Our Services
Alithia Genomics delivers cutting-edge bioinformatics solutions across genomics, transcriptomics, and epigenomics—powering discovery through data.
Genomics Analysis
From targeted gene panels to whole-genome sequencing (WGS) and whole-exome sequencing (WES), we provide high-accuracy variant detection, de novo genome assembly, structural variant analysis, and functional annotation to accelerate discovery in precision medicine.
Transcriptomics Analysis
Decode gene expression dynamics with differential expression analysis, isoform discovery, fusion gene detection, long non-coding RNA (lncRNA) profiling, and survival-linked transcriptomics for disease research and therapeutic development.
Epigenomics & Chromatin Accessibility
Unravel gene regulation mechanisms with ChIP-Seq (transcription factors & histone modifications), ATAC-Seq (chromatin accessibility), DNA methylation analysis (bisulfite sequencing), and Hi-C for 3D genome architecture mapping.
Single-Cell & Spatial Transcriptomics
Explore cellular heterogeneity with single-cell RNA sequencing (scRNA-Seq), cell type identification, trajectory inference, and spatial transcriptomics to map gene expression at single-cell resolution.
Metagenomics & Microbiome Profiling
Characterize microbial ecosystems with 16S rRNA sequencing, whole-metagenome sequencing (WMS), and taxonomic profiling to uncover microbial diversity and functional potential.
Long-Read & Single-Molecule Sequencing
Leverage Nanopore and PacBio sequencing for full-length isoform identification, haplotyping, structural variant detection, fusion gene discovery, and chromatin architecture insights with unparalleled read-length accuracy.
How We Can Help
Project-Based Analysis
From initial consultation to final delivery, we create and execute customized analysis plans tailored to your research goals, with regular progress updates throughout.
Bioinformatics Consulting
Expert guidance on experimental design, analysis methods selection, and workflow optimization for your research projects.
Grant Support
Strengthen your funding applications with customized letters detailing bioinformatics infrastructure and expertise available for your research.
Flexible Delivery Options
Choose between Standard Analysis (raw results with essential annotations) or Advanced Analysis (comprehensive analysis with insights and recommendations).
About Us
We are a team of bioinformatician and computational biologists passionate about transforming raw sequencing data into meaningful discoveries.
With expertise in genomics, transcriptomics, and epigenomics, we build custom analysis pipelines tailored to each project's unique needs.
We work with biotech startups, pharma, academia and individual researchers to decode complex multiomics data—offering tailored analysis, consulting, and training to help you maximize insights and make the most of your data.
Why Choose Us?
- Custom bioinformatics
- Compatible with Illumina, 10x, PacBio and Nanopore sequencing platforms
- Publication-ready data and figures
- Fast & reliable turnaround time
- Professional and experienced team
- End-to-End Support
Publications
Explore latest research and publications that drive innovation in genomics, transcriptomics, and epigenomics.
Meet the Team
Our team consists of scientists from Yale University, Salk Institute of Biological Studies and industry experts with decades of experience in the field.
Gerald Pao, Ph.D.
Director
Yuan Xue, Ph.D.
Chief Scientist
Luke
Bioinformatian
Karen
Project Manager
Request A Project Quote
Want more information about our bioinformatics services or interested in analysis of your raw sequencing data? Please feel free to submit a service inquiry and we will get back to you as soon as possible.
Contact Info
Address957 Urania Avenue, Encinitas, California CA 92024
Email hello@alithia.bio