Bioinformatics

AGRF’s bioinformatics team turns complex data into insights. From genomics to other ‘omics’ and clinical datasets, we help unlock the story behind the numbers.

Covering a wide range of expertise in programming, statistics and biology, the team are capable of offering any commonly requested bioinformatics service, including Custom Analysis options and operates clinically accredited pipelines to ensure reliable, high-quality results you can trust.

  • At AGRF, we help researchers uncover how genes behave differently under various conditions. Using advanced bioinformatics, we compare gene activity between samples, such as healthy versus diseased tissue, or treated versus untreated cells, to identify which genes are “switched on” or “switched off.” These insights provide a deeper understanding of biological processes and can guide research, diagnostics, and therapeutic development.

    • Short Read Sequencing: such as mRNA, Total RNA, small RNA

    • Long Read Sequencing

    • Proteomics

    • Methylation: such as PacBio, Arrays, Enzymatic MethylSeq

    • Single cell RNA

  • AGRF helps researchers identify genetic differences, known as variants, across genomes. These can include changes as small as a single DNA letter or larger structural changes. By detecting and analysing these variants, we provide insights into traits, disease susceptibility, and individual responses to treatments, helping guide research, diagnostics, and personalised medicine.

    • Germline/hereditary SR - ISO15189 clinical accreditation

    • Somatic SR - TSO500 ISO15189, gene fusions

    • Somatic SR - WGS/WES ISO17025

    • ISO17025 Research uses, SNV, SV, CNV, Annotation, mitochondrial, HLA - SR and LGR

    • Pharmacogenomic

    • Polygenic Risk Score analysis

    • Non-human variant calling

    • Sanger Primer Designs

  • At AGRF, we help researchers understand the genetic makeup of individuals and populations. Genomic characterisation involves mapping and analysing the DNA of organisms to reveal their unique genetic features. Population genomic structure examines how genetic variation is distributed across groups, populations, or species, providing insights into ancestry, diversity, and evolution. Together, these analyses support research in fields such as agriculture, conservation, health, and personalised medicine.

    • Large genome and transcriptome assembly

    • Plasmid/small genome assembly

    • Genome annotation

    • Transcript isoform assembly

    • CRISPR-Cas9 & transgenic changes

    • Advanced Genomic Services: such as Hi-C, Micro-C, Omni-C, CUT&RUN, ATAC-seq

    • Allegro

    • Population Genomics - Genotyping by Sequencing (GBS) -> SNP identification; reference-free genotyping

  • At AGRF, we help researchers explore the communities of microorganisms that live in and around us. Microbiome bioinformatics involves analysing complex microbial data to understand which microbes are present, how they interact, and how they influence health, disease, or the environment. These insights can guide research in medicine, agriculture, ecology, and beyond, unlocking the hidden impact of microbes on our world.

    • Gene targeting for taxonomic annotation using 16S, ITS, CO1, or custom primers on request

    • Taxonomic and functional characterisation using MetaWGS

    • Metagenome contig assemblies through Long-Read

    • Functional screening

    • Differential abundance analysis

    • Overall community structure analysis (alpha/beta diversity)

 

Bioinformatics Quick Links

Differential Expression Analysis:

  • Short Read Sequencing: such as mRNA, Total RNA, small RNA

  • Long Read Sequencing

    Proteomics

  • Methylation: such as PacBio, Arrays, Enzymatic MethylSeq

  • Single cell RNA

Variant Detection:

  • Germline/hereditary SR - ISO15189 clinical accreditation

  • Somatic SR - TSO500 ISO15189, gene fusions

  • Somatic SR - WGS/WES ISO17025

  • ISO17025 Research uses, SNV, SV, CNV, Annotation, mitochondrial, HLA - SR and LGR

  • Pharmacogenomic

  • Polygenic Risk Score analysis

  • Non-human variant calling

  • Sanger Primer Designs

Genomic Characterisation and Population Genomics/Structure

  • Large genome and transcriptome assembly

  • Plasmid/small genome assembly

  • Genome annotation

  • Transcript isoform assembly

  • CRISPR-Cas9 & transgenic changes

  • Advanced Genomic Services: such as Hi-C, Micro-C, Omni-C, CUT&RUN, ATAC-seq

  • Allegro

  • Population Genomics - Genotyping by Sequencing (GBS) -> SNP identification; reference-free genotyping

Microbiome Analysis

  • Gene targeting for taxonomic annotation using 16S, ITS, CO1, or custom primers on request

  • Taxonomic and functional characterisation using MetaWGS

    Metagenome contig assemblies through Long-Read

  • Functional screening

  • Differential abundance analysis

  • Overall community structure analysis (alpha/beta diversity)


 
```html Genomics Decision Flowchart

Genomics Decision Flowchart

What type of analysis are you interested in?
Differential Expression Analysis
Short read
STAR + edgeR (bulk RNA)
Related: mRNA, Total RNA, small RNA
Long read
Entire transcripts
Related: PacBio
Proteomics
Related: Olink
Methylation
Single cell RNA
Related: 10X, HIVE, Parse
Variant Detection
Germline/hereditary SR – ISO15189
Somatic SR – TSO500 ISO15189, fusions
Somatic SR – WGS/WES ISO17025
ISO17025 Research: SNV, SV, CNV, Annotation, HLA, etc.
Pharmacogenomic – ISO17025 (Array, WGS, Long Read)
Polygenic Risk Score analysis (WGS, Array)
Non-human variant calling
Sanger Primer Designs
Genomic Characterisation & Populations
Large genome & transcriptome assembly
Plasmid/small genome assembly
Genome annotation
Transcript isoform assembly
CRISPR-Cas9 & transgenics
AGS: Hi-C, Micro-C, Omni-C, CUT&RUN, ATAC-seq
Allegro Targeted Genotyping
Population Genomics (GBS → SNP ID)
Microbiome
16S / ITS / CO1 gene targeting
MetaWGS taxonomic + functional
Metagenome assemblies (long-read)
Functional screening
Differential abundance analysis
Community structure (α/β diversity)
```

Download Bioinformatics Flyer, here.


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