RNA sequencing (RNA-Seq) is powerful method for qualitative and quantitative analysis of the transcriptome of any organism. RNA-Seq is used for differential gene expression, detection of alternate splicing and characterisation of novel transcripts.  

• mRNA-Seq : targeting poly(A) RNA provides a sensitive option for lowly expressed coding transcripts
  

• Whole Transcriptome : RNA sample are enriched for both mRNA and non-coding RNAs to provide a comprehensive view of the transcriptome
  

• Small RNA : targets small regulatory RNAs such as miRNA for profiling and discovery

Whole exome sequencing (WES) is a powerful tool for investigation of genetic variance across the protein coding regions of the genome. WES provides high coverage and high confidence in germline variant calls for the study of rare mendelian disorders, complex disease and cancer. AGRF provides comprehensive solutions for WES, including bioinformatics using gold standard tools (Illumina DRAGEN).

• Twist Exome 2.0 : Discover the power of the Twist Exome 2.0 panel (36.5 Mbp) designed for detecting rare disease, inherited conditions as well as germline cancers. Delivering high-quality data with superior coverage based on major genetic databases (RefSeq, CCDS, GenCode, ClinVar, ACMG73), addressing inherited diseases including cystic fibrosis (CFTR) and targeting other clinically relevant markers.1 Additionally, you have the option to include the mtDNA genome as a spike-in probe set upon request, or you can introduce your Twist compatible probe spike-in for a customised service. Additional charges may apply.
  

• Twist Alliance Clinical Research Exome : Our comprehensive NGS service includes the Broad Institute designed Twist Alliance Clinical Research Exome panel (34.9 Mbp). This panel covers an extensive range of clinically relevant areas of the genome linked to cancers, rare diseases and inherited conditions. This panel is built on the Twist Core Exome backbone, providing enhanced coverage with the inclusion of the mtDNA genome at no extra cost, along with boosted coverage for Online Mendelian Inheritance in Man (OMIM), Catalogue of Somatic Mutations in Cancer (COSMIC) and non-exonic regions such as ACMG73.2

1. Exome 2.0 - Twist BioScience, accessed 15 October 2023,
   Twist BioScience Exome 2.0

2. Alliance Panels - Twist BioSicence, accessed 15 October 2023,
   Twist Bioscience Alliance Panels

Whole genome sequencing (WGS) provides the most comprehensive analysis of genome variance and structure. WGS enables accurate detection of SNV, and structural variation of human genomes, or de novo assembly and variant detection of non-human genomes. 

AGRF offers a range of services for sequencing of small microbial genomes, large complex genomes, as well as a clinical genome sequencing service for rare mendelian disorders, complex disease and cancer.

• Human WGS : accurate SNV detection using the Illumina NovaSeq platform with or without variant calls. For clinical samples we offer NATA-accredited (ISO15189 Medical Testing) workflow.
  

• Small WGS : AGRF offers a sample preparation and sequencing options suitable for a single or hundreds of microbial genomes.
  

• Low Pass WGS : accurately measure genome-wide variance in populations. Applications range from GWAS to trait-mapping and selection in agriculture.

Use Next Generation Sequencing to detect DNA methylation across the entire genome, including CpG and less common CHG and CHH contexts.

Use whole genome or genome-wide methylation sequencing to identify differentially methylated regions, and for discovery of epigenetic biomarkers.

AGRF’s Whole Plasmid and Amplicon Express service is a small-scale next generation sequencing (NGS) service designed to make the Illumina short read platform accessible to researchers for small projects, or genomes.

Key advantages:

• Whole plasmid sequencing

• Transposase library preparation

• Guaranteed data (5,000 reads/sample)

• Plasmid de novo assembly included

• Suitable for small amplicon sequencing (150-250bp)

• Amplicon sequencing (Next Generation Sequencing, NGS) is the most cost-effective way to understand the composition of a microbial community. Our analysis provides Amplicon Single Variants (ASV) as well as taxonomic and diversity profiling.

• Upgrade to sequencing the full-length 16S gene, the whole rRNA operon or the whole ribosomal operon using long read sequencing.

• Sequence the whole metagenome of a community using shotgun sequencing (NGS). Whole metagenome sequencing provides not only taxonomic information but also allows interrogation of the genes present, providing insight into the important pathways of microbial communities. 

• Studying the RNA of a microbial community captures the expression of all genes. Metatranscriptomics provides more insight into the function of microbes within a community and how they interact with each other and their environment.