uberanat
171 posts
uberanat
@uberanat
pan-metazoan anatomy knowledge base
terrestrial, marine 가입일 Ocak 2013
140 팔로잉136 팔로워
uberanat 리트윗함
Our short paper "Creation and unification of development and life stage ontologies for animals" (@ANiknejad @chrismungall Osumi-Sutherland @marc_rr @fred_bstn) is in the #ismb2022 @bioontologies Zenodo collection zenodo.org/record/6945852
All the collection zenodo.org/communities/bi…
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uberanat 리트윗함
uberanat 리트윗함
These specialised parasites (batflies) have co-evolved with their bat hosts for millions of years. They have developed a flat, hard body to prevent being crushed & velcro-like hairs & claws to hang on to their hosts' fur.
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uberanat 리트윗함
There are many other examples - you can see in @FAIRsharing_org some of these dependencies, for example Uberon below (and this misses many dependencies e.g @Hubmap @LINCSProgram ...)
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uberanat 리트윗함
New blog post on how @linkml_data helps use ontologies and vocabularies as part of data models and standards douroucouli.wordpress.com/2022/07/15/usi… 🧵
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uberanat 리트윗함
Our preprint on ODK, the #OntologyDevelopmentKit is up on @arxiv arxiv.org/abs/2207.02056. Thanks to @shawnzktan @NicoMatentzoglu and the whole team for your work on this. This is a lot of work on infrastructure that makes things work behind the scenes. So what is ODK exactly? 1/
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@Aella_Girl We have a wide range of intermittent organs in our animal anatomy ontology. They are all my faves. I see let's of great suggestions I this thread, we will have to add them! purl.obolibrary.org/obo/UBERON_000… @uberanat #PenisOntology
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Thanks for the shout-out, much appreciated! Fantastic work!
Arjun Krishnan@compbiologist
9/ This study stands on some terrific early work by then undergrad Marc Maldaver, along w/ contrib. from @annakopoulos & Lindsay Guare. Also thanks to folks at Uberon & Cell Ontology for maintaining these resources! Kudos to @ArrayExpressEBI for great work w/ curating #metadata.
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uberanat 리트윗함
Arjun Krishnan@compbiologist
1/ How can we all find & use >1mi public human omics samples when most #metadata is unstructured text? In our new preprint, @nat_hawkins_ proposes a new method to classify unstruct. sample metadata to terms in a tissue ontology by combining #NLP & #ML. doi.org/10.1101/2021.0…
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uberanat 리트윗함
Lady Gaga as sea urchins - a thread
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uberanat 리트윗함
There are many graph embedding algorithms, not all of them suitable for ontologies/KGs. Treating an ontology as a homogeneous graph omits information encoded in edge labels. Additionally, different edge labels have logical properties/rules (e.g. in uberon anatomy KG). 3/n
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Happy #ValentinesDay! The 🤎 has been associated with love since ancient Greece. While humans only have one kind of 🤎, there is a large diversity of pumping organs in animals. Our #ComparativeAnatomy ontology Uberon (@uberanat) has 12 different kinds of 🤎! Here are a few: 1/
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Hacker News has @OBOFoundry on the front page! Lots of good comments, some critical (and fair). Hope to get round thi addressing these.
Jerven Bolleman@jervenbolleman
OboFoundry on the front page of HN :) news.ycombinator.com/item?id=221019…
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The Spider Anatomy Ontology (SPD)—A Versatile Tool to Link Anatomy with Cross-Disciplinary Data mdpi.com/1424-2818/11/1…
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Visualizing comparisons between Uberon and species-specific ontologies and brain atlases with obographviz
Chris Mungall@chrismungall
New release of obographviz on npm - now with visualization of equivalence cliques; can be used to visualize similarity in two ontologies, e.g. human and mouse phenotype ontologies, or @uberanat and allen brain atlases. See wordpress.com/post/douroucou…
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uberanat 리트윗함
Also tried testing #TopAnat expression enrichment of genes coding for proteins annotated with Alzheimer’s in SwissProt @uniprot: few genes so not very significant, but top frontal pole makes sense
bgee.org/?page=top_anat…
genes from uniprot.org/uniprot/?query… #biocuration2019
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#MakeUrOntologyAwesome: I'm starting a series of "top tips" for #ontology development, based on my experience working with bio-ontology editors on a variety of projects.
douroucouli.wordpress.com/2019/03/09/ont… (1/6)
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