Research Services
Bioinformatics & Genomic Data Analysis
Applications
-
Epigenome-wide association studies (EWAS)
-
Cancer research and biomarker discovery
-
Developmental biology and embryogenesis
-
Aging and longevity studies
-
Neurological and psychiatric disorder research
-
Plant and animal evolution studies
-
Drug response and personalized medicine
Bioinformatics & Genomic Data Analysis
DNA methylation is a key epigenetic modification that regulates gene expression and plays essential roles in normal development and biological processes such as genomic imprinting, X-chromosome inactivation, suppression of repetitive elements, and carcinogenesis. By leveraging highly trusted DNA analysis platforms, AGTC Genomics supports epigenome-wide association studies (EWAS) with expert-selected coverage and high-throughput capability, enabling accurate, large-scale insights into the epigenetic landscape.
Variant Analysis
Using analysis pipelines developed specifically for variant detection, sequence data is aligned to available reference sequences. SNPs, indels (insertions and deletions), and structural variants are detected, quality-filtered, and annotated (coding, non-coding, synonymous, non-synonymous, etc.). In order to identify novel or rare variants, the variants are compared to an in-house database of known variants that includes the latest dbSNP and 1000Genomes data as well as other known variants from multiple organisms and publicly available data sets.
Transcriptome Analysis
Transcriptome (RNA-Seq) data can be analyzed to determine gene or isoform level expression profiles, sequence variation, and differential expression between multiple conditions and/or timepoints. Included in this pipeline is the alignment of reads to a reference genome, expression analysis, differential expression analysis, isoform analysis, and differential isoform analysis. Results are output as spreadsheets containing statistics, differentially expressed genes, isoforms and differentially expressed isoforms as well as pdf plots and figures such as heat maps and principle component analyses.
Microbiome Profiling
We process amplicon sequence data from 16S, 18S, ITS, and custom amplicon projects using an in-house informatics workflow. This is offered primarily as a package in combination with our microbiome library and sequencing services but can also be performed on pre-existing data sets. Included in the analysis pipeline are the production of QC reports, taxonomic assignments, and assorted analysis (heatmaps, diversity measures) according to the project needs. Additional statistical analysis is offered to accommodate needs for advanced analysis relating to modeling and in-depth analysis.
Pathway & Network Analysis
Given a set of differentially regulated gene set associated with a particular phenotype, we use software packages, developed specifically to analyze gene pathways and networks to find associations with functional profiles, tissue or disease specific biomarkers, and other genes in the same pathways and networks.
Customized Analysis
Our computational infrastructure and expertise enable cutting-edge custom analysis for a broad range of omics applications. We will customize an analysis plan for each project in close consultation with each investigator. Please request a consultation to discuss custom analysis projects.
Collaborate with us
AGTC Genomics collaborates with research teams to embed genomics, multi-omics, and data science at the core of discovery and development. By supporting target identification, validation, and translational strategy design, we help accelerate research impact from bench to population health.