SynthesisPloS one2011
Identifying consensus disease pathways in Parkinson's disease using an integrative systems biology approach.
Synthesis in PloS one, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 45 papers, 5 of them syntheses that pooled it.
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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
45 citing papers in PubMed, 5 syntheses or guidelines pooled it.
- Proteins and Transcriptional Dysregulation of the Brain Extracellular Matrix in Parkinson's Disease: A Systematic Review.International journal of molecular sciences · 2023Pooled it
- A Meta-Analysis of Alzheimer's Disease Brain Transcriptomic Data.Journal of Alzheimer's disease : JAD · 2019Pooled it
- Concordance analysis of microarray studies identifies representative gene expression changes in Parkinson's disease: a comparison of 33 human and animal studies.BMC neurology · 2017Pooled it
- Pathway analysis of genome-wide association studies for Parkinson's disease.Molecular biology reports · 2013Pooled it
- Gene expression profiles in Parkinson disease prefrontal cortex implicate FOXO1 and genes under its transcriptional regulation.PLoS genetics · 2012Pooled it
- Rare variants in PLXNA4 and Parkinson's disease.PloS one · 2013Trial
- A multi-region single nucleus transcriptomic atlas of Parkinson's disease.Scientific data · 2024Article
- A Systematic Review of Extracellular Matrix-Related Alterations in Parkinson's Disease.Brain sciences · 2024Review
- The CHD Protein Kismet Restricts the Synaptic Localization of Cell Adhesion Molecules at theInternational journal of molecular sciences · 2024Article
- Itga5-PTEN signaling regulates striatal synaptic strength and motor coordination in Parkinson's disease.International journal of biological sciences · 2024Article
- Biomedical knowledge graph learning for drug repurposing by extending guilt-by-association to multiple layers.Nature communications · 2023Article
- RNA-seq analysis of gene expression profiles in posttraumatic stress disorder, Parkinson's disease and schizophrenia identifies roles for common and distinct biological pathways.Discover mental health · 2022Article
- Loss of p21-activated kinase Mbt/PAK4 causes Parkinson-like phenotypes in Drosophila.Disease models & mechanisms · 2021Article
- Non-Coding RNAs in the Brain-Heart Axis: The Case of Parkinson's Disease.International journal of molecular sciences · 2020Review
- Common gene expression signatures in Parkinson's disease are driven by changes in cell composition.Acta neuropathologica communications · 2020Article
- Cerebrospinal fluid proteomics implicates the granin family in Parkinson's disease.Scientific reports · 2020Article
- Chemically Induced Models of Parkinson's Disease: History and Perspectives for the Involvement of Ferroptosis.Frontiers in cellular neuroscience · 2020Article
- Advances in Astrocyte Computational Models: From Metabolic Reconstructions to Multi-omic Approaches.Frontiers in neuroinformatics · 2020Article
- Association Between Parkinson's Disease and Melanoma: Putting the Pieces Together.Frontiers in aging neuroscience · 2020Article
- Systems pharmacology based approach to investigate the in-vivo therapeutic efficacy of Albizia lebbeck (L.) in experimental model of Parkinson's disease.BMC complementary and alternative medicine · 2019Article
Corrections and comments
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Authors and funding
13 authors.
Funding
Abstract
Parkinson's disease (PD) has had six genome-wide association studies (GWAS) conducted as well as several gene expression studies. However, only variants in MAPT and SNCA have been consistently replicated. To improve the utility of these approaches, we applied pathway analyses integrating both GWAS and gene expression. The top 5000 SNPs (p<0.01) from a joint analysis of three existing PD GWAS were identified and each assigned to a gene. For gene expression, rather than the traditional comparison of one anatomical region between sets of patients and controls, we identified differentially expressed genes between adjacent Braak regions in each individual and adjusted using average control expression profiles. Over-represented pathways were calculated using a hyper-geometric statistical comparison. An integrated, systems meta-analysis of the over-represented pathways combined the expression and GWAS results using a Fisher's combined probability test. Four of the top seven pathways from each approach were identical. The top three pathways in the meta-analysis, with their corrected p-values, were axonal guidance (p = 2.8E-07), focal adhesion (p = 7.7E-06) and calcium signaling (p = 2.9E-05). These results support that a systems biology (pathway) approach will provide additional insight into the genetic etiology of PD and that these pathways have both biological and statistical support to be important in PD.
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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.