Lab Guidelines

Spring 2025

Research Topics

  • Map genetic risk variants/genes for complex diseases
    • Genome-wide Association Studies.
    • Transcriptome-wide Association Studies; Proteome-wide Association Studies; Integrate multi-omics data
  • Develop disease risk prediction model by machine learning and deep learning methods
  • Bioinformatics analysis: sequencing data analysis; WGS, WES data analysis
  • Lecture slides are available from YangLabWebsite.

Real Data Formats

Programming languages and tools

Learn Deep Learning Resources

Working Tips

  • Mont cloud directories to local computer and use local code/text editor such as VScode and Sublime to edit scripts
  • Write bash scripts for your jobs
  • Use Markdown (e.g., Rmarkdown, MacDown) to write Project Summary
  • Be motivated and organized

Data/Code Sharing

  • Emory Onedrive
  • HGCC/RHPC
  • Github

Suggestions

  • Allocate blocks of working time (>2 hours)
  • Update your to-do list regularly
  • Document your work progress
    • Organize your results for discussion
    • Write a paper outline for your project
    • Put your work on Github, one directory per project

Suggestions

  • Keep your HGCC/RHPC home directory organized and avoid saving duplicate copies of the data
  • Attend selective journal clubs, seminars, workshops
  • Attend group, department, school activities to interact with collegues, staff, professors, etc.
  • Ask around for help

Lab Meeting Format

  • All members take in turn to lead the discussion

    • Present one’s research progress
    • Discuss a paper as a journal club

  • Group discussion and hangouts

  • In person meetings (Whitehead 3rd Floor) with zoom options

Tips

Tips

  • Use Docker for software development : Avoid the hassel of setting up local environment
  • Pipe data in R scripts : %>% or |> with fast key cmd + shift + m
  • Write comments and use informative variable names and function names during programming
  • Useful R libraries for data science: tidyverse, data.table, caret
  • See YangLabTeaching webpage for more resources about recent course slides, scientific writing, and scientific presentations.
  • Be Organized

Lab Activities

  • Lunch hangouts
  • Holiday celebrates
  • Department events

Exiting the lab

  • Clean and organize your HGCC/RHPC home/work directory
    • Delete redundant content
    • Write README.md file for your directories to describe file contents
  • Delete real data from your local computer
  • Write a summary project report including directory information of your data, results, and scripts