diff --git a/_config.yml b/_config.yml index 2fbbf0211b32e..a8c452cbff44c 100644 --- a/_config.yml +++ b/_config.yml @@ -8,13 +8,13 @@ # 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. @@ -22,33 +22,33 @@ repository : "academicpages/academicpages.github.io" 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 : "none@example.org" + email : "reaganree.li@mail.utoronto.ca" # 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: diff --git a/_data/navigation.yml b/_data/navigation.yml index 5959f5879b028..7494111f0b290 100644 --- a/_data/navigation.yml +++ b/_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/ diff --git a/_pages/cv.md b/_pages/cv.md index a3ff17ba691cb..0bc3ea415092c 100644 --- a/_pages/cv.md +++ b/_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 -====== - - -Talks -====== - - -Teaching -====== - - -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 diff --git a/_publications/2010-10-01-paper-title-number-2.md b/_publications/2010-10-01-paper-title-number-2.md deleted file mode 100644 index 00637099397bb..0000000000000 --- a/_publications/2010-10-01-paper-title-number-2.md +++ /dev/null @@ -1,14 +0,0 @@ ---- -title: "Paper Title Number 2" -collection: publications -category: manuscripts -permalink: /publication/2010-10-01-paper-title-number-2 -excerpt: 'This paper is about the number 2. The number 3 is left for future work.' -date: 2010-10-01 -venue: 'Journal 1' -slidesurl: 'http://academicpages.github.io/files/slides2.pdf' -paperurl: 'http://academicpages.github.io/files/paper2.pdf' -citation: 'Your Name, You. (2010). "Paper Title Number 2." Journal 1. 1(2).' ---- - -The contents above will be part of a list of publications, if the user clicks the link for the publication than the contents of section will be rendered as a full page, allowing you to provide more information about the paper for the reader. When publications are displayed as a single page, the contents of the above "citation" field will automatically be included below this section in a smaller font. \ No newline at end of file diff --git a/_publications/2015-10-01-paper-title-number-3.md b/_publications/2015-10-01-paper-title-number-3.md deleted file mode 100644 index 42bf1d4ae7ce8..0000000000000 --- a/_publications/2015-10-01-paper-title-number-3.md +++ /dev/null @@ -1,14 +0,0 @@ ---- -title: "Paper Title Number 3" -collection: publications -category: manuscripts -permalink: /publication/2015-10-01-paper-title-number-3 -excerpt: 'This paper is about the number 3. The number 4 is left for future work.' -date: 2015-10-01 -venue: 'Journal 1' -slidesurl: 'http://academicpages.github.io/files/slides3.pdf' -paperurl: 'http://academicpages.github.io/files/paper3.pdf' -citation: 'Your Name, You. (2015). "Paper Title Number 3." Journal 1. 1(3).' ---- - -The contents above will be part of a list of publications, if the user clicks the link for the publication than the contents of section will be rendered as a full page, allowing you to provide more information about the paper for the reader. When publications are displayed as a single page, the contents of the above "citation" field will automatically be included below this section in a smaller font. \ No newline at end of file diff --git a/_publications/2024-02-17-paper-title-number-4.md b/_publications/2024-02-17-paper-title-number-4.md deleted file mode 100644 index 5fd722cc8ae4d..0000000000000 --- a/_publications/2024-02-17-paper-title-number-4.md +++ /dev/null @@ -1,13 +0,0 @@ ---- -title: "Paper Title Number 4" -collection: publications -category: conferences -permalink: /publication/2024-02-17-paper-title-number-4 -excerpt: 'This paper is about fixing template issue #693.' -date: 2024-02-17 -venue: 'GitHub Journal of Bugs' -paperurl: 'http://academicpages.github.io/files/paper3.pdf' -citation: 'Your Name, You. (2024). "Paper Title Number 3." GitHub Journal of Bugs. 1(3).' ---- - -The contents above will be part of a list of publications, if the user clicks the link for the publication than the contents of section will be rendered as a full page, allowing you to provide more information about the paper for the reader. When publications are displayed as a single page, the contents of the above "citation" field will automatically be included below this section in a smaller font.