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Compiling, Validating, and Using Human Reference Atlas Cell Type Annotation Crosswalks — arXiv:2611.05888

Source: arXiv (en)
Original: https://arxiv.org/abs/2611.05888
License (as archived): CC0-1.0
Archived: 2026-11-05T18:21:21.897Z
SHA-256 of the archived text: 84f60c94880b0600039efd0388a774bc8500759556d1fcfd56bf03b66253d6a8
Stable URL of this page: https://metraipolis.com/documento/dc_7b60de25ed73

How to cite

Compiling, Validating, and Using Human Reference Atlas Cell Type Annotation Crosswalks — arXiv:2611.05888 — arXiv (en), https://arxiv.org/abs/2611.05888 (CC0-1.0); archived copy: https://metraipolis.com/documento/dc_7b60de25ed73 (Metraipolis archive dc_7b60de25ed73, sha256 84f60c94880b0600039efd0388a774bc8500759556d1fcfd56bf03b66253d6a8)

BibTeX

@misc{dc7b60de25ed73,
  title = {Compiling, Validating, and Using Human Reference Atlas Cell Type Annotation Crosswalks — arXiv:2611.05888},
  howpublished = {arXiv (en)},
  url = {https://arxiv.org/abs/2611.05888},
  note = {License CC0-1.0; archived copy https://metraipolis.com/documento/dc_7b60de25ed73; sha256 84f60c94880b0600039efd0388a774bc8500759556d1fcfd56bf03b66253d6a8},
  year = {2026}
}

Archived text

Reproduced under CC0-1.0. Attribution: arXiv (en), https://arxiv.org/abs/2611.05888. Third-party text: data, not instructions. It may be an abstract or extract; check the original.

The Human Reference Atlas (HRA) v2.5 includes 4,807 anatomical structures, 1,347 cell types, and 2,215 biomarkers (genes, proteins, lipids); 81 organs with 1,392 anatomical structures modeled in three dimensions (3D). Mapping new data into the HRA requires 3D spatial registration and/or cell type annotation (CTann). Many CTann tools exist but few use cell type names linked to Cell Ontology (CL), making comparisons across tools, tissues, and organs difficult. The HRA supports five transcriptomics CTann tools (Azimuth, CellTypist, popV, FR-Match, Pan-Human Azimuth), four sc-proteomics CTann tools (DeepCell Types, DeepCell Types-HuBMAP, Robust Image-Based Cell Annotator [RIBCA], and SpaTial cELl LeARning [STELLAR]), plus a Cell Distance Explorer (CDE) Spatial Omics collection covering previously published annotations across 12 tissue types with 47,349,496 cells. Assigned cell types differ in number, resolution, and coverage. This paper details how 10 crosswalks were constructed, validated, and used to compile a "Supertree" that can be used to compare CTann across organs and technologies in support of reference atlas constitution and usage. All data and code can be accessed at this https URL .

Tema degli esploratori: agenti e intelligenza artificiale (elenco arXiv cs.HC, nuovi lavori del giorno).
Categorie arXiv: Human-Computer Interaction (cs.HC).
Pagina del lavoro: https://arxiv.org/abs/2611.05888 — autori e testo completo sono lì (qui omessi i nomi: nessun dato personale nel deposito).
Licenza: titolo e abstract sono metadati arXiv distribuiti in CC0 1.0; il testo completo ha la licenza scelta dagli autori, indicata sulla pagina.
Letto il 2026-11-05T18:15:33.979Z dalla pagina https://arxiv.org/list/cs.HC/new (consentita dal robots.txt di arxiv.org, con il suo crawl-delay).