Dynamic Retrieval Augmented Generation of Ontologies using Artificial Intelligence (DRAGON-AI)

no code implementations • 18 Dec 2023 • Sabrina Toro, Anna V Anagnostopoulos, Sue Bello, Kai Blumberg, Rhiannon Cameron, Leigh Carmody, Alexander D Diehl, Damion Dooley, William Duncan, Petra Fey, Pascale Gaudet, Nomi L Harris, Marcin Joachimiak, Leila Kiani, Tiago Lubiana, Monica C Munoz-Torres, Shawn O'Neil, David Osumi-Sutherland, Aleix Puig, Justin P Reese, Leonore Reiser, Sofia Robb, Troy Ruemping, James Seager, Eric Sid, Ray Stefancsik, Magalie Weber, Valerie Wood, Melissa A Haendel, Christopher J Mungall

However, our results also underscore the importance of having expert curators and ontology editors drive the ontology generation process.

Retrieval

Creation and unification of development and life stage ontologies for animals

no code implementations • 24 Jun 2022 • Anne Niknejad, Christopher J. Mungall, David Osumi-Sutherland, Marc Robinson-Rechavi, Frederic B. Bastian

With the new era of genomics, an increasing number of animal species are amenable to large-scale data generation.

Anatomy

Guidelines for reporting cell types: the MIRACL standard

1 code implementation • 18 Apr 2022 • Tiago Lubiana, Paola Roncaglia, Christopher J. Mungall, Ellen M. Quardokus, Joshua D. Fortriede, David Osumi-Sutherland, Alexander D. Diehl

Cell types are at the root of modern biology, and describing them is a core task of the Human Cell Atlas project.

Cell types and ontologies of the Human Cell Atlas

no code implementations • 28 Jun 2021 • David Osumi-Sutherland, Chuan Xu, Maria Keays, Peter V. Kharchenko, Aviv Regev, Ed Lein, Sarah A. Teichmann

Massive single-cell profiling efforts have accelerated our discovery of the cellular composition of the human body, while at the same time raising the need to formalise this new knowledge.