Single-cell Genome in TME

Relying on the tumor microenvironment center technology platform, Alfa Cytology provides single-cell genome sequencing and analysis services for TME research, helping researchers successfully achieve their research goals.


Cells in a cell population/tissue are heterogeneous and asynchronous. Single-cell genome sequencing solves the problem that the heterogeneity information of different single cells cannot be obtained from tumor tissue samples, and the sample size is too small for routine sequencing by performing genome amplification and sequencing of single cells in the tumor microenvironment (TME). It provides a new direction for scientists to study and analyze the behavior, mechanism, and relationship with the body of a single cell. It also provides guidance for early detection, diagnosis of disease, and individualized treatment of disease.


Single-cell genome sequencing in the tumor microenvironment is mainly based on a combination of high-quality whole-genome amplification and sequencing at the single-cell level to reveal cell population differences and cell evolutionary relationships. Due to the heterogeneity of tumor cells, this technology does not require culturing cells, and can most truly obtain the specific mutation source and accurate mutation frequency of monoclonal tumor cells, as well as distinguish the active processes in the process of tumor occurrence, development and evolution. and passive mutation, etc.

At Alfa Cytology, we have established a mature tumor microenvironment center technology platform, with a group of experienced tumor microenvironment research experts and mature technologies. Our global customers provide efficient single-cell genome sequencing and analysis services of tumors and microenvironments, helping you in tumor and microenvironment heterogeneity exploration, tumor progression research, and anti-tumor drug discovery.


Every step from material selection, library building and sequencing, to data analysis requires scientific and meticulous design to ensure high-quality research results.

Design of Single-Cell Genome Sequencing and Analysis Services in TME -Alfa Cytology

For different projects, in addition to standard information analysis, through joint discussions with partners, we can formulate feasible personalized information analysis solutions, integrate various mainstream software, and optimize the analysis results to ensure the accuracy and innovation of the results.

Customized information analysis can be negotiated based on customer needs.

Fundamental Analysis
  • 1. Data quality control: remove connector contamination and low quality data
  • 2. Align with reference sequences, count sequencing depth and coverage
  • 3. Somatic SNV/InDel/CNV/SV detection, annotation and statistics (tumor paired samples)
  • 4. Single-cell Germline SNP cluster analysis
  • 5. PCA (principal component) analysis
  • 6. Heatmap display (somaticSNV)
  • 7. High frequency mutation analysis (>2 pairs of samples)
  • 8. NMF mutation signature/mutation spectrum analysis
  • 9. NovoDriver known driver gene screening
  • 10. Circos diagram display of genomic variation
Advanced Analysis
  • 1. Inter-sample synergy analysis (the number of tumor single cell samples ≥ 2, and there must be tissue samples)
  • 2. MRT high-frequency mutation gene correlation analysis (> 2 pairs of samples)
  • 3. OncodriveCLUST driver gene prediction (>2 pairs of samples)
  • 4. Analysis of mutation site distribution
  • 5. High frequency CNV analysis
  • 6. Loss of heterozygosity (LOH) analysis
  • 7. LOF protein loss-of-function analysis
  • 8. NovoDrug high-frequency mutation gene targeted drug prediction
  • 9. NovoDR resistance mutation screening
  • 10. High-frequency mutation analysis in NovoNoncoding noncoding regions

Note: Our services list is constantly being updated and improved, please contact us by email for more up-to-date and relevant information.


  • Finding variation information at the single-cell level
  • Investigating tissue and cell population heterogeneity at the single-cell level
  • Analysis of tumor subclone evolution

Service process

Service process

Alfa Cytology is dedicated to supporting scientists in making groundbreaking scientific discoveries and developing new applications to accelerate new drug discovery and scientific diagnosis and treatment. We have established the tumor microenvironment center technology platform with high performance scientific instruments and high value solutions to ensure high quality services that enable scientists to explore the mysteries of life at the tumor microenvironment level. Please let us know your project requirements and we will provide you with a comprehensive service from solution to report. If you have any questions, please feel free to contact us.

All of our services and products are intended for preclinical research use only and cannot be used to diagnose, treat or manage patients.


Alfa Cytology is a service provider specializing in tumor microenvironment research.

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