BionomeeX

What BionomeeX does

BionomeeX SAS is a French DeepTech AI company founded in 2020 as a CNRS and University of Montpellier spin-off, headquartered in Montpellier with 1-10 employees. The company develops AI-powered computational solutions for biological image analysis and next-generation genomics, built on a core technology stack combining compressed sensing and GPU-accelerated computing. Its product portfolio comprises four core platforms: Luxiol (AI-assisted image analysis for microscopy and cellular imaging with detection, segmentation, quantification, and tracking capabilities), Ultim (high-performance pipelines for multi-omics data integration and spatial genomics), GWAS 2D (multidimensional genomic association analysis mapping over 80 billion epistatic SNP interactions, validated by publication in Genome Biology in March 2024), and HiXloop (Human-in-the-Loop annotation platform for biological and molecular images). These are complemented by the LuXiol visualization platform co-funded by BPI France and specialized tools including DeepIron (iron localization in plant cells) and SptPALM AI Enhancement.

The company operates a project-based professional services revenue model with no online purchasing channel; all commercial interactions are handled through direct sales engagement, with formal quotations or service agreements specifying scope, deliverables, timelines, and pricing. Target customers include university research laboratories, university hospitals and clinical research centers, agricultural companies and crop breeders, and environmental and ecological organizations. Named engagements span CHU de Bordeaux and CHU Sainte-Justine (Montreal) for human disease genetics, HZPC for potato breeding, Michigan State University for plant nutrient biology, and CEFE for forest climate adaptation research. Geographic reach includes France, Switzerland, Canada, and the United States.

Scientific credibility is anchored in co-founder Gabriel Krouk's status as a Clarivate Highly Cited Researcher (2020, 2021, 2022, 2024) and CNRS Research Director, co-founder André Mas's position as Professor of Mathematics at University of Montpellier, the DeepTech label from Bpifrance, French Young Innovative Company status, and active ANR-funded collaborations with CNRS, CEA, INRAE, CBGP, and multiple universities. No funding rounds, revenue figures, or headcount growth data are disclosed in available sources.

Name

BionomeeX

Legal name

BionomeeX SAS

Website

https://bionomeex.com

Company type

Private

Founded year

2020

Operating status

Operating

Headcount range

1–10 employees

Short description

BionomeeX is a French DeepTech AI spin-off of CNRS and the University of Montpellier that develops AI tools for biological image analysis and epistatic genome-wide association studies, serving research institutions, university hospitals, agricultural companies, and ecological organizations across Europe and North America.

Ownership category

akta.pro rank

Product category

AI Bioinformatics Software

NAICS

Research and Development in Biotechnology (except Nanobiotechnology) (541714), Software Publishers (51321)

SIC

Services-Commercial Physical & Biological Research (8731)

akta.pro primary industry

Bioinformatics & Multi-omics Analysis Software (HLAGAJAD)

akta.pro secondary industries

AI/ML Platforms for Drug Discovery & Experiment Optimization (HLAGAJAO), Bioinformatics, Multi-Omics Data Analysis & Interpretation Services (HLAGANAI), Target Identification & Validation Platforms (omics-driven, chemoproteomics, genetic validation) (HLAAAIAI)

Keywords

• AI bioinformatics software
• Biological image analysis
• Genomic data analytics
• Computational biology tools
• Multi-omics interpretation

Headquarters

HQ city

Montpellier

HQ country

France

HQ region

Europe

Offices1 record

Markets served

GTM type

B2B

Offering type

Software

Cost components

Personnel, Technology or R&D, Marketing or Sales, Operations, Infrastructure

Revenue model

1. Project-based AI Services: Custom bioinformatics and AI-powered analysis services for research in biology, health, and environmental sciences. Commercial interactions handled through formal quotations or service agreements specifying scope, deliverables, timelines, and pricing. No direct online purchasing available; all engagements begin with direct contact and consultation.

Go-to-market motion1 record

Distribution channels1 record

Marketing channels6 records

Core offering

BionomeeX develops AI-powered software solutions for biological image analysis, genome-wide association studies (GWAS), and multi-omics data interpretation for research in life sciences, health, and genetics. Its portfolio includes Luxiol (microscopy image analysis), Ultim (multi-omics integration), GWAS 2D (epistatic interaction mapping), HiXloop (Human-in-the-Loop image annotation), and LuXiol (epistatic map visualization), delivered through custom project-based engagements with research institutions, university hospitals, agricultural companies, and environmental organizations.

Product overview

BionomeeX is a DeepTech company offering AI-powered solutions for life sciences, health, and genetics research. The portfolio consists of four core products: Luxiol (AI image analysis for microscopy), Ultim (multi-omics data integration pipelines), GWAS 2D (epistatic interaction mapping for genomics), and HiXloop (AI annotation platform with Human-in-the-Loop refinement). These products are complemented by LuXiol visualization software for GWAS-2D results. The platform supports detection, segmentation, quantification, and tracking across biological imaging modalities (microscopy, MRI, CT, ultrasound, radiology, drone imagery) and genomic analysis for human disease genetics, agricultural breeding, and environmental research.

Differentiator

Problem solved

Functional benefit

Brands

• Luxiol: AI-assisted image analysis for microscopy and cellular imaging
• Ultim
• GWAS 2D
• HiXloop
• LuXiol
• DeepIron

Products and services

• Luxiol AI-assisted image analysis platform for microscopy and cellular imaging. Enables automated detection, segmentation, quantification, and tracking of biological structures in high-resolution microscopy images for research laboratories and biotech companies.
• GWAS 2D Multidimensional genomic association analysis using interaction mapping. Analyzes over 80 billion pairwise SNP interactions to map epistatic interactions and identify genetic combinations driving complex traits in humans, plants, and animals. Published in Genome Biology (2024).
• HiXloop AI-powered annotation and analysis platform for biological and molecular images with Human-in-the-Loop refinement. Enables fast, accurate annotation of large image datasets through iterative AI-human collaboration. Used for chromatin interaction analysis, spatial genomics, and general biological image processing.
• Ultim High-performance pipelines for data integration and multi-omics interpretation. Supports nuclear gene regulation studies and spatial genomics analysis in plant cell biology.
• LuXiol Interactive visualization software for navigating GWAS-2D output. Functions as a 'Google Earth' for full epistatic maps, organizing approximately 500GB datasets in zoomable layers from genome-wide overview down to individual SNP pairs. Co-funded by BPI France.

Quantifiable outcome

• Analysis of 80 billion SNP interactions completed in hours (vs years for conventional approaches)
• +4 more outcomes

Named customers5 records

Segments4 records

Ideal customer profiles4 records

Technology focussed Yes

API detail

Has API

No

API docs

API detail

Core technology

AI maturity

App detail

AI capability6 records

Feature8 records

Partnerships

16 partnerships are on record, tiered core and major.

• CNRScoreStrategic or Co-development PartnerFounding research institution and ongoing strategic partner. Gabriel Krouk, CSO and co-founder, is a Research Director at CNRS. BionomeeX is an official CNRS spin-off with technology originally developed within CNRS research infrastructure. Active collaborations with IPSiM (Institut des Sciences des Plantes de Montpellier), CBGP, and CEFE laboratories.
• CEAcoreStrategic or Co-development PartnerProject partner in the ULTIM ANR project led by Dr. Laurent Nussaume at CEA Cadarache. BionomeeX deploys deep learning-based image analysis for plant and cellular biology research.
• INRAEcoreStrategic or Co-development PartnerKey institutional research partner. CBGP (Centre de Biologie pour la Gestion des Populations) is an INRAE-affiliated laboratory collaborating on pest detection, insect taxonomy, and ladybug color morph research.
• CBGPcoreStrategic or Co-development PartnerMultiple active collaborations including: (1) NGS-OLICIT ANR project for pest-parasitoid detection on citrus and olive crops; (2) Insect taxonomy via AI-based image analysis; (3) Ladybug color morph study combining population genetics and computer vision.
• CHU de BordeauxcoreStrategic or Co-development PartnerUniversity hospital collaboration applying 2D-GWAS to complex disease genetics research, identifying epistatic genetic architecture underlying diseases where no single variant explains observed risk.
• CHU Sainte-Justine (Montreal)coreStrategic or Co-development PartnerInternational collaboration with one of North America's largest mother-child university hospital centers on genetic disease prediction, applying GWAS-2D to pediatric and inherited disease genetics.
• HZPCcoreStrategic or Co-development PartnerWorld-leading potato breeding company collaborating on 2D-GWAS analysis of potato genetics to identify combinations linked to key agronomic traits including drought resistance and yield.
• Michigan State UniversitycoreStrategic or Co-development PartnerCollaboration with Rouached Lab applying AI to understand plant nutrient regulation and signaling, with direct agricultural implications for crop efficiency in phosphorus and nitrogen absorption.
• CEFEcoreStrategic or Co-development PartnerCentre d'Écologie Fonctionnelle et Évolutive collaboration on 2D-GWAS in beech trees, analyzing genetic architecture of traits linked to forest adaptation and resilience.
• Université de MontpelliercoreStrategic or Co-development PartnerFounding institution and spin-off origin. André Mas, co-founder, is Professor of Mathematics at Institut Alexander Grothendieck. Company maintains ongoing collaborative relationships with university research units.
• Université de GenèvemajorStrategic or Co-development PartnerCollaboration with Marie Barberon Lab on plant molecular biology and genetic research.
• Université de Perpignan / UPVDmajorStrategic or Co-development PartnerPartner in DropHeno project for high-throughput forest phenotyping using drone-based AI image analysis.
• Institut Agro MontpelliermajorStrategic or Co-development PartnerCo-supervisory institution on joint research units including IPSiM and CBGP. Alignment with agronomy and digital technology research programs.
• BioDivWindmajorStrategic or Co-development PartnerCo-development of AI-powered real-time monitoring system for bird detection near wind turbines, enabling live collision risk assessment and turbine response.
• AbbelightmajorTechnology or IntegrationProject partner focused on accelerating SMLM (single-molecule localization microscopy) image analysis with AI.
• SATT AxLRcoreTechnology or IntegrationRegional technology acceleration body that licensed BionomeeX's founding technology (AI-enhanced super-resolution microscopy) to the company in August 2020.

Scale indicators4 records

Recent moves7 records

Expansion highlights5 records

Broad incumbents

• Schrödinger: Computational platform combining physics-based simulation with AI/ML for molecular discovery and life sciences research. Comparable to BionomeeX in applying AI to biological problems across pharma and life sciences, though at much larger scale and broader scope.
• Owkin: AI platform for medical research leveraging federated learning on patient data from hospitals. Comparable to BionomeeX in serving university hospitals with AI for genomic/clinical research, though focused on pharma outcomes rather than basic research.
• Benchling: Cloud-based platform for life sciences R&D, including molecular biology, genomics, and lab informatics. Comparable to BionomeeX in serving research institutions and biotech with software for biological data analysis, but at significantly greater scale and product maturity.
• Recursion: AI-driven drug discovery platform combining high-throughput biology with machine learning. Comparable to BionomeeX in applying AI to biological image analysis (high-content screening) and genomics, though focused on pharma R&D rather than academic research.
• Tempus Labs: AI-enabled precision medicine platform combining multi-omics data with clinical records for research and clinical care. Comparable to BionomeeX's multi-omics pipelines and university-hospital target customers, but at much larger scale.
• Insitro: AI/ML platform combining induced pluripotent stem cell biology with machine learning for drug discovery. Comparable to BionomeeX in applying ML to biological data, though focused on pharma target identification rather than broad academic research.

Direct peers

• Dotmatics: Scientific informatics platform for R&D workflows in life sciences, including biology, chemistry, and multi-omics. Comparable to BionomeeX's broader portfolio (Luxiol, Ultim, HiXloop) in serving research labs with integrated data analysis software.
• SOPHiA GENETICS: AI-driven genomics and clinical genomics platform used by hospitals and research institutions worldwide. Directly comparable to BionomeeX's GWAS-2D and multi-omics capabilities, with similar target customers (university hospitals, clinical research) and similar technology (AI/ML on genomic data).
• DNAnexus: Cloud-based bioinformatics platform for genomic and biomedical data analysis, serving research institutions and pharma. Comparable to BionomeeX's genomics and multi-omics (Ultim) offerings, with overlapping customer base of academic medical centers and research consortia.

Emerging players

• Abbelight: Developer of single-molecule localization microscopy (SMLM) instruments and software. Listed as BionomeeX's project partner and comparable in the microscopy/AI image analysis space, particularly around SptPALM AI enhancement.

Market position

Strengths5 records

Weaknesses4 records

Competitive moat5 records

Key risks6 records

Key highlights6 records

Customer concentration

• LinkedInlinkedin.com/company/bionomeex
• Xx.com/BionomeeX

Revenue estimate

Valuation estimate

Number of profiles

Profiles2 records

Funding overview

Funding rounds

Investors

Funding detail is available on the Subscription and Enterprise plan.Contact sales →

M&A

Investments

M&A and investment is available on the Subscription and Enterprise plan.Contact sales →

Frequently asked questions about BionomeeX