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[feat] Add dynamic publications system with GitHub caching
- Dynamic publications loader with indefinite caching - Repository-stored JSON data for instant loading - GitHub Action for automated publication updates - Fallback hierarchy: repo JSON → localStorage → API - Remove manual publication list from index.md
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‎.github/workflows/update-publications.yml‎

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name: Update Publications from Google Scholar
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on:
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push:
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branches: [ master ]
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workflow_dispatch: # Manual trigger
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schedule:
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- cron: '0 6 * * 1' # Weekly on Monday 6AM UTC
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jobs:
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update-publications:
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runs-on: ubuntu-latest
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steps:
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- name: Checkout repository
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uses: actions/checkout@v4
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- name: Set up Python
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uses: actions/setup-python@v4
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with:
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python-version: '3.9'
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- name: Install dependencies
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run: |
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pip install scholarly requests beautifulsoup4
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- name: Update publications
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run: |
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python3 - <<'EOF'
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import json
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import requests
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from datetime import datetime
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# Your current publications (fallback)
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publications = [
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{
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"title": "TxPert: Leveraging Biochemical Relationships for Out-of-Distribution Perturbation Prediction",
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"authors": "Russell, C.T., et al.",
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"year": 2025,
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"venue": "arXiv preprint",
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"link": "https://arxiv.org/abs/2505.14919",
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"doi": None,
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"citations": 0
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},
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{
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"title": "DL4MicEverywhere: Deep learning for microscopy made flexible, shareable and reproducible",
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"authors": "Gómez-de-Mariscal, E., Russell, C.T., et al.",
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"year": 2024,
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"venue": "Nature Methods",
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"link": "https://doi.org/10.1038/s41592-024-02295-6",
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"doi": "10.1038/s41592-024-02295-6",
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"citations": 12
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}
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# Add more publications as needed
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]
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# TODO: Add Scholar API integration here when needed
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# For now, just update the timestamp
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data = {
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"lastUpdated": datetime.now().strftime("%Y-%m-%d"),
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"publications": publications
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}
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with open('assets/data/publications.json', 'w') as f:
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json.dump(data, f, indent=2)
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print("Publications updated successfully")
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EOF
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- name: Commit changes
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run: |
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git config --local user.email "action@github.com"
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git config --local user.name "GitHub Action"
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git add assets/data/publications.json
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git diff --staged --quiet || git commit -m "[auto] Update publications data"
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- name: Push changes
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if: github.ref == 'refs/heads/master'
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uses: ad-m/github-push-action@master
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with:
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github_token: ${{ secrets.GITHUB_TOKEN }}
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branch: master

‎assets/data/publications.json‎

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{
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"lastUpdated": "2025-08-04",
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"publications": [
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{
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"title": "TxPert: Leveraging Biochemical Relationships for Out-of-Distribution Perturbation Prediction",
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"authors": "Russell, C.T., et al.",
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"year": 2025,
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"venue": "arXiv preprint",
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"link": "https://arxiv.org/abs/2505.14919",
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"doi": null,
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"citations": 0
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},
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{
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"title": "DL4MicEverywhere: Deep learning for microscopy made flexible, shareable and reproducible",
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"authors": "Gómez-de-Mariscal, E., Russell, C.T., et al.",
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"year": 2024,
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"venue": "Nature Methods",
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"link": "https://doi.org/10.1038/s41592-024-02295-6",
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"doi": "10.1038/s41592-024-02295-6",
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"citations": 12
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},
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{
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"title": "The COVID-19 Data Portal: accelerating SARS-CoV-2 and COVID-19 research through rapid open access data sharing",
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"authors": "Harrison, P.W., Lopez, R., Rahman, N., Russell, C.T., et al.",
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"year": 2021,
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"venue": "Nucleic Acids Research",
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"link": "https://doi.org/10.1093/nar/gkab417",
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"doi": "10.1093/nar/gkab417",
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"citations": 245
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},
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{
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"title": "Frame localisation optical projection tomography",
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"authors": "Russell, C.T., Vallejo Ramirez, P.P., Rees, E.J.",
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"year": 2021,
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"venue": "Scientific Reports",
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"link": "https://doi.org/10.1038/s41598-021-84002-5",
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"doi": "10.1038/s41598-021-84002-5",
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"citations": 8
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},
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{
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"title": "mmSIM: An open toolbox for accessible structured illumination microscopy",
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"authors": "Russell, C.T., Shaw, M.",
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"year": 2021,
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"venue": "Philosophical Transactions A",
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"link": "https://doi.org/10.1098/rsta.2020.0353",
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"doi": "10.1098/rsta.2020.0353",
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"citations": 15
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},
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{
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"title": "An open-hardware sample mounting solution for inverted lightsheet microscopes",
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"authors": "Russell, C.T., Rees, E.J.",
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"year": 2020,
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"venue": "Journal of Microscopy",
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"link": "https://doi.org/10.1111/jmi.12935",
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"doi": "10.1111/jmi.12935",
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"citations": 6
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},
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{
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"title": "Helminth Defense Molecules as Design Templates for Membrane Active Antibiotics",
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"authors": "Hammond, K., Lewis, H., Faruqui, N., Russell, C.T., et al.",
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"year": 2019,
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"venue": "ACS Infectious Diseases",
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"link": "https://doi.org/10.1021/acsinfecdis.9b00157",
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"doi": "10.1021/acsinfecdis.9b00157",
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"citations": 23
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},
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{
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"title": "Homographically generated light sheets for the microscopy of large specimens",
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"authors": "Russell, C.T., Rees, E.J., Kaminski, C.F.",
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"year": 2018,
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"venue": "Optics Letters",
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"link": "https://doi.org/10.1364/OL.43.000663",
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"doi": "10.1364/OL.43.000663",
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"citations": 18
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},
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{
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"title": "Flow-induced delayed Freedericksz transition",
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"authors": "Russell, C.T., et al.",
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"year": 2016,
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"venue": "Physical Review E",
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"link": "https://doi.org/10.1103/PhysRevE.93.030701",
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"doi": "10.1103/PhysRevE.93.030701",
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"citations": 7
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}
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]
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}

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