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AltraBio SAS

Lyon, FR

AltraBio is an R&D company expert in analysis and interpretation of biomedical data in both preclinical and clinical development. Particularly focused on OMICS and Flow/Mass cytometry technologies, the goal of AltraBio is to unlock the value captured in large scale datasets generated in life science experimental studies.

Founded by a team of highly skilled professionals with experience at the interface of biology, medicine, statistics and informatics, AltraBio is well positioned to understand the complex data problems encountered in the life science industry and to address them by creating state-of-the-art techniques and tools.

AltraBio team has extensive experience in statistical modeling, machine learning, data mining and software/database design, as well as educational and professional background in biomedical sciences and medicine. In addition to designing and implementing computational solutions, they... Show more »

AltraBio is an R&D company expert in analysis and interpretation of biomedical data in both preclinical and clinical development. Particularly focused on OMICS and Flow/Mass cytometry technologies, the goal of AltraBio is to unlock the value captured in large scale datasets generated in life science experimental studies.

Founded by a team of highly skilled professionals with experience at the interface of biology, medicine, statistics and informatics, AltraBio is well positioned to understand the complex data problems encountered in the life science industry and to address them by creating state-of-the-art techniques and tools.

AltraBio team has extensive experience in statistical modeling, machine learning, data mining and software/database design, as well as educational and professional background in biomedical sciences and medicine. In addition to designing and implementing computational solutions, they have the knowledge and skills to interpret the results of quantitative analysis in the context of current biomedical knowledge.

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Omics
Price on request

The AltraBio's team implements and develops state-of-the-art and innovative methods for all kinds of omics studies (genomics, transcriptomics, proteomics,...) with a very high expertise in transcriptomics.
The AltraBio's Added Value:
Time-proven and cutting-edge data analysis methodologies: building on the BioConductor... Show more »

The AltraBio's team implements and develops state-of-the-art and innovative methods for all kinds of omics studies (genomics, transcriptomics, proteomics,...) with a very high expertise in transcriptomics.
The AltraBio's Added Value:
Time-proven and cutting-edge data analysis methodologies: building on the BioConductor software packages.
Extensive quality controls: applying its expertise to a wide variety of large-scale biological datasets, AltraBio performs extensive quality controls to identify potential outliers and check for consistency with the experimental design, thus ensuring the relevance and quality of downstream analyses.
Preprocessing and statistical analysis: AltraBio then provides the complete range of preprocessing and statistical analysis services relevant to all current omics technologies (e.g., identification of differentially expressed genes, SNP associations).
Biological pathway approach: in the classical approach, omics analysis typically yields a list of differentially expressed molecules. AltraBio has expanded its statistical models to include analysis based on biological concepts, in which groups of molecules (rather than individual ones) that are informative for the experiment are identified. Besides including the pre-defined categories and annotations from resources such as Gene Ontology (GO), AltraBio has been building a collection of novel sets based on publicly available gene expression data and associated literature.
Biological interpretation: AltraBio's involvement in a project does not end with the generation of a list. Using the integrative, biological pathway-oriented approach, AltraBio analysts interpret the lists in the context of the biological problem the experiment addresses.
Comprehensive report: The final result of AltraBio's work is a comprehensive report summarizing the experimental observations, discussing the biological mechanisms underlying the observed effects and, where appropriate, suggesting follow-up experiments to further elaborate on the results.

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Flow Cytometry Data Analysis
Price on request

AltraBio offers comprehensive services for flow and mass cytometry data analysis from gating to cross-sample analysis. To maximise the value of your experimental results and to speed up your process, AltraBio’s offer covers the entire data analysis workflow from discovery and diagnostic studies to optimization of population... Show more »

AltraBio offers comprehensive services for flow and mass cytometry data analysis from gating to cross-sample analysis. To maximise the value of your experimental results and to speed up your process, AltraBio’s offer covers the entire data analysis workflow from discovery and diagnostic studies to optimization of population identification processes.

Gating step:
Identification of cell populations (unsupervised automated gating), description of identified cell populations (e.g., statistics, hypothesis tests, advanced visualisation)
Automatic and standardised application of your manual gating strategy to the full data of your study thanks to a unique service allowing to free the experimenter from this tedious and time consuming process. This approach possesses numerous advantages:
-> Standardisation of the analysis step
-> Win of time --> 10 min per fcs file and per computer, 24/7 production
-> Win of reliability (reproducibility & accuracy) --> Analyst expertise concentration in the learning files
-> Remove the subjectivity and the variability of manual gating
-> Usable for deep and complexe gating strategies
-> Automation of quality controls and outlier identification

Cross Sample Analyses:
Initial import of raw data & gating workspaces from manual or automated gating, Preprocessing (e.g., compensation, normalization), Data Quality Control
Predictive modeling, correlation identification, advanced visualisation, clustering
Reagent panel selection, gating strategy optimization
+ Gating step:

Identification of cell populations (unsupervised automated gating), description of identified cell populations (e.g., statistics, hypothesis tests, advanced visualisation)

Automatic and standardised application of your manual gating strategy to the full data of your study thanks to a unique service allowing to free the experimenter from this tedious and time consuming process. This approach possesses numerous advantages:

-> Standardisation of the analysis step
-> Win of time --> 10 min per fcs file and per computer, 24/7 production
-> Win of reliability (reproducibility & accuracy) --> Analyst expertise concentration in the learning files
-> Remove the subjectivity and the variability of manual gating
-> Usable for deep and complexe gating strategies
-> Automation of quality controls and outlier identification

  • Cross Sample Analyses:
    # Initial import of raw data & gating workspaces from manual or automated gating, Preprocessing (e.g., compensation, normalization), Data Quality Control
    # Predictive modeling, correlation identification, advanced visualisation, clustering
    # Reagent panel selection, gating strategy optimization
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Mass Cytometry
Price on request

AltraBio offers comprehensive services for flow and mass cytometry data analysis from gating to cross-sample analysis. To maximise the value of your experimental results and to speed up your process, AltraBio’s offer covers the entire data analysis workflow from discovery and diagnostic studies to optimization of population... Show more »

AltraBio offers comprehensive services for flow and mass cytometry data analysis from gating to cross-sample analysis. To maximise the value of your experimental results and to speed up your process, AltraBio’s offer covers the entire data analysis workflow from discovery and diagnostic studies to optimization of population identification processes.

Gating step:
Identification of cell populations (unsupervised automated gating), description of identified cell populations (e.g., statistics, hypothesis tests, advanced visualisation)
Automatic and standardised application of your manual gating strategy to the full data of your study thanks to a unique service allowing to free the experimenter from this tedious and time consuming process. This approach possesses numerous advantages:
-> Standardisation of the analysis step
-> Win of time --> 10 min per fcs file and per computer, 24/7 production
-> Win of reliability (reproducibility & accuracy) --> Analyst expertise concentration in the learning files
-> Remove the subjectivity and the variability of manual gating
-> Usable for deep and complexe gating strategies
-> Automation of quality controls and outlier identification

Cross Sample Analyses:
Initial import of raw data & gating workspaces from manual or automated gating, Preprocessing (e.g., compensation, normalization), Data Quality Control
Predictive modeling, correlation identification, advanced visualisation, clustering
Reagent panel selection, gating strategy optimization
+ Gating step:

Identification of cell populations (unsupervised automated gating), description of identified cell populations (e.g., statistics, hypothesis tests, advanced visualisation)

Automatic and standardised application of your manual gating strategy to the full data of your study thanks to a unique service allowing to free the experimenter from this tedious and time consuming process. This approach possesses numerous advantages:

-> Standardisation of the analysis step
-> Win of time --> 10 min per fcs file and per computer, 24/7 production
-> Win of reliability (reproducibility & accuracy) --> Analyst expertise concentration in the learning files
-> Remove the subjectivity and the variability of manual gating
-> Usable for deep and complexe gating strategies
-> Automation of quality controls and outlier identification

  • Cross Sample Analyses:
    # Initial import of raw data & gating workspaces from manual or automated gating, Preprocessing (e.g., compensation, normalization), Data Quality Control
    # Predictive modeling, correlation identification, advanced visualisation, clustering
    # Reagent panel selection, gating strategy optimization
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Clinical Data Analysis
Price on request

AltraBio provides the complete range of data analysis services relevant to medical data: Machine learning methods; data quality audit, data-mining; power estimation, survival estimation, log rank test, Cox model, complex statistical models; database design and implementation. Characterization of patient populations is of a key... Show more »

AltraBio provides the complete range of data analysis services relevant to medical data: Machine learning methods; data quality audit, data-mining; power estimation, survival estimation, log rank test, Cox model, complex statistical models; database design and implementation. Characterization of patient populations is of a key importance for evaluation of treatment response as well as for establishment of novel diagnostic and predictive criteria. In the "classical" data analysis approach, the goal is to identify variables with values that are significantly different between treatment and control groups. This constitutes an important constraint as, under such hypothesis, both treatment and control groups are considered to be homogeneous. In contrast, AltraBio's initial analysis does not rely on the information on patient (sample) assignment (i.e., the “a priori” knowledge of the population structure). This enables characterization of subpopulations within phenotypically defined groups (e.g., within a group of drug non-responders or within a group of patients sharing a diagnosis based on histological or cytogenetic criteria). In addition, panels of biomarkers defining such subpopulations can be identified. Application of this principle can lead to identification of new diagnostic and predictive patient classes that are distinct from previously established categories and are based on understanding of the molecular mechanisms of pathology or drug response.
Gating step:
Identification of cell populations (unsupervised automated gating), description of identified cell populations (e.g., statistics, hypothesis tests, advanced visualisation)
Automatic and standardised application of your manual gating strategy to the full data of your study thanks to a unique service allowing to free the experimenter from this tedious and time consuming process. This approach possesses numerous advantages:
-> Standardisation of the analysis step
-> Win of time --> 10 min per fcs file and per computer, 24/7 production
-> Win of reliability (reproducibility & accuracy) --> Analyst expertise concentration in the learning files
-> Remove the subjectivity and the variability of manual gating
-> Usable for deep and complexe gating strategies
-> Automation of quality controls and outlier identification

Cross Sample Analyses:
Initial import of raw data & gating workspaces from manual or automated gating, Preprocessing (e.g., compensation, normalization), Data Quality Control
Predictive modeling, correlation identification, advanced visualisation, clustering
Reagent panel selection, gating strategy optimization

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Biostatistics & Bioinformatics
Price on request

Bioinformatic tools developed have been designed to serve at each step of the research and development process in the concerted effort to turn the vast collection of data into strategic and actionable knowledge:
Web-based solutions for data and knowledge storage, extraction and browsing (e.g., WikiBioPath, APLims):
WikiBioPath... Show more »

Bioinformatic tools developed have been designed to serve at each step of the research and development process in the concerted effort to turn the vast collection of data into strategic and actionable knowledge:
Web-based solutions for data and knowledge storage, extraction and browsing (e.g., WikiBioPath, APLims):
WikiBioPath allows users to analyze, integrate and understand their experimental data (e.g., microarrays, RNAseq). Using WikiBioPath, one can search for targeted information on genes, proteins and their functional evidence extracted from unstructured textual knowledge repositories such as MEDLINE. WikiBioPath is further enriched by interactive data visualization tools which allow biologists to explore their experimental data and analyses results.
APLims is a Laboratory Information Management System with specific features to support modern laboratories operations:
-> workflow and data tracking support
-> data exchange interfaces
-> laboratory notebook replacement

Innovative approaches and proprietary tools and methods for enhanced data analyses.
Up to date open source technologies (e.g., Ruby On Rails, Javascript (Jquery), HTML, PostgreSQL, MySQL, SQLite, R/BioConductor)
Emphasis on the compatibility with commonly used solutions (e.g., Cytoscape, BioConductor)
Used by Altrabio, by partners/clients (e.g., experimental scientists, bioinformaticians, life science data analysts)

AltraBio also proposes a unique proprietary approach allowing to automatically apply your manual gating strategy to the full data of your study and free the experimenter from this tedious and time consuming process. This approach possesses numerous advantages:
Standardisation of the analysis step
Win of time --> 10 min per fcs file and per computer, 24/7 production
Win of reliability (reproducibility & accuracy) --> Analyst expertise concentration in the learning files
Remove the subjectivity and the variability of manual gating
Usable for deep and complexe gating strategies
Automation of quality controls and outlier identification
+ Web-based solutions for data and knowledge storage, extraction and browsing (e.g., WikiBioPath, APLims):

WikiBioPath allows users to analyze, integrate and understand their experimental data (e.g., microarrays, RNAseq). Using WikiBioPath, one can search for targeted information on genes, proteins and their functional evidence extracted from unstructured textual knowledge repositories such as MEDLINE. WikiBioPath is further enriched by interactive data visualization tools which allow biologists to explore their experimental data and analyses results.

APLims is a Laboratory Information Management System with specific features to support modern laboratories operations:

-> workflow and data tracking support
-> data exchange interfaces
-> laboratory notebook replacement

  • Innovative approaches and proprietary tools and methods for enhanced data analyses.

    Up to date open source technologies (e.g., Ruby On Rails, Javascript (Jquery), HTML, PostgreSQL, MySQL, SQLite, R/BioConductor)

    Emphasis on the compatibility with commonly used solutions (e.g., Cytoscape, BioConductor)

    Used by Altrabio, by partners/clients (e.g., experimental scientists, bioinformaticians, life science data analysts)

  • AltraBio also proposes a unique proprietary approach allowing to automatically apply your manual gating strategy to the full data of your study and free the experimenter from this tedious and time consuming process. This approach possesses numerous advantages:

    Standardisation of the analysis step

    Win of time --> 10 min per fcs file and per computer, 24/7 production

    Win of reliability (reproducibility & accuracy) --> Analyst expertise concentration in the learning files

    Remove the subjectivity and the variability of manual gating

    Usable for deep and complexe gating strategies

    Automation of quality controls and outlier identification

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Microarray Data Analysis
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RNA-Seq Data Analysis
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miRNA-Sequencing Data Analysis
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SNP Genotyping Data Analysis
Single nucelotide polymorphism genotyping data analysis
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Whole Genome Assembly
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NGS Data Analysis
Next generation sequencing data analysis
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Gene Set Enrichment Analysis
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Metagenomics Data Analysis
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Cytometry
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Cytometry Services

Cytometry Services

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Cells and Tissues
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Cells and Tissues Services

Cells and Tissues Services

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Flow Cytometry
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Data Analysis
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Data Analysis Services

Data Analysis Services

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Statistical Analysis
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Statistical Analysis Services

Statistical Analysis Services

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