Bioinformatics Services

From experimental design through publication, we provide the computational expertise to turn your biological data into meaningful scientific results.

Flow Cytometry Analysis & Panel Design

End-to-end support for your flow cytometry experiments, from initial panel design through data analysis and publication-ready figures.

Fluorochrome selection and panel optimization for minimal spillover

Compensation matrix calculation and quality assessment

Gating strategy development for immunophenotyping and functional assays

Multi-parameter statistical analysis with proper controls

Batch analysis across large sample sets with consistent methodology

Integration with our Cytogence FCS software for AI-assisted gating

Spatial Biology

Spatial transcriptomics and proteomics analysis for tissue-level insights, supporting GeoMx DSP, Visium, MERFISH, and other platforms.

NanoString GeoMx DSP data processing and normalization

10x Visium spatial gene expression analysis

Region of interest (ROI) selection and quality control

Differential expression and pathway analysis with spatial context

Spatial deconvolution and cell-type mapping

Custom visualization of spatial gene expression patterns

RNA-seq & Bulk NGS Analysis

From raw reads to biological insight, we build and run reproducible pipelines for all major sequencing assays.

Quality control, alignment, and quantification (STAR, Salmon, HISAT2)

Differential expression analysis (DESeq2, edgeR, limma)

Gene set enrichment and pathway analysis (GSEA, clusterProfiler)

Alternative splicing and isoform-level analysis

Custom pipeline development for non-standard protocols

ChIP-seq, ATAC-seq, and other epigenomic assays

Single-Cell RNA-seq

Comprehensive single-cell analysis pipelines for dissecting cellular heterogeneity in complex tissues and experimental systems.

10x Chromium data processing (Cell Ranger, STARsolo)

Quality filtering, normalization, and batch correction (Seurat, Scanpy)

Unsupervised clustering and cell-type annotation

Trajectory and pseudotime analysis (Monocle3, scVelo)

Differential expression between conditions and cell types

Multi-sample integration and cross-dataset harmonization

Multi-omics Integration & Proteomics

Bridge the gap between genomics, transcriptomics, proteomics, and metabolomics to uncover systems-level biological mechanisms.

Mass spectrometry-based proteomics data analysis (MaxQuant, Proteome Discoverer)

Label-free quantification and TMT/iTRAQ analysis

Multi-omics factor analysis (MOFA) and data integration

Network analysis and pathway crosstalk identification

Biomarker discovery across multiple data modalities

Metabolomics data processing and annotation

Genomics

Whole genome and exome sequencing analysis, from variant calling to clinical-grade annotation and interpretation.

WGS and WES alignment and variant calling (GATK, DeepVariant)

Structural variant detection and copy number analysis

Variant annotation and functional impact prediction (VEP, ANNOVAR)

Population genetics and ancestry analysis

Tumor-normal paired analysis and somatic mutation calling

Pharmacogenomics and genotype-phenotype association

Bioinformatics Pipeline Development

Custom, reproducible analysis pipelines tailored to your research workflow, built to run locally or in the cloud.

Nextflow and Snakemake workflow development

Docker/Singularity containerization for reproducibility

Cloud deployment on AWS, GCP, or institutional HPC

Automated QC reporting and data validation

Integration with LIMS and data management systems

Documentation and training for in-house adoption

Research Data Visualization & Reporting

Publication-quality figures and comprehensive reports that communicate your findings with clarity and precision.

Custom R/ggplot2 and Python/matplotlib visualizations

Interactive dashboards (Shiny, Plotly, Observable)

Publication-ready figures meeting journal specifications

Comprehensive analysis reports with methods documentation

Presentation-ready summaries for grant reviews and conferences

Reproducible reporting with R Markdown and Jupyter notebooks

Scientific Consulting & Study Design

Expert guidance on experimental design, statistical methodology, and analysis strategy before you generate a single data point.

Power analysis and sample size calculations

Experimental design optimization for multi-omic studies

Statistical methodology selection and validation

Grant writing support with bioinformatics aims

Manuscript preparation and figure generation

Peer review support and methods documentation

Don't see your analysis type listed?

We work across the full spectrum of computational biology. Tell us about your project and we'll let you know how we can help.

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