis, diagnosis, and prognosis of prostate cancer by integrated bioinformatics analysis.Translational cancer research · 2022Article
- Article
- Over-expression of IL1R2 in PBMCs of Patients with Coronary Artery Disease and Its Clinical Significance.Anatolian journal of cardiology · 2022Article
- Drug repurposing using meta-analysis of gene expression in Alzheimer's disease.Frontiers in neuroscience · 2022Article
- Screening of characteristic genes in ulcerative colitis by integrating gene expression profiles.BMC gastroenterology · 2021Article
- Identification of Disease-Related Genes That Are Common between Alzheimer's and Cardiovascular Disease Using Blood Genome-Wide Transcriptome Analysis.Biomedicines · 2021Article
- Powerful p-value combination methods to detect incomplete association.Scientific reports · 2021Article
Corrections and comments
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Authors and funding
4 authors.
Funding
Abstract
Genomic meta-analysis to combine relevant and homogeneous studies has been widely applied, but the quality control (QC) and objective inclusion/exclusion criteria have been largely overlooked. Currently, the inclusion/exclusion criteria mostly depend on ad-hoc expert opinion or naïve threshold by sample size or platform. There are pressing needs to develop a systematic QC methodology as the decision of study inclusion greatly impacts the final meta-analysis outcome. In this article, we propose six quantitative quality control measures, covering internal homogeneity of coexpression structure among studies, external consistency of coexpression pattern with pathway database, and accuracy and consistency of differentially expressed gene detection or enriched pathway identification. Each quality control index is defined as the minus log transformed P values from formal hypothesis testing. Principal component analysis biplots and a standardized mean rank are applied to assist visualization and decision. We applied the proposed method to 4 large-scale examples, combining 7 brain cancer, 9 prostate cancer, 8 idiopathic pulmonary fibrosis and 17 major depressive disorder studies, respectively. The identified problematic studies were further scrutinized for potential technical or biological causes of their lower quality to determine their exclusion from meta-analysis. The application and simulation results concluded a systematic quality assessment framework for genomic meta-analysis.
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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.