Bioinformatics Services

Data Solutions for Bioinformatic Services

By partnering with Fios Genomics we provide a range of bioinformatics services to support pre-clinical and clinical development. These services include:

Single-Cell Data Analysis

Single cell RNA sequencing data analysis can help classify which cells are present in a sample and if they differ in terms of expression. Generally, this is done following dimension reduction and clustering using UMAP or tSNE methods. For multiple samples, single cell RNA sequencing facilitates comparisons of expression between equivalent cell types of different samples to measure the effect of a condition or treatment. It also facilitates comparisons of cell type composition of samples from multiple individuals to show the variation of cellular composition at a population scale.

By partnering with Fios Genomics for bioinformatics services, we can offer you single-cell gene expression data analysis.

Analyze your single-cell data

Gene Expression Analysis

We offer gene expression data analysis from a range of platforms including Nano StringCRISPR knockout data and bulk RNAseq data. For RNAseq data we provide analysis for mRNA, miRNA, and other small RNAs. Data can be sent in different formats such as aligned BAM/SAM files for next generation sequencing (NGS) data, raw FastQ file,s and raw or normalized (FPKM/TPM) count matrices at gene or transcript level. We also accept platform-specific file formats such as nCounter (RCC files) for NanoString and CEL for arrays (e.g. from Illumina, Agilent and Affymetrix).

Start your gene expression analysis

Genetic Variation Analysis

SNP arrays, Whole Genome Sequencing (WGS), or Whole Exome Sequencing (WES) can be used in genetic analysis across many sites in the genome simultaneously. However, sequencing data can be challenging to process and analyze as it is often generated on the scale of terabytes. Our partner Fios Genomics has workflows and computational resources that can handle and process data generated from array-based and next-generation sequencing (NGS) technologies at scale. We can leverage cloud computing for the high throughput of large data sets.

We can offer you a range of bioinformatics services to interrogate genetic variation and association with clinical outcomes or phenotype, including:

• Copy number variation calling and analysis
• WGS/WES sequence analysis to call SNPs or mutations
• Genome-wide association studies (GWAS) and haplotype analysis to facilitate the discovery and/or typing of SNPs implicated in disease
• Somatic versus germline mutation detection

Start your genetic variation analysis

Proteomics Data Analysis

Proteomics can be used to primarily identify the location and rate of production of proteins as well as their degradation at a given time. Other proteomics techniques can help look at post-translational modifications (PTMs), interactions, and movement between subcellular compartments. 

With the analysis of proteomics data, it is possible to look at changes in abundance of proteins, their modification, location, or binding specificity between sample groups that differ in terms of tissue of origin, treatment, experimental condition or outcome. 

These bioinformatics services include:

Analyze your proteomics data

Metabolomics Data Analysis

Metabolomics give a snapshot of ongoing chemical processes within the cell which directly reflects the underlying biochemical activity and state of cells. Metabolomics bioinformatics has the potential to link genetic, environmental, microbiome, and other physiological elements to specific diseases.

We can offer you:

Analyze your metabolomics data

Epigenetics Data Analysis

We offer a range of epigenetics by bioinformatics services including DNA methylation analysis and chromatin immunoprecipitation sequencing (ChIP-seq) analysis.

Epigenetic analyses are relevant to:

• Gaining insight into protein–DNA interactions
• Investigating methylation patterns
• Characterizing the response of cells or tissues to epigenetic modifying agents
• Understanding the mechanisms that regulate gene expression in response to environmental stresses or during developmental processes

Analyze your epigenetics data

Bio Data Landscaping and Mining

Data Landscaping
Public datasets provide a great resource for validation for data coming from internal research. However, it is a challenge to gather data that are generated from vast amounts of samples. It can also be a technical challenge to access this data.

Data Mining
Our bioinformatics services can also help you with data mining and curate datasets from public sources or support you in identifying suitable sources from the public domain if required. We can assist you with data landscaping and data mining.

Analyze your data with us

Clinical Data Analysis

We can offer bioinformatics analyses of data generated via clinical studies or trials to identify biomarkers or phenotypes which are associated with the outcome describing the treatment effect. Our bioinformatics services allow us to analyze clinical data in a range of formats including Excel, SAS, R data objects or standardized formats such as ADaM and can advise on the most suitable statistical model required.

Types of clinical data that we can assist you with include:

Analyze your clinical data

Integrated Bioinformatics Services and Specificity Screening

Integrating bioinformatic analysis with off-target/specificity screening creates a powerful filtering system which can be deployed in early discovery with a rapid lead time. Working in combination, these technologies can provide a comprehensive upfront understanding of which candidates show viable specificity to move forward through further studies, including a detailed package of information to enable informed study choices and data-driven downstream study design.

The Value of Bioinformatics to Assess Novel Immuno-Oncology Therapies
In this webinar we discuss a recent study with two syngeneic mouse models and how bioinformatics analysis was able to determine their response to treatment.
Watch the webinar

Therapeutic Areas for Bioinformatic Analysis

Fios Genomics offers different data analysis approaches for discovery, characterization and validation of genomic (RNA and DNA) and proteomic biomarkers for a variety of disease areas. Bioinformatics services can help with drug target identification and validation for oncology, GI and microbiome, cardiovascular and metabolic diseases, infections and vaccines, respiratory and dermatology research areas. Applications of bioinformatics services include human medicine, crop studies and nutrition, forensic analysis, and veterinary science.

See how we can help

Bioinformatics: Mining Big Data to Discover Precision Oncology Therapies
Learn how mining big data can help accurately stratify patients who will respond to your therapy, driving decisions and allowing you to bring your best anti-cancer therapies further into development.
Watch the webinar

Frequently Asked Questions (FAQs) for Bioinformatics Services