DNA (Illumina)

Infinium Methylation

DNA methylation, a form of epigenetic modification, plays an important role in the regulation of gene expression. Aberrant DNA methylation may cause suppression in transcription and subsequently the gene expression level. Numerous studies have implicated aberrant methylation in the etiology of many human diseases, including cancer.

The Infinium Methylation assay is based on genotyping bisulfite-converted genomic DNA and it provides an efficient solution for surveying genome-wide DNA methylation profiles across samples. The Infinium^® MethylationEPIC BeadChip* allows interrogation of more than 850,000 CpGs in enhancer regions, gene bodies, promoters and CpG island (8 samples per BeadChip). It can work on both fresh frozen and formalin fixed paraffin embedded (FFPE) DNA samples.

RNA Sequencing allows analysis of novel transcripts, novel isoforms, alternative splice sites, rare transcripts, and cSNPs.

Illumina’s TruSeq RNA sample preparation kit produces a poly-A enriched cDNA library. rRNA depleted RNA-Seq allows for capture of both mRNA and multiple forms of non-coding RNA. Stranded Total RNA library preparation kit with Ribo-Zero ribosomal RNA reduction chemistry, provides analysis of coding and multiple forms of non-coding RNA with precise measurement of strand orientation and uniform coverage for alternative transcripts, gene fusions and allele-specific expression. Low-input Stranded Total RNA library preparation kit which incorporates SMART (Switching Mechanism At 5’ end of RNA Template) cDNA synthesis technology allowing strand-specific sequencing data from the synthesized cDNA.

Single-cell RNA-seq allows definition of cell-type specific gene expression, giving the ability to fully characterize tissue heterogeneity, identify rare cell types and dissect molecular mechanisms cell-by-cell. The 10x Chromium Single Cell Gene Expression v3.1 kit allows the profiling of thousands of genes at the single cell level by labelling the RNA with cell-specific barcodes, ensuring cDNA from each cell can be traced back to the cell of origin. Barcoded cDNA is used to create library for sequencing. It can simultaneously assess CRISPR perturbation phenotypes and gene expression from the same cell to accelerate functional genomics studies using the Featured Barcode Technology.

1. Aaron T Irving et al (Apr 2020). Interferon regulatory factors IRF1 and IRF7 directly regulate gene expression in bats in response to viral infection. Cell Reports 33 (5): 108345. Doi:10.1016/j.celrep.2020.108345. (DGBF – RNA-seq library preparation service)
2. Yvonne C F Su et al (Jul 2020). Discovery and genomic characterization of a 382-nucleotide deletion in ORF7b and ORF8 during the early evolution of SARS-CoV-2. mBio.: 11(4); e01610-20. doi:10.1128/mBio.01610-20. (DGBF – NGS library QC + Miseq sequencing)
3. Y T Chionh et al (Jul 2019). High Basal heat-shock protein expression in bats confers resistance to cellular heat/oxidative stress. Cell Stress and Chaperones 24(4): 835-849.doi:10.1007/s12192-019-01013-v  (DGBF – RNA-seq library preparation service)
4. Candice Y Y Chan et al (Sep-Oct 2019). Antibody-dependent dengue virus entry modulates cell intrinsic responses for enhanced infection. mSphere 4(5): e00528-19. doi: 10.1128/msphere.00528-19. (DGBF – RNA-seq library preparation service and Miseq sequencing)
5. Clement Yau et al (Dec 2021). Dysregulated metabolism underpins Zika-virus-infection-associated impairment in fetal development. Cell Reports 37(11):110118. doi:10.1016/j.celrep.2021.110118. (DGBF – NGS library QC + Miseq sequencing)

1. “I am very impressed with the quality of work and professionalism displayed in my engagement. From the collection of DNA samples all the way to the generation of results, everything was done very smoothly and in a timely manner. We have been impressed with their services that we will continue to work with them  in the future. I highly recommend their DNA methylation profiling service for anyone looking for reliable, high-quality methylation data” [illumina Methylation Profiling] (KK Women’s and Children’s Hospital Senior Principal Medical Laboratory Scientist, Molecular Pathology Laboratory)
2. “A few of many accolades: Highly effective communications — quick response and your team have put in great efforts to understand the design and the needs of our projects. Excellent services — rapid turnaround times (e.g. average of 1 day to receive QC reports versus 1-2 weeks from external vendors) High quality data — hassle-free & consistency.”  [Library QC and MiSeq Sequencing] (Assistant Professor Ooi Yaw Shin, Duke-NUS Medical School, EID Department)
3. “DGBF has been essential and helpful in our research. Libraries are quantified as fast as possible for QC before starting the Miseq runs rapidly and smoothly. The service provided by this core facility has met expectation thoroughly” [Library QC and Miseq sequencing] (Dr. Marcus Gerard Mah, Duke-NUS Medical School, EID Department)

4. “We have used the bulk RNA sequencing services by DGBF several times now, and each time the service has been fantastic - the response by Angie and her team has always been prompt and helpful. Starting from the QC stage to actual data collection, the process has been smooth and without any hiccups. I would highly recommend DGBF to any researcher looking to perform bulk RNA sequencing in Singapore” [Bulk RNA sequencing service] (Assistant Professor Eliza Fong, National University of Singapore, Department of Biomedical Engineering)
5. “Our experience has been consistently high quality. The Genome Biology Facility always help us troubleshoot any concerns as well. We will continue to use the DGBF services for our future projects” [Bulk RNA sequencing and 10X Genomics sequencing] (Associate Professor Ashley Lauren St John, Duke-NUS Medical School, (EID Department)