Immunogenomics

Head: Shanshan HOWLAND, Ph.D.

Manager: Josephine LUM

The Immunogenomics Platform facilitates transcriptome analysis, whole genome sequencing, targeted sequencing and microbiome interrogations using the latest functional genomics technologies

Overview

The SIgN Immunogenomics Platform supports all aspects of genomics research with state-of-the-art technology and high-level technical expertise. We provide research consultations and engage with SIgN scientists to ensure that they reach their experimental goals using the latest, emerging functional genomics technologies. We apply stringent quality control measures throughout the work flow to ensure accurate, reliable and reproducible results. We also work in collaboration with SIgN investigators to develop sophisticated custom tools to analyse whole genomes, transcriptomes, and metagenomes in different biological contexts.

Technologies and Approach

We develop in-house methods and implement commercial solutions to transform biological samples (tissues, cells, or purified nucleic acids) into high-quality and economical libraries ready for Next Generation Sequencing (NGS). We devise the best possible approach depending on sample size, quality, cost, and turnaround time and link up with A*STAR or external NGS providers. Together with the SIgN Immunoinformatics Platform, we deliver an end-to-end solution to tackle immunological questions.

In addition to accelerating transcriptomics research using high-throughput RNA sequencing, we also support direct digital counting using NanoString technology. Single-cell sequencing is the forefront of the functional genomics field and we are well-equipped to interrogate single cells separated by flow cytometry, by microfluidics (Fluidigm C1 system) or by droplet emulsions (10x Genomics Chromium).

Applications of our technologies include:

•    Gene expression profiling by RNAseq, NanoString, or Affymetrix microarray (legacy technology)
•    Transcript isoform profiling and discovery
•    Small RNA profiling and discovery
•    Whole genome/exome sequencing of tumours
•    Pathogen genome sequencing
•    Microbiota surveys
•    T cell receptor and B cell receptor repertoire analysis
•    Epigenetic studies (ChIP-Seq, ATAC-Seq, methylation marks)


Figure 1: Equipment available in the SIgN Immunogenomics laboratory.