Milalazarevic - Bioinformatics (Level 1) Pathway

Certificates Summer 2021 Certificates Bioinformatics Workflow 2021
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1

Module 1:

Technical Area:

  • Installed R and R Studio and reviewed its functions and packages
  • Reviewed GitHub, Google Calendar, Slack, Trello, and When2Meet
  • Reviewed how to read scientific papers

Tools:

  • R- Studio
  • R
  • GitHub
  • Slack
  • STEM-Away
  • Google Meets
  • Google Calendar
  • When2Meet

Soft Skills:

  • Consistency and communication with both the leads of my team as well as all the participants
  • Time management- being able to balance a full time job, school, and dedicating to STEM-away
  • Leadership

Achievement Highlights:

  • I was able to familiarize myself with the STEM-Away forum
  • Reviewed some of my previous knowledge in programming and research
  • Familiarized myself with R, R-Studio, and GitHub

Difficulties Completing Tasks:

  • At the beginning of the week it was very difficult to navigate the STEM-Away website
  • A lot of the tools being used are unfamiliar to me
2

Module 2:

Technical Area:

  • Downloaded the dataset from GEO database
  • Explored GitHub more in-depth
  • Got familiar with R-Studio
  • Loaded data into R

Tools:

  • GitHub
  • Slack
  • R-Studio
  • R
  • STEM-Away
  • Google Calendar

Soft Skills:

  • Time Management
  • Problem-Solving (I was able to work through technical problems I came across)

Achievement Highlights:

  • Downloaded the dataset from GEO database
  • Installed packages
  • Loaded data into R

Difficulties Completing Tasks:

  • I was unable to join majority of this week’s meetings due to them being scheduled when I have other commitments (I watched the recordings so I was able to quickly catch up)
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3

Module 3:

Technical Area:

  • Working with packages
  • Finding outliers
  • Normalization and background correction
  • Box plots, Scatter plots, Heat Maps
  • Export/import files to R Studio

Tools:

  • R Studio
  • R
  • GitHub
  • STEM-Away
  • Youtube
  • Slack
  • Google Drive

Soft skills:

  • Problem Solving
  • Communication
  • Time Management

Achievement Highlights:

  • Creating a heat map
  • Familiarizing myself more with R
  • Completing module 3 tasks

Difficulties Completing Tasks:

  • I came across many technical issues that I had to work through
4

Module 4:

Technical Area:

  • Completed all Module 4 deliverables :
  • Ran Limma Statistical Analysis
  • Volcano plot
  • Libraries

Tools:

  • R Studio
  • R
  • STEM-Away website
  • Slack
  • Youtube

Solf skills:

  • Time management - I am currently in process to applying to colleges, so I had to time manage every commitment
  • Finding outside resources to assist me with completing the module- such as YouTube and Google
  • Leadership and communication

Achievement Highlights:

  • Completed the entire module in short amount of time
  • Faced less technical issues than for the past modules

Difficulties Completing Tasks:

  • Like mentioned, had to use outside resources to be able to complete the module, so the deliverables were not easy to complete
5

Module 5:

Technical Area:

  • Completed all Module 5 deliverables:
  • Dot plot
  • Bar plots
  • GSEA plot

Tools:

  • R Studio & R
  • STEM-Away forum
  • Slack
  • Youtube
  • Google websites (for research and help purposes)

Soft skills:

  • Problem solving and research skills- had to work through any technical difficulties and most of the time researching them on the internet helped
  • Time management skills - Since school began, I had to use time management skills to work on all my responsibilities
  • Communication
  • Leadership

Achievement Highlights:

  • Made a GSEA plot
  • Getting a lot more comfortable with using all the tools

Difficulties Completing Tasks:

  • I had to work through many problems I was facing when completing the deliverables
6

Module 6:

Technical Area:

  • Completed all Module 6 deliverables:
  • Used GEPIA,
  • STRING,
  • EnrichR

Tools:

  • Slack
  • STEM-Away
  • Google
  • Youtube
  • Articles

Soft skills:

  • Research- watched suggested videos and google websites in order to complete the deliverables
  • Problem solving- worked through technical issues by myself
  • Collaboration

Achievement Highlights:

  • Using GEPIA to analyze
  • STRING
  • EnrichR

Difficulties Completing Tasks:

  • It was difficult at first to use GEPIA to analyze
7

Module 7:

Technical Area:

  • Reviewed and thought about the project
  • Chose a dataset
  • Applied on dataset

Tools:

  • STEM-Away forum
  • Youtube
  • Google
  • PowerPoint
  • Articles

Soft skills:

  • Creativity - coming up with ideas on the project
  • Research - did a lot of external research for help
  • Seeking advice from other people

Achievement Highlights:

  • Quality Control
  • DGE analysis
  • Functional analysis

Difficulties Completing Tasks:

  • I was a little bit behind on the modules, so I did not have as much time to work on the capstone project as I liked. I had to complete the module much faster.