top of page

Ensuring good quality cells for Single Cell Sequencing

Single-cell sequencing is a revolutionary technique that has shown great potential in research and clinical practice. To guarantee the best results, you need to start the experiments with good-quality cells. To find out if your cells are suitable for single-cell sequencing, you must perform a cell count and viability analysis.

This article discusses the main applications of single-cell sequencing, and how the Inish Analyser can help you perform your experiments with greater confidence.

Single Cell Sequencing Technology

Traditional sequencing is an excellent method to find out the exact nucleotide order within a DNA molecule. But this technology can only analyse a small number of cells at a time. That's why scientists use single-cell sequencing to obtain genomic, transcriptome, or other information about cell populations, (1).

Unlike traditional sequencing, Single-cell technology can detect heterogeneity among individual cells, distinguishing cells, and delineating cell maps. At first, the technology was too expensive for widespread use. But this reality is changing quickly, (1).

Single Cell Sequencing Applications

The technology has evolved considerably in the last number of years, lowering the costs and increasing the detection ability. Advanced single-cell sequencing methods can detect copy number variation (CNV) with high resolution. With the single-cell multiple sequencing technique (ssCOOL-seq), researchers can analyse CNV, chromatin state, and DNA methylation simultaneously, (1).

Using topographic single-cell sequencing (TSCS), scientists can describe the specific characteristics of individual tumor cells and study invasion and metastasis mechanisms, (1). Those are just a few examples of what you can do with this technology. The applications are endless and go from basic research to clinical practice and diagnostics. Examples include:


Genetic variation originates in cells with different characteristics within tumor tissues. This heterogeneity may influence tumor development and metastasis. So, researchers can use single-cell sequencing to detect tumor cell heterogeneity ad draw tumor cell maps accurately. The method allows detection of specific markers within tumors to better explain the disease's mechanisms and develop new treatments and diagnostic procedures, (1).


Single-cell sequencing detects and differentiates individual immune cells. With this method, researchers can discover new targets for disease treatment. They can also study highly heterogeneous immune cells originating from different pathogens by detecting their unique genetic material, (1).

Nervous System

Neurons are different from one another because o