Genome data analysis
We use different customized pipelines (germline/somatic variants) based on cusotmers request.
1. BWA-GATK4 (WGRS/WES)
2. BWA-Strelka2 (WGRS/WES)
3. BWA-DeepVariants (WGRS/WES/Trio)
Genome-wide Association Analysis (GWAS)
Applications
· Quantitative traits of animals and plants
· Human Phenotype Research
· Complex disease
· Single gene diseaseQTL
Bioinformatics Analysis (PLINK)
· Quality control of sequencing data
· Map to reference genome
· SNP/SNV detection and annotation
· Phylogenetic tree construction
· PCA analysis
· Linkage disequilibrium (LD) analysis
· Trait association analysis
· Functional annotation of genes in regions related to target traits
Clinical WES
Bioinformatics Analysis / Clinical Report
· Detected variants list with detailed information and visual charts
· Compliance with ACMG guideline for NGS clinical use
· Annotation using various databases ((Reference sequence DB/ Population DB/ Cancer specific
DB/ Constitutional variant DB/ Internal DB)) and In Silico prediction for accurate interpretation
· Compliance
Transcriptome data analysis
Bioinformatics Analysis and Interpretation
· Raw data QC
· Expressed genes and DEG's
· GO and KEGG pathway enrichment analysis
· Data interpretation and Manuscript support
