Chapter 1 Introduction

1.1 Rongting Reading Notes

Welcome to my Reading Notes Notebook, a collection of summaries, insights, and references from all the papers I’ve read or followed during my research journey. This notebook serves as both a reference for my work and a resource for anyone interested in the fields I’ve explored.

1.2 About This Notebook

This notebook spans my academic and research career across three major fields:

  1. Post-translational Modifications (PTMs) during my Master’s research.

  2. Single-cell Genomics during my PhD work.

  3. Spatial Biology in my postdoctoral studies.

Each section is organized to reflect the progression of my studies and the papers that have influenced my understanding and contributions to these areas.

1.3 Topics Covered

Post-translational Modifications (PTMs)

PTMs are key processes in molecular biology, providing functional diversity to proteins. My Master’s research focused on understanding their roles in:

  • Cellular signaling pathways.

  • Disease mechanisms.

  • Protein interactions and modifications.

Single-cell Genomics

During my PhD, I dove deep into the world of single-cell genomics, exploring:

  • Advanced technologies like single-cell RNA sequencing (scRNA-seq).

  • Computational tools for analyzing single-cell data, especially in CNV detection.

  • The heterogeneity of cell populations.

  • Applications in cancer research, immunology, and developmental biology.

Spatial Biology

In my postdoc, my focus shifted to spatial biology, which combines spatial context with molecular data to provide a deeper understanding of:

  • Tissue architecture and microenvironments.

  • Spatial transcriptomics and proteomics.

  • Cutting-edge imaging and sequencing technologies.

1.4 How to Use This Notebook

  • Papers: Each section contains summaries, key findings, and my notes on the papers I’ve read in that area.

  • Resources: Links to datasets, tools, and references used in the research are included.

  • Insights: Personal reflections on how each paper has influenced my understanding or contributed to my own work.

Whether you’re a student, researcher, or just curious about these fields, I hope this notebook serves as a helpful resource for learning and exploration.

Feel free to explore, learn, and reach out if you have questions or suggestions.