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{
  "_meta": {
    "purpose": "Registry of every source a corpus passage may cite. A passage whose source_id is not listed here fails validation.",
    "reuse_rule": "CC BY sources may be paraphrased or quoted with attribution. Sources without a confirmed open licence are paraphrased only, never copied verbatim.",
    "recorded": "2026-10-01",
    "origin_of_source_choices": "Documents/plans/_archive/2026-09-30/2026-09-28-full-pipeline-implementation-plan/requirements/{who-iccr,bracs-knowledge,ebrains-cns-knowledge}-source-search.md",
    "tiers": {
      "T1": "guideline, society or government source",
      "T2": "peer-reviewed journal article or review (journal, year, article type recorded)",
      "T3": "Wikipedia, Libre Pathology or other community text",
      "T4": "anything else"
    },
    "snapshot_note": "snapshot paths are repo-relative under data/datasets/knowledge-src (not tracked in git); sha256 recorded per source.",
    "merged": "2026-10-01 v2 merge (base + final-ebr + tcga-bracs); tier and legitimacy fields added per source"
  },
  "sources": {
    "iccr-lung": {
      "citation": "International Collaboration on Cancer Reporting. Lung Cancer Histopathology Reporting Guide, 4th ed., v4.0, April 2023. ISBN 978-1-922324-34-4.",
      "url": "https://www.iccr-cancer.org/wp-content/uploads/2023/06/ICCR-Lung-4th-ed-v4.0-hyperlink.pdf",
      "license": "no explicit reuse terms found; paraphrase only",
      "verification": "downloaded and read in the earlier source search; synoptic checklist, taxonomy only, no narrative criteria",
      "tier": "T1",
      "tier_label": "Guideline / reporting standard",
      "legitimacy": "International Collaboration on Cancer Reporting (ICCR), a consortium of pathology colleges and societies; expert-panel reporting datasets used as national standards; synoptic checklist developed from the WHO 2021 taxonomy; not a journal article, no reuse licence found."
    },
    "pmc7698816": {
      "citation": "Weng CF et al. New International Association for the Study of Lung Cancer (IASLC) Pathology Committee Grading System for the Prognostic Outcome of Advanced Lung Adenocarcinoma. Cancers 2020;12(11):3426. doi:10.3390/cancers12113426. PMC7698816",
      "url": "https://pmc.ncbi.nlm.nih.gov/articles/PMC7698816/",
      "license": "CC BY 4.0 (confirmed from the Europe PMC licence element and the MDPI statement; see snapshots/pmc7698816-licence-evidence.txt)",
      "verification": "carried over from the existing lung criteria file | 2026-10-01 merge: Replaces the wrong author (Moreira) in APS-WSI/knowledge/sources.json. Proposal only; APS-WSI is not edited.",
      "snapshot": "data/datasets/knowledge-src/tcga-bracs/snapshots/pmc7698816.txt",
      "tier": "T2",
      "tier_label": "Peer-reviewed journal article (retrospective cohort study)",
      "legitimacy": "Cancers (2020). Europe PMC publication types: research-article, Journal Article. Indexed in PubMed Central / Europe PMC; open-access licence as recorded.",
      "journal": "Cancers",
      "year": 2020,
      "article_type": "retrospective cohort study"
    },
    "pmc12308192": {
      "citation": "Patel S, Adiga DS. Evaluation of TTF-1, Napsin A, p40, and p63 in the Subtyping of Non-Small Cell Lung Carcinoma: A Cross-Sectional Study from India. Iran J Pathol 2025. PMC12308192.",
      "url": "https://pmc.ncbi.nlm.nih.gov/articles/PMC12308192/",
      "license": "CC BY 4.0 (confirmed; see snapshots/pmc12308192-licence-evidence.txt)",
      "verification": "carried over from the existing lung criteria file; single-cohort percentages, a data point and not a consensus | 2026-10-01 merge: Licence confirmation only.",
      "snapshot": "data/datasets/knowledge-src/tcga-bracs/snapshots/pmc12308192.txt",
      "tier": "T2",
      "tier_label": "Peer-reviewed journal article (cross-sectional study (single centre, India))",
      "legitimacy": "Iranian journal of pathology (2025). Europe PMC publication types: research-article, Journal Article. Indexed in PubMed Central / Europe PMC; open-access licence as recorded.",
      "journal": "Iranian journal of pathology",
      "year": 2025,
      "article_type": "cross-sectional study (single centre, India)"
    },
    "bracs-paper": {
      "citation": "Brancati N et al. BRACS: A Dataset for BReAst Carcinoma Subtyping in H&E Histology Images. arXiv:2111.04740 (2021); Database 2022, baac093.",
      "url": "https://arxiv.org/abs/2111.04740",
      "license": "Two versions, two licences. arXiv version (arXiv:2111.04740): arXiv non-exclusive distribution licence (abstract page links arxiv.org/licenses/nonexclusive-distrib/1.0/). Journal version (Database 2022, baac093, doi 10.1093/database/baac093, PMC9575967): CC BY-NC 4.0. Non-commercial research use; paraphrase with attribution.",
      "verification": "full text fetched and read 2026-10-01 (section 'Subtype annotations')",
      "tier": "T2",
      "tier_label": "Dataset paper (journal + preprint)",
      "legitimacy": "BRACS dataset paper: published peer-reviewed in Database (Oxford) 2022 baac093; the cited text is the arXiv:2111.04740 preprint of it; the dataset itself is the source of the BRACS labels used in this thesis; the \"expert definition\" statements are the authors' annotation protocol, not a guideline."
    },
    "pmc8833401": {
      "citation": "Khoury T. Preneoplastic Low-Risk Mammary Ductal Lesions (Atypical Ductal Hyperplasia and Ductal Carcinoma In Situ Spectrum): Current Status and Future Directions. Cancers (Basel) 2022;14(3):507. doi:10.3390/cancers14030507. PMC8833401.",
      "url": "https://pmc.ncbi.nlm.nih.gov/articles/PMC8833401/",
      "license": "CC BY 4.0 (licence statement read on the page 2026-10-01)",
      "verification": "full text fetched and read 2026-10-01",
      "snapshot": "data/datasets/knowledge-src/tcga-bracs/snapshots/pmc8833401.txt",
      "tier": "T2",
      "tier_label": "Peer-reviewed journal article (review)",
      "legitimacy": "Cancers (2022). Europe PMC publication types: review-article, Review, Journal Article. Indexed in PubMed Central / Europe PMC; open-access licence as recorded.",
      "journal": "Cancers",
      "year": 2022,
      "article_type": "review"
    },
    "pmc10216527": {
      "citation": "Martin KC, Ma C, Yip S. From Theory to Practice: Implementing the WHO 2021 Classification of Adult Diffuse Gliomas in Neuropathology Diagnosis. Brain Sci 2023;13(5):817. doi:10.3390/brainsci13050817. PMC10216527.",
      "url": "https://pmc.ncbi.nlm.nih.gov/articles/PMC10216527/",
      "license": "CC BY 4.0 (MDPI open access licence statement read on the page 2026-10-01)",
      "verification": "full text fetched and read 2026-10-01",
      "tier": "T2",
      "tier_label": "Peer-reviewed journal article (narrative review)",
      "legitimacy": "Brain sciences (2023). Europe PMC publication types: review-article, Review, Journal Article. Indexed in PubMed Central / Europe PMC; open-access licence as recorded.",
      "journal": "Brain sciences",
      "year": 2023,
      "article_type": "narrative review"
    },
    "pmc9427889": {
      "citation": "Torp SH, Solheim O, Skjulsvik AJ. The WHO 2021 Classification of Central Nervous System tumours: a practical update on what neurosurgeons need to know, a minireview. Acta Neurochir (Wien) 2022;164(9):2453-2464. doi:10.1007/s00701-022-05301-y. PMC9427889.",
      "url": "https://pmc.ncbi.nlm.nih.gov/articles/PMC9427889/",
      "license": "CC BY 4.0 (licence statement read on the page 2026-10-01)",
      "verification": "full text fetched and read 2026-10-01, including its tables",
      "tier": "T2",
      "tier_label": "Peer-reviewed journal article (minireview)",
      "legitimacy": "Acta neurochirurgica (2022). Europe PMC publication types: Research Support, Non-U.S. Gov't, review-article, Review, Journal Article. Indexed in PubMed Central / Europe PMC; open-access licence as recorded. Journal: established neurosurgery journal.",
      "journal": "Acta neurochirurgica",
      "year": 2022,
      "article_type": "minireview"
    },
    "librepath-anaplastic-astrocytoma": {
      "citation": "Libre Pathology, page 'Anaplastic astrocytoma', revision 48773 dated 2018-03-19",
      "url": "https://librepathology.org/w/index.php?title=Anaplastic_astrocytoma&oldid=48773",
      "license": "CC BY-NC-SA 3.0 (Copyrights page says NC SA 3.0)",
      "verification": "raw wikitext fetched via action=raw on 2026-10-01 and read; snapshot is the raw wikitext; page may be older than current clinical practice; use: paraphrase only, non-commercial (Libre_Pathology:Copyrights says users are generally not allowed commercial use)",
      "snapshot": "data/datasets/knowledge-src/final-ebr/snapshots/librepath-anaplastic-astrocytoma.txt",
      "sha256": "8cad435429a6e508b422c5a9af68e66684d9fe06143c4a7f0bfbb1b68ea51ae8",
      "license_note": "Commercial use generally not allowed (Libre Pathology:Copyrights); footer image alt text on one page says NC-SA 4.0, version inconsistent; paraphrase only, non-commercial use.",
      "tier": "T3",
      "tier_label": "Libre Pathology (community wiki)",
      "legitimacy": "Libre Pathology: volunteer-edited community wiki for pathologists and trainees, not peer-reviewed, no named review board; revision 2018; widely used as a quick reference; NC-SA licence, paraphrase only. Revision predates the WHO 2021 classification, so terms and grades may be outdated."
    },
    "librepath-astrocytoma": {
      "citation": "Libre Pathology, page 'Astrocytoma', revision 52177 dated 2022-10-17",
      "url": "https://librepathology.org/w/index.php?title=Astrocytoma&oldid=52177",
      "license": "CC BY-NC-SA 3.0 (Copyrights page says NC SA 3.0)",
      "verification": "raw wikitext fetched via action=raw on 2026-10-01 and read; snapshot is the raw wikitext; page may be older than current clinical practice; use: paraphrase only, non-commercial (Libre_Pathology:Copyrights says users are generally not allowed commercial use)",
      "snapshot": "data/datasets/knowledge-src/final-ebr/snapshots/librepath-astrocytoma.txt",
      "sha256": "9da53245f48f82ca2515eda8f0d8b0c0699260c677a9951e86e75dbe9de15ea7",
      "license_note": "Commercial use generally not allowed (Libre Pathology:Copyrights); footer image alt text on one page says NC-SA 4.0, version inconsistent; paraphrase only, non-commercial use.",
      "tier": "T3",
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      "citation": "Brancati N et al. BRACS: A Dataset for BReAst Carcinoma Subtyping in H&E Histology Images. arXiv:2111.04740 (2021).",
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      "citation": "Libre Pathology, page 'Atypical ductal hyperplasia', revision 44033 dated 2016-04-30",
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      "license": "CC BY-NC-SA 3.0 (Copyrights page says NC SA 3.0)",
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      "license_note": "Commercial use generally not allowed (Libre Pathology:Copyrights); footer image alt text on one page says NC-SA 4.0, version inconsistent; paraphrase only, non-commercial use.",
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      "tier_label": "Libre Pathology (community wiki)",
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      "url": "https://librepathology.org/w/index.php?title=Fibrocystic_breast_changes&oldid=40567",
      "license": "CC BY-NC-SA 3.0 (Copyrights page says NC SA 3.0)",
      "verification": "raw wikitext fetched via the MediaWiki API on 2026-10-01 and read; snapshot is the raw wikitext; page may be older than current practice",
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      "citation": "Libre Pathology, page 'Flat epithelial atypia', revision 44056 dated 2016-05-01",
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    },
    "librepath-florid-epithelial-hyperplasia": {
      "citation": "Libre Pathology, page 'Florid epithelial hyperplasia', revision 51409 dated 2021-09-02",
      "url": "https://librepathology.org/w/index.php?title=Florid_epithelial_hyperplasia&oldid=51409",
      "license": "CC BY-NC-SA 3.0 (Copyrights page says NC SA 3.0)",
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      "license_note": "Commercial use generally not allowed (Libre Pathology:Copyrights); footer image alt text on one page says NC-SA 4.0, version inconsistent; paraphrase only, non-commercial use.",
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      "legitimacy": "Libre Pathology: volunteer-edited community wiki for pathologists and trainees, not peer-reviewed, no named review board; revision 2021; widely used as a quick reference; NC-SA licence, paraphrase only."
    },
    "librepath-idc-breast": {
      "citation": "Libre Pathology, page 'Invasive ductal carcinoma of the breast', revision 49465 dated 2018-09-29",
      "url": "https://librepathology.org/w/index.php?title=Invasive_ductal_carcinoma_of_the_breast&oldid=49465",
      "license": "CC BY-NC-SA 3.0 (Copyrights page says NC SA 3.0)",
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      "license_note": "Commercial use generally not allowed (Libre Pathology:Copyrights); footer image alt text on one page says NC-SA 4.0, version inconsistent; paraphrase only, non-commercial use.",
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      "citation": "Libre Pathology, page 'Intraductal papilloma of the breast', revision 44312 dated 2016-05-09",
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      "license": "CC BY-NC-SA 3.0 (Copyrights page says NC SA 3.0)",
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      "license_note": "Commercial use generally not allowed (Libre Pathology:Copyrights); footer image alt text on one page says NC-SA 4.0, version inconsistent; paraphrase only, non-commercial use.",
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    "librepath-luad": {
      "citation": "Libre Pathology, page 'Adenocarcinoma of the lung', revision 51777 dated 2022-01-11",
      "url": "https://librepathology.org/w/index.php?title=Adenocarcinoma_of_the_lung&oldid=51777",
      "license": "CC BY-NC-SA 3.0 (Copyrights page says NC SA 3.0)",
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      "license_note": "Commercial use generally not allowed (Libre Pathology:Copyrights); footer image alt text on one page says NC-SA 4.0, version inconsistent; paraphrase only, non-commercial use.",
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      "tier_label": "Libre Pathology (community wiki)",
      "legitimacy": "Libre Pathology: volunteer-edited community wiki for pathologists and trainees, not peer-reviewed, no named review board; revision 2022; widely used as a quick reference; NC-SA licence, paraphrase only."
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    "librepath-lung-scc": {
      "citation": "Libre Pathology, page 'Squamous cell carcinoma of the lung', revision 46525 dated 2016-12-20",
      "url": "https://librepathology.org/w/index.php?title=Squamous_cell_carcinoma_of_the_lung&oldid=46525",
      "license": "CC BY-NC-SA 3.0 (Copyrights page says NC SA 3.0)",
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      "citation": "Libre Pathology, page 'Non-invasive breast carcinoma', revision 46815 dated 2017-01-23",
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      "citation": "Libre Pathology, page 'Sclerosing adenosis of the breast', revision 45869 dated 2016-09-08",
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      "license": "CC BY-NC-SA 3.0 (Copyrights page says NC SA 3.0)",
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      "license_note": "Commercial use generally not allowed (Libre Pathology:Copyrights); footer image alt text on one page says NC-SA 4.0, version inconsistent; paraphrase only, non-commercial use.",
      "tier": "T3",
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    },
    "pmc10309016": {
      "citation": "Perumandal S et al. DOG-1 as a Myoepithelial Marker in Discriminating Invasive Breast Carcinomas From Non-Invasive Breast Lesions. 2023. doi:10.7759/cureus.39676. PMC10309016",
      "url": "https://pmc.ncbi.nlm.nih.gov/articles/PMC10309016/",
      "license": "CC BY (version not stated in the licence statement) (licence statement read in the article text 2026-10-01)",
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      "year": 2023,
      "article_type": "original study (60 breast lesions, single centre)"
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      "citation": "Honma N et al. The Japanese breast cancer society clinical practice guidelines for pathological diagnosis of breast cancer, 2022 edition. 2024. doi:10.1007/s12282-023-01518-6. PMC10764572",
      "url": "https://pmc.ncbi.nlm.nih.gov/articles/PMC10764572/",
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      "citation": "Pan X et al. The artificial intelligence-based model ANORAK improves histopathological grading of lung adenocarcinoma. 2024. doi:10.1038/s43018-023-00694-w. PMC10899116",
      "url": "https://pmc.ncbi.nlm.nih.gov/articles/PMC10899116/",
      "license": "CC BY 4.0 (licence statement read in the article text 2026-10-01)",
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      "legitimacy": "Nature cancer (2024). Europe PMC publication types: Research Support, Non-U.S. Gov't, research-article, Journal Article, Research Support, N.I.H., Extramural. Indexed in PubMed Central / Europe PMC; open-access licence as recorded. Journal: high-impact specialist journal.",
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      "citation": "Marghescu AȘ et al. How Morphology Shapes Survival in Invasive Squamous Cell Carcinoma of the Lung. 2024. doi:10.3390/diagnostics14202264. PMC11505874",
      "url": "https://pmc.ncbi.nlm.nih.gov/articles/PMC11505874/",
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      "citation": "Niedermaier B et al. Intratumor Heterogeneity Predicts Prognosis in Lepidic Predominant Lung Adenocarcinoma. 2025. doi:10.1111/1759-7714.15536. PMC11729388",
      "url": "https://pmc.ncbi.nlm.nih.gov/articles/PMC11729388/",
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      "citation": "El Sheikh S et al. Diagnostic interobserver variability of atypia assessment in columnar cell lesions among a group of expert breast pathologists in the United Kingdom and the Republic of Ireland, on behalf of the UK national coordinating committee for breast pathology. 2025. doi:10.1111/his.15402. PMC11964577",
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      "year": 2025,
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      "citation": "Abolfathi H et al. A Comprehensive Evaluation of Clinicopathologic Characteristics, Molecular Features and Prognosis in Lung Adenocarcinoma with an Acinar Component. 2025. doi:10.3390/cancers17111825. PMC12153718",
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