Gene Bioinformatics Services

Introduction

Experiment design for high-throughput genomic studies
Next-Generation Sequencing data analysis including whole transcriptome/single-cell RNA-Seq, ChIP-Seq, ATAC-Seq, exome/Whole Genome Sequencing, 16S rRNA, and other NGS technologies
Pathway/Gene Set Enrichment Analysis and gene network analysis
Functional metagenomics analysis
Biomarker discovery and prediction modeling for clinical outcomes
LINCS data pre-processing and pathway integrative analysis.
Drug sensitivity and genomic association analysis
Genomic data integration using public database such as TCGA, CPTAC, GEO, ENCODE, etc.
Integration analysis of genomic data across multiple platforms
Genomic data visualization
Bioinformatics new methodology and algorithm development
Bioinformatics software development including Bioconductor/R package and web-based software

Analysis Methods

BioMart
Molecular Signatures Database (MSigDB)
Gene Ontology (GO)
Greengenes 16S rRNA database

Instrumentation

R tools & Bioconductor packages
Ingenuity Pathway Analysis
PICRUSt
Cytoscape
NCBI Toolkits, fastqc, STAR aligner, rMATS, and other sequence analysis tools
Multiple Dell 16-core Intel Xeon/Linux X86_64 work stations
Pegasus supercomputing cluster

CD Genomics offers various solutions, from genome-wide association studies on tens of thousands of samples to single SNP interrogations of several hundred individuals. Our experts and technicians are knowledgeable and have years of experience providing Gene Bioinformatics Services.