GENXMAP offers a single-cell RNA sequencing (ScRNAseq) service, providing a detailed view of gene expression at the cellular level from tissues or cell populations. This method allows for the analysis of RNA levels, identification of differentially expressed genes, and exploration of complex mechanisms like genetic regulation, enabling a deep understanding of biological processes.
GENXMAP supports clients at every step of ScRNAseq, from sample preparation to data analysis. We provide technical advice to ensure sample quality, perform high-precision sequencing using advanced technologies, and offer tools for result interpretation. This integrated approach maximizes the impact of research by providing personalized support throughout the process.
Pure RNA, Unlocking Precision Analysis
Reveal Cellular Heterogeneity
Explore cellular heterogeneity effortlessly with our single-cell RNA sequencing service. Benefit from optimal resolution to uncover details that are inaccessible with bulk analyses.
A range of advanced technologies
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10X Genomics: Offers high-throughput and scalable solutions to analyze thousands of cells per sample, providing detailed insights into gene expression within large cell populations. (Used for mice and humans)
Advantages of scRNAseq
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Cellular resolution: Analyze gene expression in individual cells, revealing cellular heterogeneity that would be masked by bulk RNA-Seq, and highlighting the complexity of tissue samples.
GENXMAP, your trusted partner to support you in your research.
Optimized and Transparent Services
Our Go/No-Go processes allow you to track the progress of your project in real-time. At each stage, you validate the transition to the next, ensuring complete control and maximum transparency throughout the entire process.
Our optimized timelines ensure fast and efficient execution of each project while meeting your specific requirements. This system ensures proactive time management, minimizing delays and maximizing productivity to deliver results that align with your expectations.
Our tailored processes are designed to meet the unique needs of each project, offering flexibility and personalized follow-up. This system ensures rigorous control while delivering accurate results that align with your expectations.
Our detailed analyses guarantee reliable and in-depth results tailored to each study. With cutting-edge tools and proven methodologies, we provide a precise understanding of genetic data, while adhering to the highest standards of quality and scientific rigor.
Service Details
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We clearly define your scientific objectives to guide your study, whether it's analyzing specific markers through RT-qPCR or exploring further with analyses like Bulk RNA-seq or single-cell RNA-seq. Each approach is tailored to your needs to maximize the relevance and accuracy of the results.
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You specify the types of samples you wish to analyze (tissues, cells, environmental samples, etc.), allowing us to adapt the extraction process to ensure the quality and accuracy of the results.
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Selection of Methodology: Based on your objectives, we advise on the most appropriate method for extraction and whether to choose an exploratory or targeted approach.
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Project Planning and Customization:
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Targeted or Global Sequencing: If necessary, we develop a specific panel to target particular genes or groups of interest or choose a global approach to analyze overall genetic diversity.
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Estimation of Budget and Timeline:
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Budget Validation: We provide a clear cost estimate for the project based on the chosen methodology, the number of samples, and the selected analysis technique.
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Timeline Planning: We share an estimated timeline for sample preparation and transcriptomic analyses (exploratory or targeted), with regular checkpoints to track progress.
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Ongoing Support and Follow-up:
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Ongoing Support: Once the project is launched, we assist you throughout the process, from raw data collection to bioinformatics support for result interpretation, with customized reports and recommendations for next steps.
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Technologies available for scRNAseq:
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10X Genomics
High-Throughput Sequencing (Next-Generation Sequencing - NGS):
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NovaSeq (Illumina)
Advantages:
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Fast and accurate sequencing of large amounts of DNA from various environmental or biological sources.
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Provides high coverage and depth for precise detection of microorganisms present.
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Step 0 >> Sample Reception Control
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Visual evaluation of quantity and quality
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Report and client decision "Go / No-Go" for the next step
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Step 1 >> Sample Preparation
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Isolation of individual cells from tissues or cell cultures (fresh or fixed).
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Cell encapsulation or separation: Capturing individual cells using technologies like microfluidics, droplets, or multi-well plates.
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Cell lysis: Extraction of messenger RNA (mRNA) from each cell.
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Reverse transcription: Conversion of mRNA into complementary DNA (cDNA).
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Barcoding and amplification: Adding specific barcodes to identify individual cells and amplifying the cDNA.
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Step 2 >> Library Preparation
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Library construction: Preparing cDNA fragments for sequencing, including the addition of adapters.
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Quality control (Qubit, Fragment analyzer).
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Step 3 >> Sequencing
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Sequencing cDNA using high-throughput sequencing platforms. Depending on the chosen technology (Illumina, Oxford Nanopore), sequencing is performed on the appropriate platform.
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Step 4 >> Real-Time Quality Control
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Monitoring the sequencing process to ensure no technical errors and guarantee the quality of the generated data.
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Step 5 >> Data Analysis
We offer various levels of analysis: primary, secondary, or tertiary depending on your needs. With our partners, we offer different types of analysis, such as:-
Data Quality: Checking the quality of sequences (raw sequence control, detection of relevant cells and genes, exclusion of dead or damaged cells).
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Filtering and Normalization: Removing technical artifacts and adjusting data for reliable comparisons between cells.
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Dimensionality Reduction: Using methods like PCA (Principal Component Analysis), t-SNE, or UMAP to visualize global variations in the data.
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Cellular Clustering: Identifying groups of cells with similar gene expression profiles, often corresponding to distinct cell types or states.
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Marker Identification: Detecting genes specific to different clusters or cell types.
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Differential Analysis: Comparing gene expression levels between conditions, clusters, or cell types.
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Cell Type Annotation: Assigning cell identities based on known markers or databases.
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Cell Trajectory and Pseudotime: Studying transitions and dynamic processes (e.g., cell differentiation) using algorithms like Monocle or Slingshot.
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Pathway and Network Analysis: Exploring biological pathways, molecular interactions, and functional processes associated with specific clusters.
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Intercellular Interactions: Identifying potential communications between cells through analysis of ligands and receptors (tools like CellPhoneDB or CellChat).
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Cross-Sample Comparison: Studying variations between different samples, experimental conditions, or species.
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For more information, feel free to visit our "Bioinformatics & Biostatistics Analysis" page.
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Step 6 >> Result Delivery
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Result Formats: Providing raw files (FASTQ), plus detailed bioinformatics analysis reports (if selected).
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Delivery Methods: Access via a secure online platform, email delivery, or a results presentation meeting.
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Follow-Up and Support: Post-delivery assistance for clarifications, revisions, or additional analyses.
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Delivery Timeframe: Typically between 3 to 6 weeks, depending on the project's complexity.
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scRNAseq on fresh or fixed cells
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