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omics data based complex trait analysis osca tool (Omics Data Automation)

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Omics Data Automation omics data based complex trait analysis osca tool
Omics Data Based Complex Trait Analysis Osca Tool, supplied by Omics Data Automation, used in various techniques. Bioz Stars score: 86/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/data+analysis+tools/analysis+based+complex+data+omics+trait/pmc13039452-60-3-3
Average 86 stars, based on 1 article reviews

omics data based complex trait analysis osca tool - by Bioz Stars, 2026-10

86/100 stars

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Article Title: Genetic Determinants of Thiazide-Induced Hyperuricemia, Hyperglycemia, and Urinary Electrolyte Disturbances - A Genome-Wide Evaluation of the UK Biobank.
Article Snippet: Genomewide vQTL analysis was conducted using the OmicS- data- based Complex trait Analysis (OSCA; https:// yangl ab. westl ake. edu. cn/ softw are/ osca/# vQTLA nalysis) software tool (−- vqtl- mtd option 2 (“Levene’s test with median”), no genetic mode of inheritance assumed),32 whereas genomewide QTL analysis (commonly referred to as a genomewide association study (GWAS)) was conducted using PLINK2 (−- glm option, additive genetic mode of inheritance assumed).33 The genomewide significance threshold was set to 2.5 × 10−9 which represents a Bonferroni correction (4 investigated outcomes) for a stringent genomewide significance threshold of 1 × 10−8.19,34,35 After performing genomewide vQTL/QTL analysis, the number of independent significant SNPs was determined using linkage disequilibrium (LD) clumping for each outcome and this was implemented in PLINK2 using parameters similar to Wang et al.’s (- - clump- p1 2.5 × 10−9, - - clump- p2 2.5 × 10−9, - - clump- r2 0.01, and - - clump- kb 5,000).19 Results were graphically presented using Manhattan and Quantile- Quantile plots (qqman R package36).

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Article Title: iODA: An integrated tool for analysis of cancer pathway consistency from heterogeneous multi-omics data.
Article Snippet: .. Tools iODA 3Omics iPEAP IMPaLA Single-level omics data analysis ● ○ ○ ○ Cross-level omics data analysis ● ○ ○ ○ Selection of statistical methods ● ○ ○ ○ Omics data integrated analysis ● ● ● ● Functions Pathway enrichment analysis ● ● ● ● Correlation networking ○ ● ○ ○ Coexpression ○ ● ○ ○ Phenotyping ○ ● ○ ○ GO (Gene Ontology) enrichment ○ ● ○ ○ Pathway ranking evaluation and comparison ○ ○ ● ○ Over-representation analysis (ORA) ○ ○ ● ● Gene set enrichment analysis (GSEA) ○ ○ ● ○ ..

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Article Title: Absence of association between maternal adverse events and long-term gut microbiome outcomes in the Australian autism biobank
Article Snippet: .. We performed variance components analyses using the open-source software tool OSCA (OmicS-data-based Complex trait Analysis), as previously described in Yap et al. ( ; ). .. First, we constructed omics-data-based relationship matrices (ORM) between all pairs of study participants (N = 174) based on different microbiome features [common species (N = 91), rare species (N = 420), common families (N = 30), common genera (N = 75), common enzymes level 3 (N = 87), common enzymes level 4 (N = 1,610), common metabolic pathways (N = 547), common transporters (N = 212), common genes (N = 234,142)].