ArticleBMC bioinformatics2010
Comparison of multiplex meta analysis techniques for understanding the acute rejection of solid organ transplants.
Article in BMC bioinformatics, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers, 2 of them syntheses that pooled it.
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Who cites it
19 citing papers in PubMed, 2 syntheses or guidelines pooled it.
- Genomic Analysis of Kidney Allograft Injury Identifies Hematopoietic Cell Kinase as a Key Driver of Renal Fibrosis.Journal of the American Society of Nephrology : JASN · 2017Pooled it
- Genomic meta-analysis of growth factor and integrin pathways in chronic kidney transplant injury.BMC genomics · 2013Pooled it
- Article
- Early-pregnancy prediction of risk for pre-eclampsia using maternal blood leptin/ceramide ratio: discovery and confirmation.BMJ open · 2021Article
- Comprehensive Volatilome and Metabolome Signatures of Colorectal Cancer in Urine: A Systematic Review and Meta-Analysis.Cancers · 2021Review
- Repression of Septin9 and Septin2 suppresses tumor growth of human glioblastoma cells.Cell death & disease · 2018Article
- Distinguishing potential bacteria-tumor associations from contamination in a secondary data analysis of public cancer genome sequence data.Microbiome · 2017Article
- Novel Therapeutics Identification for Fibrosis in Renal Allograft Using Integrative Informatics Approach.Scientific reports · 2017Article
- Mapping the effects of drugs on the immune system.Nature biotechnology · 2016Article
- Computational Models for Transplant Biomarker Discovery.Frontiers in immunology · 2015Review
- Integrating multiple 'omics' analyses identifies serological protein biomarkers for preeclampsia.BMC medicine · 2013Article
- Stem cell systems informatics for advanced clinical biodiagnostics: tracing molecular signatures from bench to bedside.Croatian medical journal · 2013Review
- Novel factors in the pathogenesis of psoriasis and potential drug candidates are found with systems biology approach.PloS one · 2013Article
- CancerMA: a web-based tool for automatic meta-analysis of public cancer microarray data.Database : the journal of biological databases and curation · 2012Article
- Applications of translational bioinformatics in transplantation.Clinical pharmacology and therapeutics · 2011Article
- Identifying biomarkers as diagnostic tools in kidney transplantation.Expert review of molecular diagnostics · 2011Article
- Advances of genomic science and systems biology in renal transplantation: a review.Seminars in immunopathology · 2011Review
- Selected proceedings of the 2010 Summit on Translational Bioinformatics.BMC bioinformatics · 2010Article
- Multiplex meta-analysis of RNA expression to identify genes with variants associated with immune dysfunction.Journal of the American Medical Informatics Association : JAMIAArticle
Corrections and comments
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Authors and funding
5 authors.
Funding
Abstract
backgroundCombining the results of studies using highly parallelized measurements of gene expression such as microarrays and RNAseq offer unique challenges in meta analysis. Motivated by a need for a deeper understanding of organ transplant rejection, we combine the data from five separate studies to compare acute rejection versus stability after solid organ transplantation, and use this data to examine approaches to multiplex meta analysis.
resultsWe demonstrate that a commonly used parametric effect size estimate approach and a commonly used non-parametric method give very different results in prioritizing genes. The parametric method providing a meta effect estimate was superior at ranking genes based on our gold-standard of identifying immune response genes in the transplant rejection datasets.
conclusionDifferent methods of multiplex analysis can give substantially different results. The method which is best for any given application will likely depend on the particular domain, and it remains for future work to see if any one method is consistently better at identifying important biological signal across gene expression experiments.
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