Phenosystems
Phenosystems SA, founded in 2002, develops bioinformatics interpretation software (Gensearch, GensearchNGS, GensearchHIV, GensearchVET, GensearchGT) for molecular genetics and genomics laboratories across Europe, serving diagnostic, infectious disease, veterinary, and academic research users without requiring dedicated bioinformatics expertise.
- Company typePrivate
- Founded2002
- HeadquartersBlonay, Switzerland
- Headcount1–10
- GTM typeB2B
- OfferingSoftware
What Phenosystems does
Phenosystems SA is a privately held bioinformatics software company founded in 2002 that develops interpretation and analysis tools for molecular genetics and genomics laboratories. Its flagship Gensearch platform — alongside specialized variants GensearchNGS (next-generation sequencing), GensearchHIV (HIV resistance interpretation using ANRS algorithms), GensearchVET (veterinary genetics), and GensearchGT (genotyping) — provides biologists, geneticists, and clinicians with workflows for DNA and RNA sequence interpretation without requiring dedicated bioinformatics expertise. Core technical components include proprietary heterozygous variant detection algorithms, ACMG/AMP-compliant variant classification, and curated integrations with public reference databases such as ClinVar, OMIM, and HPO, with newer releases extending into RNAseq, DNA methylation, and ClinVar submission.
The company's business model is enterprise sales-led with quote-based pricing targeting molecular diagnostics laboratories, infectious disease labs, veterinary genetics labs, and academic research groups primarily across Belgium, Switzerland, France, and Germany. Revenue is generated through software licensing, with historical adjacency to EU-funded research consortia (FP7 projects) functioning as both validation channel and modest demand source. A 2020 collaboration with PMCR GmbH extended the addressable surface into multi-omics and precision medicine, and 2020 free SARS-CoV-2 licenses were deployed as a customer-acquisition and goodwill play during the COVID-19 pandemic.
Operationally, Phenosystems is a small, mature European microcap: there are no public disclosures of headcount, revenue, or funding rounds. Its growth to date has come from incremental product-line broadening within a stable core market rather than from geographic or segment scaling. No AI/ML-native capabilities are evident; the stack is built on rule-based bioinformatics logic layered over public reference data, which is both a defensible domain specialization and a potential feature-gap risk as ML-enabled clinical interpretation tools emerge.
Phenosystems firmographics
Firmographics- Name
- Phenosystems
- Legal name
- Phenosystems SA
- Website
- https://phenosystems.com
- Company type
- Private
- Founded year
- 2002
- Operating status
- Operating
- Headcount range
- 1–10 employees
- Short description
- Phenosystems SA, founded in 2002, develops bioinformatics interpretation software (Gensearch, GensearchNGS, GensearchHIV, GensearchVET, GensearchGT) for molecular genetics and genomics laboratories across Europe, serving diagnostic, infectious disease, veterinary, and academic research users without requiring dedicated bioinformatics expertise.
- Ownership category
- akta.pro rank
Phenosystems industry classification
Industry- Product category
- Bioinformatics Software
- NAICS
- Software Publishers (5132), Research and Development in Biotechnology (except Nanobiotechnology) (541714), Scientific Research and Development Services (5417)
- SIC
- Services-Prepackaged Software (7372), Services-Commercial Physical & Biological Research (8731)
- akta.pro primary industry
- Bioinformatics & Multi-omics Analysis Software (HLAGAJAD)
- akta.pro secondary industry
- Bioinformatics, Multi-Omics Data Analysis & Interpretation Services (HLAGANAI)
Keywords
Where Phenosystems is headquartered
LocationHeadquarters
- HQ city
- Blonay
- HQ country
- Switzerland
- HQ region
- Europe
Offices2 records
Markets served
Phenosystems business model
Business model- GTM type
- B2B
- Offering type
- Software
- Cost components
- Personnel, Technology or R&D, Operations, Marketing or Sales, Infrastructure
Revenue model
- Software Licenses and Support: Commercialization of software products throughout Europe including Gensearch, GensearchNGS, GensearchHIV, GensearchVET, GensearchGT. Products are sold with support and maintenance contracts, with demo versions available for evaluation.
- Commercial Support Services: Commercial support services for Mutalyzer local installation, including installation, maintenance and updates at customer facilities.
- Custom Software Development: Custom solutions developed together with customers, ranging from additional modules to existing products (LIMS communication) to full development of new software packages.
- European Research Projects: Active SME partner in European research projects funded by the European Union (FP7, Horizon2020) as well as other funding agencies.
Pricing tiers
| Model | Billing | Price |
|---|---|---|
| Subscription | Annual | Enterprise diagnostics laboratory licensing |
| Freemium | Pay-as-you-go | Demo/Trial versions |
| Subscription | Annual | Mutalyzer Commercial Support |
| Freemium | Pay-as-you-go | eMLPA Academic Use |
Go-to-market motion2 records
Distribution channels1 record
Marketing channels4 records
Phenosystems product offering
Product offeringCore offering
Phenosystems develops and commercializes specialized bioinformatics software for molecular genetics and genomics analysis. Its flagship offerings are Gensearch for capillary sequencer data analysis and GensearchNGS for next-generation sequencing workflows, complemented by domain-specific tools (GensearchHIV, GensearchVET, GensearchGT, eMLPA) and Mutalyzer commercial support. Products are sold via annual subscriptions with support and maintenance to accredited diagnostics laboratories, universities, and public hospitals across Europe.
Product overview
Phenosystems offers a portfolio of specialized bioinformatics software products for molecular genetics and genomics analysis. The core offerings include Gensearch (for capillary sequencer data analysis) and GensearchNGS (for next-generation sequencing data analysis), which serve as the primary platforms. These are complemented by domain-specific products: GensearchHIV for HIV resistance prediction, GensearchVET for veterinary genetics, and GensearchGT as an optional genotyping module for SNP analysis. Additional tools include Mutalyzer support for HGVS nomenclature validation, eMLPA for MLPA analysis, and the Genetic Variant Interpretation Tool (ACMG/AMP) available in French and Czech translations. The products integrate with major bioinformatics databases (Ensembl, ClinVar, OMIM, HPO, Orphanet) and support various sequencing platforms including Illumina, Ion Torrent, Roche/454, and Sanger capillary sequencers.
Differentiator
Problem solved
Functional benefit
Brands
- Gensearch: DNA sequence analysis software for capillary sequencers designed for molecular diagnostics laboratories, including heterozygous detection, mutation/variant database, and connections to public bioinformatics tools
- GensearchNGS
- GensearchHIV
- GensearchVET
- GensearchGT
- eMLPA
- PMCR
Products and services
- Gensearch DNA sequence analysis software for capillary sequencers designed for molecular diagnostics laboratories. Features proprietary heterozygous detection algorithms, tools for small insertions/deletions analysis, a variant database, and connections to public bioinformatics tools (BLAT, Alamut, Ensembl, dbSNP, ClinVar). Targets biologists, geneticists, and MDs working on DNA and RNA sequences without requiring bioinformatics training.
- GensearchNGS Integrated software solution for analysis of DNA-Seq data from NGS equipment (Illumina, Ion Torrent, Roche/454, Proton). Provides end-to-end workflow including read import/filtering, bar code splitting, alignment, variant detection and annotation, family/trio analysis, CNV detection, and final report generation. Designed for diagnostic settings with user-friendly interface requiring no bioinformatics training.
- GensearchHIV
Quantifiable outcome
- Supports analysis of organisms from virus/bacteria to plants, animals, and human genomes
- +1 more outcomes
Companies that use Phenosystems
Customer profileNamed customers3 records
Segments4 records
Ideal customer profiles4 records
Phenosystems technology and API
TechnologyTechnology focussed Yes
API detail
- Has API
- Yes
- API docs
- API detail
Core technology
AI maturity
App detail
Integration22 records
AI capability8 records
Feature5 records
Phenosystems partnerships and signals
Strategic signalPartnerships
Seven partnerships are on record, tiered minor and core.
- Charles University PragueminoreMLPA was developed by Charles University in Prague and announced at ESHG Barcelona 2008. Phenosystems partners with Charles University to develop further commercial added-value modules based on user requirements.
- PMCR GmbHcorePhenosystems collaborates with PMCR GmbH based in Karlsruhe, Germany. PMCR offers peptide-based immunotherapies against cancer and infectious diseases based on integrated individual multi-omics-analysis pipelines including BITAP (targeted immune activation against cancer), BIVAP (T-cell immunisation against infectious diseases), and BISS (Bioinformatics, integrated Multi-Omics Software solutions). This partnership enables expansion from sequence analysis to multi-omics knowledge and treatment options.
- University of LeicestercorePhenoSystems participated in Gen2Phen project with University of Leicester to support information exchange between molecular diagnostics laboratories and the research community. Together they developed the concept of a mutation marketplace to facilitate exchange of information between laboratories and LSDBs, evolving into Cafe Variome.
- LUMC (Leiden University Medical Center)coreLUMC's Mutalyzer Team published their Mutalyzer code allowing free local installation. Phenosystems offers commercial support to install, maintain and update Mutalyzer for facilities uncomfortable with Unix, command lines, MySQL and complex network setups.
- CHU Bichat, PariscoreGensearchHIV was developed in close collaboration with the HIV laboratory of CHU Bichat, Paris, France, allowing analysis of HIV-1 and HIV-2 sequences with interpretation according to ANRS algorithms.
- NMDchip FP7 Project ConsortiumcorePhenoSystems was work package leader for bioinformatics in the NMDchip FP7 project which finished end of 2011. Developed CGH NMD-chips including all known genes for neuromuscular disease diagnostics, validated and proposed as part of diagnostics workflow.
- capHIV FP7 Project ConsortiumminorPhenosystems participates in capHIV project to develop ultra-sensitive detection device for HIV (p24 protein) in blood samples as part of FP7 'Research for SMEs' program.
Scale indicators3 records
Recent moves5 records
Expansion highlights5 records
Phenosystems competitors and assessment
Company assessmentDirect peers
- Congenica: Clinical genomics data analysis platform for rare disease diagnosis with European lab focus; competes with GensearchNGS in clinical variant interpretation and reporting workflows.
- DNASTAR: Sequence analysis software (Lasergene) used in molecular biology and genomics labs; comparable to Gensearch in capillary/Sanger sequence analysis for non-bioinformatician users.
- Golden Helix: Genomic data analysis software (VarSeq, SVS) for variant annotation and clinical reporting; overlaps with GensearchNGS in NGS interpretation for diagnostics labs.
- Fabric Genomics (formerly Omicia): Clinical genomics interpretation platform for NGS-based rare disease and oncology diagnostics; provides ACMG/AMP-based variant classification overlapping with GensearchNGS capabilities.
- Partek (Partek Flow): Genomics analysis software suite for NGS data including variant detection, RNA-seq, and clinical applications; overlaps with GensearchNGS in integrated NGS workflow capabilities.
- Sophia Genetics: AI-powered genomics platform for molecular diagnostics serving hospitals and labs across Europe and beyond; competes with GensearchNGS in clinical DNA-Seq variant interpretation workflows.
- Geneious (Biomatters): Molecular biology sequence analysis platform (Geneious Prime) widely used in research and applied genomics labs; competes with Gensearch in user-friendly DNA sequence analysis workflows.
- Alamut (SOPHiA GENETICS): Variant interpretation and decision-support software widely used in clinical genetics labs; comparable to Gensearch's variant interpretation tooling for diagnostics workflows.
Broad incumbents
- Illumina (BaseSpace Sequence Hub): Sequencer vendor bundling cloud-based NGS analysis tools (BaseSpace, DRAGEN) into its instrument ecosystem, creating competitive pressure on standalone diagnostics software like GensearchNGS.
- QIAGEN (Digital Insights / Clinical Insight): QIAGEN's bioinformatics arm offers clinical NGS interpretation and variant analysis software (QCI) competing directly with GensearchNGS in molecular diagnostics labs, but at much larger scale and with global reach.
Market position
Strengths5 records
Weaknesses5 records
Competitive moat4 records
Key risks6 records
Key highlights6 records
Customer concentration
Phenosystems social profiles
Digital presencePhenosystems financial estimates
Financial estimateRevenue estimate
Valuation estimate
Phenosystems leadership team
Management profileNumber of profiles
Phenosystems funding detail
Funding detailFunding overview
Funding rounds
Investors
Funding detail is available on the Subscription and Enterprise plan.Contact sales →
Phenosystems M&A and investment
M&A and investmentM&A
Investments
M&A and investment is available on the Subscription and Enterprise plan.Contact sales →
Frequently asked questions about Phenosystems
What does Phenosystems do?
Phenosystems develops and commercializes specialized bioinformatics software for molecular genetics and genomics analysis. Its flagship offerings are Gensearch for capillary sequencer data analysis and GensearchNGS for next-generation sequencing workflows, complemented by domain-specific tools (GensearchHIV, GensearchVET, GensearchGT, eMLPA) and Mutalyzer commercial support. Products are sold via annual subscriptions with support and maintenance to accredited diagnostics laboratories, universities, and public hospitals across Europe.
Is Phenosystems a public or private company?
Phenosystems is a private company. It is classified as unknown and is currently operating.
When was Phenosystems founded?
Phenosystems was founded in 2002. It employs 1 to 10 people.
Where is Phenosystems based?
Phenosystems is headquartered in Blonay, Switzerland, in the Europe region.
How does Phenosystems make money?
Four revenue lines are on record. Software Licenses and Support is the primary driver. The others are commercial Support Services, custom Software Development and european Research Projects.
Who are Phenosystems's main competitors?
Direct peers on record are Congenica, DNASTAR, Golden Helix, Fabric Genomics (formerly Omicia), Partek (Partek Flow), Sophia Genetics, Geneious (Biomatters) and Alamut (SOPHiA GENETICS). Broad incumbents are Illumina (BaseSpace Sequence Hub) and QIAGEN (Digital Insights / Clinical Insight).
Does Phenosystems have an API?
Yes. ClinVar submission API implemented into Gensearch and GensearchNGS products to replace the old FTP style semi-automatic submission tool for submitting variant data to ClinVar database.
What industry is Phenosystems in?
Phenosystems's product category is Bioinformatics Software. Its primary akta.pro industry code is HLAGAJAD, Bioinformatics & Multi-omics Analysis Software, with a secondary code of HLAGANAI, Bioinformatics, Multi-Omics Data Analysis & Interpretation Services. Its NAICS code is 5132 and its SIC code is 7372.