Welcome to CodeXome
See human genetic variation through 80 million years of evolution
Grid comparing genetic markers across primate groups with rows labeled Human, Great Apes, Gibbons, Old World Monkeys, New World Monkeys, Tarsiers, Lemures, AyeAye, and Pottos, Lorises, Galagos; columns show nucleotide letters A, G, T, C with Human row highlighted in green, orange, brown, and blue squares, and Gibbons row showing gray squares with letter N.
Deep Time Ancestry
Two-panel graphic: Top panel shows gene description with title 'phosphatase and tensin homolog,' aliases, and summary noting it as a tumor suppressor mutated in many cancers; bottom panel displays a histogram of gene counts versus total branch length of gene tree, peaking near 0.5 substitutions per site.
Gene Profile Module
Table showing variant analysis numbers: 55,805 original rows in VCF, 55,805 total variants evaluated, 20,523 variants retained; CodeXome section lists 8,735 genes with information, 5,019 total private variants, and 15,504 total shared variants.
Variant Analysis
Two text boxes displaying medical test results: first shows Score 0.944, Outcome Pathogenic, Confidence High; second shows Score 0.299, Outcome Benign, Confidence Medium.
AI Evolutionary Scoring
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Finance & Sales
Customer Support
CodeXome transforms evolutionary data into a computable framework for variant interpretation — no bioinformatics expertise required.
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Start a Free Trial
55 primate genera | 2B evolutionary datapoints
Human-only and population-only datasets miss the full picture. Evolution reveals what variation is tolerated — and what is not.
Population datasets show frequency, not function
Evolution reveals constraint. Millions of years of selection show which amino acid changes persist naturally, which disappear, and which are never tolerated. Human-only datasets cannot provide this context.
Evolution makes interpretation faster and clearer
Primate recurrence instantly distinguishes natural benign variation from human-unique alleles. This removes noise and dramatically compresses manual review time.
Complex diseases gain a missing biological dimension
Comparative genomics exposes conserved residues, IDRs, motifs, and functional domains tied to neurology, cancer, immunology, and rare disease. Evolution reveals patterns invisible to population statistics alone.
72%
Reduction in manual review when evolutionary recurrence is used to triage natural variation.
Read the Studies
Read the Studies
Composite close-up image showing four different faces divided into quadrants, each highlighting diverse eyes and mouths across varied skin tones and ethnicities.
See functional importance in seconds. Evolution highlights conserved sites, tolerated variation, and human-unique changes instantly.
Natural variation is filtered instantly
Human-unique changes stand out
Evidence aligns with curated pathogenicity
Evolution in action
How deep-time biology transforms interpretation
Evolution creates a natural experiment. By mapping primate variation to human coordinates, CodeXome quantifies constraint, tolerance, and absence across every coding gene. This reveals functional domains, biological limits, and variant relevance with a level of clarity population datasets cannot match.
Primate Recurrence Patterns Identify where nature tolerated variation — and where it never did.
Absence as Evidence Sites unchanged across 80 million years highlight strong functional importance.
Table showing genetic base pairs for humans, great apes, gibbons, old world monkeys, new world monkeys, tarsiers, lemures, and pottos, with humans having bases A, A, A, G, G, A, T, C and gibbons showing N, N, N and C.
Evolutionary constraint scoring
Primate recurrence maps
Cross-species amino acid alignments
Domain + motif visualization
VUS evolutionary reclassification
Deep-time amino acid tolerance heatmaps
Human-unique variant surfacing
Integrated ClinVar, UniProt, gnomAD overlays
Unlimited users
Bank-level security
Access on any device
Real-time collaboration
AI-powered suggestions
Seamless integrations
24/7 customer support
Customizable dashboards
Unlimited users
Bank-level security
Access on any device
Real-time collaboration
AI-powered suggestions
Seamless integrations
24/7 customer support
Customizable dashboards
“Evolution is the only source of empirical functional evidence across deep time. CodeXome makes it accessible, computable, and actionable.”
Dr. Jill Pecon-Slattery
Founder, Cornerstone Genomics
Gray langur monkey sitting on a rock against a clear sky.
Evolution meets your existing tools
Works with the datasets and models you already use
CodeXome complements population datasets and prediction tools by adding the evolutionary layer they lack. Use evolutionary tolerance alongside REVEL, CADD, gnomAD, UniProt, ClinVar, and internal annotation workflows.
ClinVar
ClinGen
UniProt
ClinVar
GnomAD
RefSeq
Deep Time Ancestry
Deep Time Ancestry
RefSeq
GnomAD
ClinVar
UniProt
ClinGen
ClinVar
Frequently asked questions
What is evolutionary constraint?
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A measure of how intolerant a position is to change across deep evolutionary time.
Why do primates matter for human genetics?
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They represent millions of natural experiments that reveal tolerated vs non-tolerated variation.
How does this help with VUS?
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VUS occurring naturally in multiple primates are likely benign. Their absence across all species suggests functional importance.
How does this compare to prediction models?
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Models estimate risk. Evolution shows empirical truth from biological history.
Is evolutionary data reliable?
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Comparative genomics is one of the most reproducible and validated approaches for identifying functional constraint.
Can I try CodeXome before subscribing?
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Yes, curated gene sets are available for free evaluation.
If you have any further questions or just want to reach our team, click the button below.
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