v2022-09-30

What's Changed

• Removing multiple xref mappings by @shawntanzk in #2625
• update mba bridge (2022-08-24) by @shawntanzk in #2629
• Add somatomotor area by @shawntanzk in #2632
• add gustatory cortex by @shawntanzk in #2631
• sagittal crest by @megbalk in #2635
• adding basion by @megbalk in #2596
• synsphenion and intersphenoid suture by @megbalk in #2599
• akrokranion by @megbalk in #2609
• creating prosthion by @megbalk in #2601
• adding cheek teeth by @megbalk in #2595
• Change ganglion's parent by @anitacaron in #2626
• Update bridge files by @anitacaron in #2645
• removing date from my entries by @megbalk in #2619
• Make lifecycle-to-zygote connection animal-specific. by @balhoff in #2574
• revising diastema definition by @megbalk in #2634
• creating cheek tooth row by @megbalk in #2639
• basion subclassof anatomical point by @megbalk in #2653
• fixes#2405-semitendinosus_tendon by @paulacalipho in #2654
• Exclude dc-contibutor from OBO checks by @anitacaron in #2660
• Fix life-stages-composite.owl by @anitacaron in #2659
• change GO:0060986 to GO:0046879 by @shawntanzk in #2663
• Make nipple part of mammary gland by @shawntanzk in #2628
• Addresses #2644 Question on anatomical modelling of 'dorsal root ganglion' and 'spinal nerve root' by @bvarner-ebi in #2665
• obsoleting 7500033 and 7500034 by @megbalk in #2647
• add rhinal incisure by @shawntanzk in #2633
• 2022-09-30 Release by @shawntanzk in #2668

Full Changelog: v2022-08-19...v2022-09-30

2022-08-19 Release

What's Changed

• Add MESH pattern check by @anitacaron in #2564
• Make notochord an organ by @shawntanzk in #2561
• update mba/dmba make goal link by @shawntanzk in #2567
• Make nucleus pulposus an organ by @shawntanzk in #2568
• edited defs for mixed layer cortical regions by @shawntanzk in #2547
• Ferret visual areas addition by @shawntanzk in #2534
• Fovt depreciate issue2333 by @megbalk in #2463
• Update RO import by @anitacaron in #2575
• Add excretory system by @gouttegd in #2497
• Addresses #2572 Revise pancreas organ definition by @bvarner-ebi in #2580
• Add synonyms for magnocellular part of medial dorsal nucleus by @shawntanzk in #2587
• Edit gallbladder and gallbladder primordium relation to biliary system by @shawntanzk in #2570
• add channels_from axiom to left subclavian artery by @shawntanzk in #2490
• fix #2391-NTR-anatomical_space_and_cavity by @paulacalipho in #2562
• Update RO import by @anitacaron in #2590
• change snout synonym by @megbalk in #2582
• Polysemy: trochlea of femur. Obsolete offending UBERON:7500077 by @vasvir in #2506
• creating sphenovomerine suture by @megbalk in #2579
• add magnocellular reticular nucleus by @shawntanzk in #2592
• update subcommissural organ def to include hypendymal cell by @shawntanzk in #2606
• Addresses #2493 merge: genital system into reproductive system by @bvarner-ebi in #2523
• revise definitions of Hard palate and Palatine bone by @nicolevasilevsky in #2604
• Remove part of genitourinary system from reproductive system by @shawntanzk in #2612
• Replace owltools --expand-macros with robot expand by @anitacaron in #2597
• Make zygote stage part of life cycle only in Metazoa. by @balhoff in #2530
• add lateral tegmental nucleus by @shawntanzk in #2591
• fix typo Ubeorn by @nlharris in #2620
• update go ro ncbitaxon import by @shawntanzk in #2623

New Contributors

• @nlharris made their first contribution in #2620

Full Changelog: v2022-06-30...v2022-08-19

2022-06-30 Release

What's Changed

• Changes to makefile for release by @shawntanzk in #2543
• Fixes #2528 iliac vein smooth muscle tissue by @paulacalipho in #2541
• Update Uberon release workflow by @shawntanzk in #2546
• Add missing subsets to odk config file by @anitacaron in #2550
• Fixes #2392 vasculature terms by @paulacalipho in #2549
• Remove bogus alt_ids. by @gouttegd in #2553
• Fix parent of some nerves by @anitacaron in #2518
• Update BSPO import by @anitacaron in #2554
• Clean staged subset files by @anitacaron in #2557
• Release 2022-06-30 by @anitacaron in #2558

New Contributors

• @paulacalipho made their first contribution in #2541

Full Changelog: v2022-06-20...v2022-06-30

2022-06-20 Release

What's Changed

• Fixes #2407 NTR sublumbar lymph node by @bvarner-ebi in #2500
• Clean up Bgee curator xrefs by @cthoyt in #2513
• First additions of terms for aba by @shawntanzk in #2484
• Added tuberal nucleus for rodents and fish by @shawntanzk in #2441
• Change braininfo.rprc.washington.edu to neuronames by @shawntanzk in #2520
• Associated with 2493 and 2514 by @bvarner-ebi in #2521
• swap left and right in unreasoned diff by @shawntanzk in #2522
• Major fixes to visual areas in the brain by @shawntanzk in #2450
• Update cl_import.owl by @shawntanzk in #2535
• Fix template based components by @matentzn in #2527
• Added superior paraolivary nucleus by @shawntanzk in #2525
• Adding Paula's ID range by @bvarner-ebi in #2538
• Overwriting mba/dmba bridge to custom component by @shawntanzk in #2529
• 2022-06-20 release by @shawntanzk in #2542

Full Changelog: v2022-05-27...v2022-06-20

2022-05-27 Release

What's Changed

• Update vasculature_class template by @anitacaron in #2475
• Add human_reference_atlas subset by @anitacaron in #2346
• Add taxon constraint check back by @matentzn in #2487
• Remove old alt ID by @shawntanzk in #2486
• Adding some additional checks to CI by @matentzn in #2488
• Auto refresh fbbt mappings by @gouttegd in #2492
• Addresses #2493 Update 'genital system' by @bvarner-ebi in #2494
• tubercle of calcaneus synonyms by @megbalk in #2481
• adding coracoid process of calcaneus by @megbalk in #2483
• Polysemy: temporal pole. Delete offending synonym from UBERON:0006479 by @vasvir in #2470
• Addresses #2493 Update 'genital system' [updates] by @bvarner-ebi in #2496
• Reformat the ID ranges file to proper Manchester syntax. by @gouttegd in #2501
• adding life-stages-minimal subset by @cmungall in #2425
• Update vasculature template by @anitacaron in #2503
• Release 27 May 2022 by @matentzn in #2502

Full Changelog: v2022-05-17...v2022-05-27

2022-05-17 release

What's Changed

• Uberon adding additional QC checks by @matentzn in #2435
• Clean up xrefs by @cthoyt in #2433
• Add Bgee anatomical homology to Menu by @matentzn in #2410
• Add new MESH xrefs by @bgyori in #2432
• Undoing EMAPA obsoletion by @matentzn in #2442
• 2198-taxon-reporting-pipeline by @ubyndr in #2408
• --left and --right argument adjustment by @ubyndr in #2444
• Add Ellen's ORCID to 4 lymph node terms by @paolaroncaglia in #2446
• Fix typo in def of UBERON:0001271 'pelvic girdle region' by @paolaroncaglia in #2447
• Add red bone marrow of iliac crest / sternum by @paolaroncaglia in #2448
• 2436 add automated diff to uberon by @ubyndr in #2443
• Map ZFA_0005829 to canal of Schlemm by @shawntanzk in #2414
• Edit 'external anal sphincter' and 'descending thin limb' by @paolaroncaglia in #2451
• Add taxon-specific GCIs for existential relations. by @balhoff in #2390
• Edit UBERON:0000382 'apocrine sweat gland' by @paolaroncaglia in #2454
• Add UBERON:8410081 'blood microvessel' and related edits by @paolaroncaglia in #2456
• updating def for astragalus head by @megbalk in #2460
• depreciating FOVT terms by @megbalk in #2457
• Edit equivalence axiom of 'capillary' by @paolaroncaglia in #2461
• Delete all external axioms on base file by @anitacaron in #2377
• Fix main branch (uberon-edit) by @matentzn in #2469
• preorbital edits by @megbalk in #2416
• bridges: Change relation to life cycle terms to BFO:0000066. by @gouttegd in #2466
• Fix sparql query to update bridge files by @anitacaron in #2471
• Update bridges by @matentzn in #2473
• Add Mammalia Taxon GCI for jugular vein to be partof neck by @shawntanzk in #2415
• Replace MeSH tree numbers with unique IDs by @rays22 in #2472
• sort vasculature table by @anitacaron in #2476
• Polysemy: gasserian ganglion. Obsolete offending UBERON:3011045 by @vasvir in #2465
• Uberon release 17 May 2022 by @matentzn in #2474

New Contributors

• @cthoyt made their first contribution in #2433
• @ubyndr made their first contribution in #2408
• @vasvir made their first contribution in #2465

Full Changelog: v2022-04-18...v2022-05-17

2022-04-18 release

What's Changed

• Mass clean 2022 by @matentzn in #2387
• Fixes #1801 NTR placental blood by @bvarner-ebi in #2379
• Update NBO import by @anitacaron in #2409
• Updating pro import by @shawntanzk in #2413
• Fix egg chamber by @gouttegd in #2426
• Replace MeSH tree numbers with IDs by @bgyori in #2431
• release 2022-04-18 by @matentzn in #2430

New Contributors

• @bgyori made their first contribution in #2431

Full Changelog: v2022-04-05...v2022-04-18

Uberon 2022-04-05

What's Changed

• Fix typos in defs of UBERON:0015222 and UBERON:0034767 by @paolaroncaglia in #2317
• Add syns + dbxref to 'Brodmann (1909) area 38' by @paolaroncaglia in #2319
• Add subcapsular sinus ceiling + floor by @paolaroncaglia in #2321
• Add plural synonyms to trabecula terms by @paolaroncaglia in #2322
• Edit some former children of 'anatomical junction' by @paolaroncaglia in #2323
• Disambiguate label of UBERON:4200169 'process 2' by @paolaroncaglia in #2324
• Add taxon constraints to some terms by @paolaroncaglia in #2325
• Add lymph node paracortical sinus and cord by @paolaroncaglia in #2326
• Add glomus coccygeum by @paolaroncaglia in #2327
• Update FBbt mappings by @gouttegd in #2298
• Remove restriction to latin-9 character set. by @gouttegd in #2316
• updated to ODK 1.3.0 by @shawntanzk in #2329
• Fixes #2335 major and minor kidney calyces miss-classified as renal v… by @bvarner-ebi in #2336
• Fix axioms on uncinate fasciculus and added disjoint for brainstem by @shawntanzk in #2343
• Obsolete children of insect anlage in statu nascendi. by @gouttegd in #2347
• Automatically ping PRs after one month of inactivity. by @gouttegd in #2351
• Add a new inSubset ROBOT template by @rays22 in #2196
• Do not ping unreviewed draft PRs. by @gouttegd in #2355
• Update bridge files by @anitacaron in #2359
• Fovt depreciate by @megbalk in #2334
• fix nerve plexus issues by @shawntanzk in #2314
• Issue 1698 by @wdahdul in #2002
• Add UBERON:8410077 airway submucosal gland by @paolaroncaglia in #2360
• Relaxed axiomatisaion of surface structure by @dosumis in #1781
• Fix label and synonyms for UBERON:8410070 by @paolaroncaglia in #2361
• Add UBERON:8410078 right lymphatic duct by @paolaroncaglia in #2362
• Issue 1623 by @megbalk in #2007
• Rename and re-classify 'panarthropod tagma` by @gouttegd in #2134
• adding upper tooth tsv by @megbalk in #2302
• new terms for #2035 by @cmungall in #2044
• Subarachnoid space should not be part of brain fixes #2006 by @cmungall in #2008
• Updating bridges 26 March 2022 by @matentzn in #2365
• Add obsolete report with replaced_by information by @anitacaron in #2372
• Add ID range for Joshua Fortriede by @JoshuaFortriede in #2380
• Release 2022 03 31 (easier review) by @matentzn in #2376

New Contributors

• @JoshuaFortriede made their first contribution in #2380

Full Changelog: v2022-02-21...2022-04-05

2022-02-21 Release

What's Changed

• Extend SPARQL to delete dot-definition by @anitacaron in #2200
• Remove spatial disjointness AP on PNS/CNS. by @gouttegd in #2202
• WIP: uberon pattern work by @cmungall in #2146
• Add synonym type properties for #1665 by @paolaroncaglia in #2226
• Add 3 TCs for #2194 by @paolaroncaglia in #2227
• Added part_of cerebral cortex to laminar subdivision of the cortex by @shawntanzk in #2217
• small intestine capillary #2150 by @paolaroncaglia in #2228
• Fix broken image links in uberon-edit.obo by @rays22 in #2234
• adding antorbital notch by @megbalk in #2221
• Fix typos for #2080 by @paolaroncaglia in #2236
• Add comment for #2111 by @paolaroncaglia in #2237
• Move 'zona limitans intrathalamica' under 'anatomical junction'. by @balhoff in #2219
• Added lymphoid nodule by @paolaroncaglia in #2243
• Added synonyms for Lymph_node_trabeculae #1749 by @paolaroncaglia in #2244
• made nerve plexus a subtype of anatomical junction, obophenotype/cell-ontology#1306 by @cmungall in #2181
• Fix string on euarch by @shawntanzk in #2248
• Edit for #1754 by @paolaroncaglia in #2251
• Pr import to use slim by @shawntanzk in #2252
• Changed all UBERON:2X terms with anatomical lines to anatomical junction by @shawntanzk in #2246
• adding synonym by @megbalk in #2245
• adding nasal bones by @megbalk in #2220
• Add synonym to UBERON:0003886 future coelemic cavity lumen by @paolaroncaglia in #2255
• Added UBERON:8410070 'levatores costarum' for #1904 by @paolaroncaglia in #2256
• Fix annotation for #1904 by @paolaroncaglia in #2257
• updated DEL (UBERON:2000711) label by @sabrinatoro in #2254
• Changed property_value taxon stuff to relationship by @shawntanzk in #2260
• Obsolete 'cestode' (UBERON:0018387). by @gouttegd in #2258
• Unify all attribution to ORCID using dct:contributor by @anitacaron in #2206
• Added RP3V by @shawntanzk in #2250
• Add sparql check for taxon range by @anitacaron in #2241
• Fix space mistake by @shawntanzk in #2265
• Change Makefile to remove uberon terms from pato and nbo imports by @shawntanzk in #2269
• adding rostrum by @megbalk in #2262
• moved bone-related terms under "surface structure" to "surface of bone" by @megbalk in #2247
• Fixed never_in_taxon in rostrum by @shawntanzk in #2271
• adding zygomatic arch sides by @megbalk in #2223
• Add test to check obo serialisation by @anitacaron in #2264
• new terms and edits related to pudendal structures, see https://pubmed.ncbi.nlm.nih.gov/33259666/ by @cmungall in #2170
• Fix typo in UBERON:0001272 by @paolaroncaglia in #2278
• Add UBERON:8410073 medullary region of kidney by @paolaroncaglia in #2279
• Reinstate obsolete terms by @anitacaron in #2277
• Edit UBERON:0001284 renal column by @paolaroncaglia in #2280
• Add comments to 'medullary region of kidney' and 'renal medulla' by @paolaroncaglia in #2282
• Add vasculature template by @anitacaron in #2209
• Added xrefs to defs by @shawntanzk in #2285
• Create upper_tooth_pattern.yaml by @megbalk in #2231
• insect dorsal vessel definitions by @cmungall in #2272
• Request to add new editor to uberon-idranges.owl by @bvarner-ebi in #2297
• Closes #2230 'glomerular visceral epithelium' should be part of (or merged with) glomerular visceral layer by @bvarner-ebi in #2299
• removed reflexive develops from by @shawntanzk in #2295
• Change equivalent-classes-allowed from none to asserted-only to generate materialized.owl by @anitacaron in #2306
• clean up makefile by @matentzn in #2307
• Increase severity of QC test by @matentzn in #2309
• Change external pudendal vein tributary_of to connected_to by @shawntanzk in #2304
• Changed parvicellular to parvocellular by @shawntanzk in #2311
• Remove Harderian gland taxon restriction by @rays22 in #2312
• Change vertebrate_skeletal_anatomy_curators from created_by to oboInOwl:source by @anitacaron in #2239
• Add contributor value check by @anitacaron in #2273

New Contributors

• @sabrinatoro made their first contribution in #2254
• @bvarner-ebi made their first contribution in #2297

Full Changelog: v2021-11-28...v2022-02-21

2021-11-28 release

• All release artefacts are now correctly versioned, without imports
• Ontology subsets (human, xenopus, metazoan and mouse view, as well as -basic subsets) are now published as "simple" files, i.e. without imported terms.
• The core release artefact has been retired, as it is not anymore needed (it was needed in the past when Uberon was co-curated by Phenoscape).