First version of personal website

_config.yml

@@ -8,47 +8,47 @@
 
 # Basic Site Settings
 locale : "en-US"
-title : "Your Name / Site Title"
+title : "Gen (Reagan) Li's Personal Website"
 title_separator : "-"
-name : &name "Your Name"
+name : &name "Gen (Reagan) Li"
 description : &description "personal description"
-url : https://academicpages.github.io # the base hostname & protocol for your site e.g. "https://mmistakes.github.io"
+url : https://ReaganGen.github.io # the base hostname & protocol for your site e.g. "https://mmistakes.github.io"
 baseurl : "" # the subpath of your site, e.g. "/blog"
-repository : "academicpages/academicpages.github.io"
+repository : "ReaganGen/ReaganGen.github.io"
 
 # Site Author - The following control what appear as part of the author content on the side bar.
 # If a field is blank the icon and link will not appear, otherwise it will be shown.
 # Additional customization can be done by editing /_includes/author-profile.html
 author:
  # Biographic information
  avatar : "profile.png"
- name : "Your Sidebar Name"
- pronouns : # example: "she/her" 
- bio : "Short biography for the left-hand sidebar"
- location : "Earth"
- employer : "Red Brick University"
+ name : "Gen (Reagan) Li"
+ pronouns : "He/Him" 
+ bio : "Bioinformatics and Computational Biology Undergraduate Student @UofT | BME PhD student @UofT | Computational Biology | Artificial Intelligence | Pharmacy | Willing to make something that can really change the world :)"
+ location : "Toronto, ON, Canada"
+ employer : "University of Toronto"
  uri : # URL
- email : "[email protected]" 
+ email : "[email protected]" 
 
  # Academic websites
  arxiv : # URL - Update with the correct link to your profile
- googlescholar : "https://scholar.google.com/citations?user=PS_CX0AAAAAJ"
+ googlescholar : "https://scholar.google.ca/citations?hl=en&user=tgEXcfsAAAAJ&view_op=list_works"
  impactstory : # URL
- orcid : "http://orcid.org/yourorcidurl"
+ orcid : # URL
  semantic : # URL
- pubmed : "https://www.ncbi.nlm.nih.gov/pubmed/?term=john+snow"
+ pubmed : # URL
  researchgate : # URL
 
  # Repositories and software development
  bitbucket : # Username - Update with your username on the site
  codepen : # Username
  dribbble : # Username
- github : "academicpages"
+ github : "ReaganGen"
  kaggle : # Username 
  stackoverflow : # User number or user number and name (i.e., use "1" or "1/jeff-atwood") 
 
  # Social media
- bluesky : "bsky.app" # Replace this with you Bluesky username
+ bluesky : # Replace this with you Bluesky username
  facebook : # Username
  flickr : # Username
  foursquare : # Username
@@ -65,7 +65,7 @@ author:
  steam : # Username
  telegram : # URL
  tumblr : # Username
- twitter : # Username for X / Twitter
+ twitter : "@Gen_Li_Reagan" # Username for X / Twitter
  vine : # Username
  weibo : # Username
  wikipedia : # Username
@@ -75,8 +75,6 @@ author:
 
 # Publication Category - The following the list of publication categories and their headings
 publication_category:
- books:
- title: 'Books'
  manuscripts:
  title: 'Journal Articles' 
  conferences:

_data/navigation.yml

@@ -7,18 +7,6 @@
 main:
  - title: "Publications"
  url: /publications/
-
- - title: "Talks"
- url: /talks/ 
-
- - title: "Teaching"
- url: /teaching/ 
-
- - title: "Portfolio"
- url: /portfolio/
-
- - title: "Blog Posts"
- url: /year-archive/
 
  - title: "CV"
  url: /cv/

_pages/cv.md

@@ -11,54 +11,40 @@ redirect_from:
 
 Education
 ======
-* Ph.D in Version Control Theory, GitHub University, 2018 (expected)
-* M.S. in Jekyll, GitHub University, 2014
-* B.S. in GitHub, GitHub University, 2012
+* PhD Student in Biomedical Enginnering, University of Toronto, ON, CA, 2024 - Present
+* HBSc. in Bioinformatics and Computational Biology, University of Toronto, 2020 - 2024
 
-Work experience
+Research experience
 ======
-* Spring 2024: Academic Pages Collaborator
- * Github University
- * Duties includes: Updates and improvements to template
- * Supervisor: The Users
+* Deciphering 3’ UTR mediated gene regulation using interpretable deep representation learning
+ * Zhang Laboratory, University of Toronto, Terrence Donnelly Centre for Cellular and Biomolecular Research (CCBR)
+ * 2022/04 - 2023/08, Advisor: Dr.Zhaolei Zhang
+ * Processed the sequence data of human mature mRNA at transcriptome level
+ * Built a prediction model that can predict mRNA sub-cellular localization, binding site of RBPs and m6A modification sites in mRNA sequences based on a BERT model with other members of the Laboratory
+ * Compared performances of different state-of-the-art computing models on the same dataset
+ * Designed and implemented m6A analytical experiment, and extracted Motif features of mRNA sequences
+ * Conducted analysis of sequence point mutation and visual analysis of model attention mechanism
+ * Visualized data, model structure, and performances with multiple techniques
 
-* Fall 2015: Research Assistant
- * Github University
- * Duties included: Merging pull requests
- * Supervisor: Professor Hub
+* Making use of Protein-protein interaction network and machine learning techniques to identify potentially new cancer driver genes
+ * Reimand Laboratory, University of Toronto, Ontario Institute for Cancer Research (OICR) 
+ * 2023/04 - 2023/08, Advisor: Dr.Jüri Reimand
+ * Constructed a graph based on the Protein-protein interaction network, and generated embedding features of each node by Node2Vec
+ * Ran multiple diagnostic analyses on the generated features and model outputs
+ * Trained and tested logistic regression classifier to make classification on different hallmark gene sets
+ * Tried to find the false positive genes that are misclassified multiple times, which might be potential cancer driver genes Github link: https://github.com/reimandlab/PPI_network_based_gene_type_prediction_model
 
-* Summer 2015: Research Assistant
- * Github University
- * Duties included: Tagging issues
- * Supervisor: Professor Git
-
-Skills
-======
-* Skill 1
-* Skill 2
- * Sub-skill 2.1
- * Sub-skill 2.2
- * Sub-skill 2.3
-* Skill 3
+* Developing computational pipelines for analysis of spatially resolved sequence data based on Slide-seq technique to investigate the mechanism of deficiency of nervous system of Downsyndrome patients
+ * Kalish Laboratory, University of Toronto, The Hospital for Sick Children (SickKids)
+ * 2023/09 - 2024/08, Advisor: Dr.Brian Kalish
+ * Aligned sequencing data using STAR
+ * Deduplicated reads using unique molecular identifiers (UMI) tools Analysis and visualization by Seurat
+ * Integrated scRNA-seq data, as a reference, with Slide-seq data for labelling cell types with machine learning technique
+ * Developed a lasso selection tool specifically for Slide-seq data
 
-Publications
-======
- <ul>{% for post in site.publications reversed %}
- {% include archive-single-cv.html %}
- {% endfor %}</ul>
-
-Talks
-======
- <ul>{% for post in site.talks reversed %}
- {% include archive-single-talk-cv.html %}
- {% endfor %}</ul>
-
-Teaching
-======
- <ul>{% for post in site.teaching reversed %}
- {% include archive-single-cv.html %}
- {% endfor %}</ul>
-
-Service and leadership
+Honours and Scholarships
 ======
-* Currently signed in to 43 different slack teams
+* Dean’s List Scholar 06/2022 
+* The Jean (MacIntosh) MacLeod Scholarship 08/2022
+* Dean’s List Scholar 06/2023
+* The Anne Oaks Scholarship 07/2023