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Identifying Gene Expression Patterns in Memory T Cell Development

Nazer Kakhki, Naghmeh Sadat | 2019

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  1. Type of Document: M.Sc. Thesis
  2. Language: Farsi
  3. Document No: 52545 (05)
  4. University: Sharif University of Technology
  5. Department: Electrical Engineering
  6. Advisor(s): Mohammadzadeh, Hoda; Hossein Khalaj, Babak; Basiri, Mohsen
  7. Abstract:
  8. T lymphocytes or T cells are a type of white blood cell that play an important role in the immune system. Memory T cells are a subset of them that are able to reactivate when being re-exposed to the pathogen. Because of the properties of these cells, they are an attractive choice for immunotherapy. Initial memory subgroups were shown to be more persistently effective in immunotherapies. However little is known about development and differentiation of these subgroups. With the discovery of a new subset of T cells, called T memory stem cells (TSCM), They are considered to develop through four stages, naive T cells (TN), T memory stem cells (TSCM), central memory T cells (TCM) and effector memory T cells (TEM). With advances in sequencing and bioinformatics, it is possible to study cell populations at single cell resolution.In this study, with the aim of deeper understanding of memory subgroups and to gain the ability of retrieving them in vitro, we have conducted a meta-analysis on the microarray data of the early stages of T lymphocytes, and with further investigation in the suggested expression pattern we came up with a hypothesis for the activated pathway during this process. In order to validate our hypothesis and explore these cells more, we used single-cell data and analyzed the expression pattern of the suggested genes over time, which is almost consistent with the hypothesis. Finally, in order to gain deeper understanding of each subset, differentiation markers of each group have been identified and explored. Findings of this study at both microarray and single cell levels can advance our understanding of the heterogenous subsets of memory T lymphocytes
  9. Keywords:
  10. Clustering ; Biomarker ; Microarray Data Analysis ; Single Cell Sequencing ; Meta Analysis ; Cell Pathways ; T Lymphocytes

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