Genomics and Bioinformatics Facility


Core Manager
Yavuz Oktay, PhD
Gökhan Karakülah, PhD
Vanesa Segovia, PhD

Next-generation sequencing (NGS) is a critical technology in a variety of genome-wide applications such as novel variant discovery, RNA expression analysis, identification of transcription factor binding sites and methylome profiling. NGS has dramatically speeded up genome-wide mutation analysis, which used to be very time-consuming and expensive when performed with traditional capillary electrophoresis sequencing. Consequently, a variety of different mutations (missense, nonsense, indel, and frameshift) that are critical in disease pathogenesis can be discovered within 1-2 days using NGS. Gene fusion events can similarly be identified in a very short time frame.

Approximately 125m2 laboratory space with separate pre-PCR, post-PCR areas have been allocated for the Genomics Core Facility at iBG-izmir. In particular, the following NGS applications will be offered by the facility:

1) Whole genome sequencing (WGS)
2) Whole exome sequencing (WES)
3) Whole transcriptome sequencing (WTS) or RNA-Seq
4) ChIP-Sequencing (ChIP-Seq)
5) Methylation sequencing (RRBS, WGBS and Capture-Methyl-seq)

With these methodologies, following research areas can be covered:

1) Genome-wide mutation/variant analysis
2) Gene expression profiling
3) Methylation analysis
4) Identification of transcription factor binding sites and histone modifications

The following standard bioinformatics data analysis will be included for all NGS applications. Advanced bioinformatics analysis will be provided if needed:

a) Gene, transcript and lncRNA expression analysis using RNA-Seq data
b) ChIP-Seq data analysis (identification of binding sites, consensus motif analysis etc.)

The Genomics Core Facility will also cooperate with the Bioinformatics Core Facility to provide the researchers at iBG-izmir with high-quality data and computational data analysis.

For detailed listing of services and prices please see the “Genomics and Bioinformatics” page under “Services” section at the iBG-izmir homepage.