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SINGLE-CELL RNA SEQUENCING

Mastered techniques and know-how

5 Years of Experience

Data delivery in 6 weeks 

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Single-cell RNA sequencing (scRNA-seq) technologies allow deep analysis of gene expression at single-cell resolution, which greatly revolutionizes transcriptomic studies. Compared with traditional bulk sequencing technology, single-cell technologies have the advantages of detecting heterogeneity among individual cells, distinguishing a small number of cells, and delineating cell maps. Nowadays, single-cell sequencing technology is increasingly used in various fields. 

Our single-cell transcriptomic technologies available :

Most Cited Technology

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Single-Cell Gene Expression

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Single-Cell Immune Profiling

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Fixed RNA profiling

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scRNA-seq technology allows you to analyze transcriptomes on a cell-by-cell basis using microfluidic partitioning to capture single cells and prepare barcoded, next-generation sequencing (NGS) cDNA libraries.

Single-cell RNA sequencing workflow (10x Genomics) :

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GENXMAP offers you three of these solutions as a End-to-End service :

  • Single Cell Gene Expression

  • Single Cell Immune Profiling

  • Fixed RNA profiling

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Single Cell Gene Expression**

Single Cell Gene Expression provides users single cell transcriptome 3' gene expression in tens of thousands of cells. Scale experiments up or down with low-throughput and high-throughput solutions.
 
Features of our Single cell Gene expression service :
  • Obtain 3’ gene expression data from fresh or cryopreserved samples
  • Use dead cell removal to improve data quality
  • Target 500  to 10,000 cells
  • Compatible with multiple species
  • Compatible with single cells or nuclei

Single Cell Immune Profiling**

Single Cell Immune Profiling allows analysis of full-length, paired B-cell or T-cell receptor (BCR/TCR) sequences and 5’ gene expression, all from a single cell..

 

Features of our Single cell Immune Profiling service :

  • Obtain 5’ gene expression data from fresh or cryopreserved samples

  • Obtain Immune repertoire 

  • Use dead cell removal to improve data quality

  • Target 500  to 10,000 cells

  • Compatible with human and mouse samples

Fixed RNA profiling*

Fixed RNA Profiling enables single cell gene expression on precious samples that were previously inaccessible due to logistical challenges in sample handling. Fixation at the point of sample collection preserves fragile biology, reduce the batch effect and greatly streamlines workflows to provide critical insights on more samples.

 

Features of our Single cell Immune Profiling service :

  • Obtain gene expression data from formaldehyde fixed samples

  • Measure Gene expression by using probe pairs designed to hybridize to mRNA specifically

  • Target 500  to 10,000 cells

  • Only compatible with human samples, ideal for pathological specimens

* We propose to multiplex samples, Please contact us to discuss this option.

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* GENXMAP provides you a unique end-to-end solution by on-site service.

We can come to your lab to perform the first critical steps of your sample preparation, including GEM generation and cDNA amplification to ensure optimal quality of the results.

On-site service

A unique solution

You don't have the

instrument and the necessary equipments?

You have a pilot study and you are not sure if you want to invest on the technology yet?

You do not have the trained person available to prepare your samples?

Your samples are precious, sensitive and cannot be frozen ?

No problem! We have a solution

Our expert comes to your laboratory, with the instruments and the equipments. We help you in the preparation of the cell suspension and we perform the first step of single cell suspension to ensure the optimal sample preparation. The RT-PCR amplification steps are also performed on site. Once the cDNA as a stable and easily transportable material is obtained, we carry it ourselves to GENXMAP to continue with the following steps of library preparation.

How does it work ?

Sample preparation :

The most critical step in ScRNA seq library preparation is single-cell suspension from your sample. If you are not using our on-site service, you can either cryopreserve or methanol-fix the cells and send your samples to our lab on dry ice, or if you are based closed to our lab (Marseille), it may be possible to use fresh single cell suspension. Please, contact us to discuss this option.

Sample processing, GEM generation and amplification :

Once we received your sample, we check the quality and count cells to ensure high quality of cell suspension. If necessary, we remove dead cells. Then we load the cell suspension on the chip according to 10x Genomics specifications, along with barcoded beads and reagents. The chip is placed in the machine to create GEM emulsion and to perform reverse transcription and barcoding. Once the 10x run is finished, we perform an amplification step to obtain cDNA.

Library preparation and sequencing :

We complete the NGS library preparation, we perform the QC on your library and the final step is to sequence your samples based on the specificity of your project by Nova Seq6000. 

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Parse Bioscience is a technology enables all scales of experiments without the limitations of today's microfluidics approaches. Combinatorial barcoding happens within cells themselves, resulting in extraordinary specificity and scalability. Split-pool combinatorial barcoding allows you to profile single-cell transcriptomes by assigning a specific barcode to each well into which cells are loaded (3-prime end capture method). We can take advantage of the cell itself as its own compartment to perform multiple rounds of splitting, pooling, and ligation of transcripts to generate different barcode combinations unique to each cell’s set of transcripts

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Features of our Single cell Parse Bioscience service :

  • Fix now, run later : fixation can reduce perturbations to endogenous gene expression during cell handling and you can store cells for future experiments

  • Compatible with cell or nuclei : the use of nuclei bypasses the need to obtain intact single cells

  • Target 10,000 to 1,000,000 cells

  • Multiplex 12 to 96 samples

  • Compatible with all species

  • No on-site possibility

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Singleron has developed a unique high-density microfluidics SCOPE-chip™ for high throughput processing. The SCOPE-chip™ contain 250,000 microwells, which can capture up to 30,000 cells on a single chip.

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Features of our Single cell Singleron service :

  • 500 - 30,000 single cells/run (two different configurations, standard and high-density chips)

  • Sample multiplexing kit : pooling of up to 16 sample in the same single cell sequencing library

  • Additional Multiomic cellular readout : 3’ RNA (GEXSCOPE® -Single Cell RNA), TCR/BCR (GEXSCOPE®Single Cell Immune Receptor), Targeted mutation (FocuSCOPE®Single Cell MultiOmics), Transcription dynamics (DynaSCOPE®Single Cell MultiOmics)

  • Compatible with cell or nuclei : the use of nuclei bypasses the need to obtain intact single cells

  • Solutions for clinical sample storage, transportation and processing (cells can stay alive for 72 hours after tissue collection)

  • Compatible with multiple species

  • No on-site possibility

Experimentation timeline

Step 1 > Sample preparation and library construction  > 2 Weeks
Step 2 > Library QC and sequencing > 4 weeks 
Deliverable > FASTQ data
Bioinformatic analysis > We propose solutions for bioinformatics analysis, please contact us for more information.  

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