For both Affymetrix array and Sequencing data, we can provide bioinformatics and biostatistic analysis, including basic data pre-processing and downstream data mining. Please contact Dr. Jianhua Luo for service and collaboration detail.
DATA PRE-PROCESSING & BASIC DATA ANALYSIS
Affymetrix Array Data
Data pre-processing: cleaning, imputation, missing value imputation, filtering, normalization, etc
Detecting differentially expressed genes
Copy number variation calling on SNP array
Illumina Sequencing Data
Data pre-processing: quality control, trimming, etc
Read alignment
Single nucleotide polymorphism (SNP) and small indel analyses
Copy number variation (CNV) and structure variation (SV) detection
Population evolution analysis on SNPs
Transcript/gene expression value estimation and differentially expression (DE) analysis
Isoform detection
Fusion transcript/gene detection
Differential methylation analysis
ChIP-seq peak calling
Oxford Nanopore Data
Data pre-processing: quality control, data visualization, trimming, etc
Read alignment
DATA MINING
Gene clustering
Sample/Disease subtype clustering
Pathway enrichment analysis
Survival analysis
Machine learning classification / Model prediction
Network analysis
Regression analysis
Meta-analysis / Integrative analysis of multiple cohorts
