Microarray and Next Gen Sequencing System

School of Biomedical Sciences
生物醫學學院
The Chinese University of Hong Kong 香港中文大學

Affymetrix Microarray System


Features:	- Equipped with Hybridization Oven 640, Fluidics Station 450 and GeneChip Scanner 3000 7G system; - Incorporate advanced gene expression analysis and genotyping studies; - Transcription detection e.g. coding mRNA, Copy number variation (CNV), Single nucleotide polymorphism (SNP); - Genechips and consumables are not provided by Core Labs.
Staff-in-charge:	- YK Suen / Eric
Location:	LIBSB 612

Partek Genomic Suite and Partek Pathway Software for Microarray data analysis


Features:	- Partek Genomics Suite is a comprehensive suite of advanced statistics and interactive data visualization, specifically designed to reliably extract biological signals from noisy data. - The software is unique in supporting all microarray.
Staff-in-charge:	- Venus
Back-up Support:	- Randy/Eric/YK Suen
Location:	LIBSB 612

Agilent 2100 Bioanalyzer


Features:	- Serves as a microfluidics-based platform for sizing, quantification and quality control of DNA, RNA, proteins and cells Serves as a review control taken during the target preparation prior to committing to the hybridization of the Microarray - Genechips and consumables are not provided by Core Labs.
Staff-in-charge:	- Venus
Back-up Support:	- Randy/Eric/YK Suen
Location:	LIBSB 612

Automated Next Generation Sequencing (NGS) System: The Ion Chef System & Ion Torrent S5 Sequencer

The Ion Chef System Ion Torrent S5 Sequencer
The Ion Chef System and the Ion S5 Sequencing System enable targeted next-generation sequencing workflow for panels, microbes, exomes, FFPE, transcriptomes and copy number analysis.

Features:

Ion Chef System

The system helps to simply the next-generation sequencing workflow for Ion S5,
It incorporates automated Ion Ampliseq library preparation, template preparation and chip loading in the system with the use of pre-packaged cartridge-based reagent kits for library preparation.

It enables reproducible template preparation on 2 chips for multiple samples for sequencing within hours.

Ion chips (Ion 510, 520, 530 & 540 chips are compatible for use) and consumables required will not be provided by Core Labs.

Ion S5 Sequencing System

- This system has the capability to multiplex thousands of targets and hundreds of samples in a single sequencing run.

- DNA/RNA for sequencing can be as low as 1-10ng using Ion AmpliSeq technology.

- Workflow for panels, microbes, exomes and transcriptomes on Ion S5 System:

		Ion 510 Chip	Ion 520 Chip	Ion 530 Chip	Ion 540 Chip
Reads		2-3 million	4-6 million	15-20 million	60-80 million
Output	200 bp	0.3-0.5 Gb	0.6-1 Gb	3-4 Gb	10-15 Gb
Output	400 bp	0.6-1 Gb	1.2-2 Gb	6-8Gb	—
Run times	200 bp	2.5 hr	2.5 hr	2.5 hr	2.5 hr
Run times	400 bp	4 hr	4 hr	>4 hr	—
Analysis time	200 bp	2 hr	5 hr	8 hr	16.5 hr
Analysis time	400 bp	6.5 hr	8 hr	17.5 hr	—

-Workflow for long-read sequencing for research applications such as human leukocyte antigen (HLA) typing or metagenomic analysis on Ion S5 System

		Ion 510 Chip	Ion 520 Chip	Ion 530 Chip	Ion 540 Chip
Reads	600bp	—	3-4 million	9-12 million	—
Outputs*	600bp	—	0.5-1.5 Gb	1.5-4.5 Gb	—
Run time	600bp	—	4hrs	4hrs	—
Analysis time††	600bp	—	8hrs	17hrs	—

Built-in informatics

Data generated will automatically be uploaded from Torrent Suite Software to Ion Reporter™ Software for further analysis.

Staff-in-charge:

- Venus

Back-up Support:

- Randy/Eric

Location:

LIBSB 612

Booking of use:

For SBS MEMBERS ONLY
Training is needed for all uses. Please contact Venus in person for discussion and booking.
Booking system will be on daily basis, from Monday to Friday ONLY.