From 70a47fc90f42f8b825aa9eb68786ba7216141164 Mon Sep 17 00:00:00 2001 From: napakalas Date: Tue, 21 Jul 2026 12:57:09 +1200 Subject: [PATCH 01/21] Fix incorrect S32 annotation in female svg. --- human_flatmap_female.svg | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/human_flatmap_female.svg b/human_flatmap_female.svg index 5fef6b9..29dcf8c 100644 --- a/human_flatmap_female.svg +++ b/human_flatmap_female.svg @@ -2478,7 +2478,7 @@ .class(spinal_33) id(S33_T3) - .id(S32_T1-Left) + .id(S32_T3-Left) From ff14864a99a638a4b6ca44908400fe87d040ee29 Mon Sep 17 00:00:00 2001 From: napakalas Date: Tue, 28 Jul 2026 13:58:01 +1200 Subject: [PATCH 02/21] Fix female term aliases and redraw celiac ganglion complex topology and oral/nasal cavities. --- anatomical_map.json | 2 +- connectivity_terms_female.json | 184 ++++++++------------------------- human_flatmap_female.svg | 70 ++++++++++++- properties.json | 81 +++++++++++++++ 4 files changed, 189 insertions(+), 148 deletions(-) diff --git a/anatomical_map.json b/anatomical_map.json index 9e05632..e1b3778 100644 --- a/anatomical_map.json +++ b/anatomical_map.json @@ -1813,7 +1813,7 @@ }, "label_30": { "term": "UBERON:0000167", - "name": "oral cavity" + "name": "mouth mucosa" }, "label_31": { "term": "UBERON:0001484", diff --git a/connectivity_terms_female.json b/connectivity_terms_female.json index d3974a4..a95a3f2 100644 --- a/connectivity_terms_female.json +++ b/connectivity_terms_female.json @@ -16,19 +16,6 @@ ] ] }, - { - "id": [ - "ILX:0738290", - [] - ], - "name": "inferior cervical ganglion - middle cervical ganglion interganglionic segment of the sympathetic chain", - "aliases": [ - [ - "ILX:0739241", - [] - ] - ] - }, { "id": [ "UBERON:0016578", @@ -36,7 +23,7 @@ "UBERON:0006457" ] ], - "name": "", + "name": "lamina VII of gray matter of spinal cord / T1 segment of thoracic spinal cord", "aliases": [ [ "ILX:0738371", @@ -141,61 +128,30 @@ }, { "id": [ - "ILX:0793082", + "UBERON:0002262", [] ], - "name": "celiac ganglion- superior mesenteric ganglion complex", + "name": "celiac ganglion", "aliases": [ - [ - "UBERON:0005488", - [] - ], - [ - "UBERON:0002010", - [] - ], - [ - "UBERON:0005479", - [] - ], - [ - "ILX:0793714", - [] - ], - [ - "UBERON:0002262", - [] - ], - [ - "UBERON:0035772", - [] - ], - [ - "ILX:0794730", - [] - ], - [ - "ILX:0794764", - [] - ], - [ - "ILX:0793821", - [] - ], - [ - "UBERON:0018676", - [] - ], [ "ILX:0795513", [] ], [ - "ILX:0795514", + "ILX:0795515", [] - ], + ] + ] + }, + { + "id": [ + "UBERON:0005479", + [] + ], + "name": "superior mesenteric ganglion", + "aliases": [ [ - "ILX:0795515", + "ILX:0795514", [] ], [ @@ -262,7 +218,7 @@ "UBERON:0006461" ] ], - "name": "", + "name": "lamina IX of gray matter of spinal cord / S2 segment of sacral spinal cord", "aliases": [ [ "UBERON:0022278", @@ -270,19 +226,6 @@ ] ] }, - { - "id": [ - "ILX:0738416", - [] - ], - "name": "rhabdosphincter of female", - "aliases": [ - [ - "UBERON:0004917", - [] - ] - ] - }, { "id": [ "UBERON:0006459", @@ -296,19 +239,6 @@ ] ] }, - { - "id": [ - "ILX:0786141", - [] - ], - "name": "fifth thoracic ganglion", - "aliases": [ - [ - "ILX:0793335", - [] - ] - ] - }, { "id": [ "UBERON:0006458", @@ -322,19 +252,6 @@ ] ] }, - { - "id": [ - "ILX:0789947", - [] - ], - "name": "sixth thoracic ganglion", - "aliases": [ - [ - "ILX:0793336", - [] - ] - ] - }, { "id": [ "ILX:0787082", @@ -374,19 +291,6 @@ ] ] }, - { - "id": [ - "UBERON:0001723", - [] - ], - "name": "tongue", - "aliases": [ - [ - "UBERON:0003729", - [] - ] - ] - }, { "id": [ "UBERON:0006462", @@ -494,7 +398,7 @@ "UBERON:0006460", [] ], - "name": "S1 segment", + "name": "S1 segment of sacral spinal cord", "aliases": [ [ "ILX:0793878", @@ -571,7 +475,7 @@ "UBERON:0006467", [] ], - "name": "", + "name": "T11 segment of thoracic spinal cord", "aliases": [ [ "ILX:0793815", @@ -606,10 +510,6 @@ [ "ILX:0793818", [] - ], - [ - "UBERON:0007716", - [] ] ] }, @@ -654,12 +554,12 @@ }, { "id": [ - "UBERON:0011776", + "UBERON:0004677", [ "UBERON:0006450" ] ], - "name": "dorsal commissural nucleus/second lumbar spinal cord segment", + "name": "Spinal cord gray commissure/second lumbar spinal cord segment", "aliases": [ [ "ILX:0793883", @@ -669,12 +569,12 @@ }, { "id": [ - "UBERON:0011776", + "UBERON:0004677", [ "UBERON:0006448" ] ], - "name": "dorsal commissural nucleus/first lumbar spinal cord segment", + "name": "Spinal cord gray commissure/first lumbar spinal cord segment", "aliases": [ [ "ILX:0793882", @@ -684,10 +584,10 @@ }, { "id": [ - "UBERON:0000995", + "UBERON:0002493", [] ], - "name": "uterus", + "name": "uterine artery", "aliases": [ [ "UBERON:0015173", @@ -789,19 +689,6 @@ ] ] }, - { - "id": [ - "UBERON:0018680", - [] - ], - "name": "greater splanchnic nerve", - "aliases": [ - [ - "UBERON:0018679", - [] - ] - ] - }, { "id": [ "UBERON:0001964", @@ -877,7 +764,7 @@ "UBERON:0005363", [] ], - "name": "", + "name": "inferior vagus X ganglion", "aliases": [ [ "ILX:0790316", @@ -1087,7 +974,9 @@ "aliases": [ [ "ILX:0795026", - [] + [], + "dorsal grey horn of T10", + "need check" ] ] }, @@ -1149,7 +1038,7 @@ [] ], "name": "renal artery", - "aliases":[ + "aliases": [ [ "ILX:0795058", [] @@ -1277,15 +1166,24 @@ }, { "id": [ - "ILX:0793658", + "UBERON:0001160", [] ], - "name": "Proximal stomach", + "name": "Fundus of stomach", "aliases": [ [ "UBERON:0005477", [] - ], + ] + ] + }, + { + "id": [ + "ILX:0793658", + [] + ], + "name": "Proximal stomach", + "aliases": [ [ "UBERON:0001161", [] diff --git a/human_flatmap_female.svg b/human_flatmap_female.svg index 29dcf8c..d71dc9b 100644 --- a/human_flatmap_female.svg +++ b/human_flatmap_female.svg @@ -22896,7 +22896,7 @@ - .id(digestive_81-1) + <Group> @@ -22930,8 +22930,31 @@ - + + .boundary + + + .invisible divider + + + .invisible divider + + + .invisible divider + + + .region id(digestive_81-1) + + + .region id(digestive_118-1) + + + .region id(respiratory_13-1) + + + .region id(digestive_27-1) + .id(digestive_80-1) @@ -42746,7 +42769,10 @@ .id(digestive_91-1) - + + .id(urethral_sphincter) + + .id(urinary_15-1) @@ -43326,6 +43352,18 @@ .id(ganglion_37-1) + + .id(ganglion_39-1) + + + .id(ganglion_40-1) + + + .id(ganglion_41-1) + + + .id(ganglion_42-1) + centrelines @@ -44770,6 +44808,21 @@ .id(plexus_30-1) + + .id(plexus_31-1) name(prevertebral sympathetic ganglion in abdominal aortic plexus) + + + .id(plexus_32-1) name(aortic plexus) + + + .id(plexus_33-1) name(celiac nerve plexus) + + + .id(plexus_34-1) name(superior mesenteric plexus) + + + .id(plexus_35-1) name(renal nerve plexus) + cuffs @@ -45082,7 +45135,7 @@ .id(auriculotemporal_c) - + .id(splanchnic_n-4_c) @@ -45118,5 +45171,14 @@ .id(clitoral_cavernous_c) + + .id(ansa_subclavia_c) + + + .id(thoracic_splanchnic_nerve_c) + + + .id(mesenteric_nerve_c) + \ No newline at end of file diff --git a/properties.json b/properties.json index 7376039..2a1f3dc 100644 --- a/properties.json +++ b/properties.json @@ -2737,6 +2737,30 @@ "type": "ganglion", "class": "auto-hide" }, + "ganglion_39-1": { + "models": "UBERON:0002262", + "name": "celiac ganglion", + "type": "ganglion", + "class": "auto-hide" + }, + "ganglion_40-1": { + "models": "UBERON:0005479", + "name": "superior mesenteric ganglion", + "type": "ganglion", + "class": "auto-hide" + }, + "ganglion_41-1": { + "models": "ILX:0794730", + "name": "aorticorenal ganglion", + "type": "ganglion", + "class": "auto-hide" + }, + "ganglion_42-1": { + "models": "ILX:0794764", + "name": "suprarenal ganglion", + "type": "ganglion", + "class": "auto-hide" + }, "body_1-1": { "class": "body_1" }, @@ -2902,6 +2926,11 @@ "name": "Oculomotor nerve", "type": "nerve" }, + "thoracic_splanchnic_nerve_c": { + "models": "UBERON:0018679", + "name": "thoracic splanchnic nerve", + "type": "nerve" + }, "red_nucleus": { "models": "UBERON:0001947", "name": "Red nucleus" @@ -3145,6 +3174,9 @@ "digestive_26-1": { "class": "digestive_26" }, + "digestive_27-1": { + "class": "digestive_27" + }, "digestive_31-1": { "class": "digestive_31" }, @@ -3424,6 +3456,10 @@ "digestive_117-1": { "class": "digestive_117" }, + "digestive_118-1": { + "models": "UBERON:0009959", + "name": "oropharynx lumen" + }, "skeleton_1-1": { "class": "skeleton_1" }, @@ -3676,6 +3712,9 @@ "respiratory_12-1": { "class": "respiratory_12" }, + "respiratory_13-1": { + "class": "respiratory_13" + }, "respiratory_16-1": { "class": "respiratory_16" }, @@ -4163,6 +4202,36 @@ "type": "ganglion", "class": "auto-hide" }, + "plexus_31-1": { + "models": "ILX:0793821", + "name": "prevertebral sympathetic ganglion in abdominal aortic plexus", + "type": "ganglion", + "class": "auto-hide" + }, + "plexus_32-1": { + "models": "UBERON:0035772", + "name": "aortic plexus", + "type": "ganglion", + "class": "auto-hide" + }, + "plexus_33-1": { + "models": "UBERON:0002010", + "name": "celiac nerve plexus", + "type": "ganglion", + "class": "auto-hide" + }, + "plexus_34-1": { + "models": "UBERON:0005488", + "name": "superior mesenteric plexus", + "type": "ganglion", + "class": "auto-hide" + }, + "plexus_35-1": { + "models": "UBERON:0018676", + "name": "renal nerve plexus", + "type": "ganglion", + "class": "auto-hide" + }, "label_8-1": { "class": "label_8" }, @@ -4247,6 +4316,10 @@ "label_35-1": { "class": "label_35" }, + "urethral_sphincter": { + "models": "UBERON:0004917", + "name": "urethral sphincter" + }, "vagus_1": { "type": "nerve", "models": "ILX:0793829" @@ -4676,6 +4749,14 @@ }, "ardell_6_c": { "type": "nerve" + }, + "ansa_subclavia_c": { + "type": "nerve", + "models": "ILX:0739241" + }, + "mesenteric_nerve_c": { + "type": "nerve", + "models": "ILX:0793714" } }, "networks": [ From 1a47157d68de747366c6130becb06249f4b67ccd Mon Sep 17 00:00:00 2001 From: napakalas Date: Tue, 28 Jul 2026 13:58:16 +1200 Subject: [PATCH 03/21] Fix male term aliases and redraw celiac ganglion complex topology and oral/nasal cavities --- connectivity_terms_male.json | 180 +++++++---------------------------- human_flatmap_male.svg | 68 ++++++++++++- 2 files changed, 101 insertions(+), 147 deletions(-) diff --git a/connectivity_terms_male.json b/connectivity_terms_male.json index b55c37f..23c4636 100644 --- a/connectivity_terms_male.json +++ b/connectivity_terms_male.json @@ -1,17 +1,4 @@ [ - { - "id": [ - "ILX:0738290", - [] - ], - "name": "inferior cervical ganglion - middle cervical ganglion interganglionic segment of the sympathetic chain", - "aliases": [ - [ - "ILX:0739241", - [] - ] - ] - }, { "id": [ "UBERON:0016578", @@ -19,7 +6,7 @@ "UBERON:0006457" ] ], - "name": "", + "name": "lamina VII of gray matter of spinal cord / T1 segment of thoracic spinal cord", "aliases": [ [ "ILX:0738371", @@ -124,61 +111,30 @@ }, { "id": [ - "ILX:0793082", + "UBERON:0002262", [] ], - "name": "celiac ganglion- superior mesenteric ganglion complex", + "name": "celiac ganglion", "aliases": [ - [ - "UBERON:0005488", - [] - ], - [ - "UBERON:0002010", - [] - ], - [ - "UBERON:0005479", - [] - ], - [ - "ILX:0793714", - [] - ], - [ - "UBERON:0002262", - [] - ], - [ - "UBERON:0035772", - [] - ], - [ - "ILX:0794730", - [] - ], - [ - "ILX:0794764", - [] - ], - [ - "ILX:0793821", - [] - ], - [ - "UBERON:0018676", - [] - ], [ "ILX:0795513", [] ], [ - "ILX:0795514", + "ILX:0795515", [] - ], + ] + ] + }, + { + "id": [ + "UBERON:0005479", + [] + ], + "name": "superior mesenteric ganglion", + "aliases": [ [ - "ILX:0795515", + "ILX:0795514", [] ], [ @@ -245,7 +201,7 @@ "UBERON:0006461" ] ], - "name": "", + "name": "lamina IX of gray matter of spinal cord / S2 segment of sacral spinal cord", "aliases": [ [ "UBERON:0022278", @@ -253,32 +209,6 @@ ] ] }, - { - "id": [ - "ILX:0738408", - [] - ], - "name": "rhabdosphincter of male", - "aliases": [ - [ - "UBERON:0004917", - [] - ] - ] - }, - { - "id": [ - "ILX:0789947", - [] - ], - "name": "sixth thoracic ganglion", - "aliases": [ - [ - "ILX:0793336", - [] - ] - ] - }, { "id": [ "UBERON:0006458", @@ -305,19 +235,6 @@ ] ] }, - { - "id": [ - "ILX:0786141", - [] - ], - "name": "fifth thoracic ganglion", - "aliases": [ - [ - "ILX:0793335", - [] - ] - ] - }, { "id": [ "UBERON:0006452", @@ -370,19 +287,6 @@ ] ] }, - { - "id": [ - "UBERON:0001723", - [] - ], - "name": "tongue", - "aliases": [ - [ - "UBERON:0003729", - [] - ] - ] - }, { "id": [ "UBERON:0006461", @@ -447,7 +351,7 @@ "UBERON:0006460", [] ], - "name": "", + "name": "S1 segment of sacral spinal cord", "aliases": [ [ "ILX:0793878", @@ -580,7 +484,7 @@ "UBERON:0006467", [] ], - "name": "", + "name": "T11 segment of thoracic spinal cord", "aliases": [ [ "ILX:0793815", @@ -590,12 +494,12 @@ }, { "id": [ - "UBERON:0011776", + "UBERON:0004677", [ "UBERON:0006450" ] ], - "name": "dorsal commissural nucleus/second lumbar spinal cord segment", + "name": "Spinal cord gray commissure/second lumbar spinal cord segment", "aliases": [ [ "ILX:0793883", @@ -605,12 +509,12 @@ }, { "id": [ - "UBERON:0011776", + "UBERON:0004677", [ "UBERON:0006448" ] ], - "name": "dorsal commissural nucleus/first lumbar spinal cord segment", + "name": "Spinal cord gray commissure/first lumbar spinal cord segment", "aliases": [ [ "ILX:0793882", @@ -645,10 +549,6 @@ [ "ILX:0793818", [] - ], - [ - "UBERON:0007716", - [] ] ] }, @@ -716,19 +616,6 @@ ] ] }, - { - "id": [ - "UBERON:0018680", - [] - ], - "name": "greater splanchnic nerve", - "aliases": [ - [ - "UBERON:0018679", - [] - ] - ] - }, { "id": [ "UBERON:0001964", @@ -804,7 +691,7 @@ "UBERON:0005363", [] ], - "name": "", + "name": "inferior vagus X ganglion", "aliases": [ [ "ILX:0790316", @@ -826,10 +713,6 @@ [ "UBERON:0004820", [] - ], - [ - "UBERON:0001279", - [] ] ] }, @@ -1076,7 +959,7 @@ [] ], "name": "renal artery", - "aliases":[ + "aliases": [ [ "ILX:0795058", [] @@ -1217,15 +1100,24 @@ }, { "id": [ - "ILX:0793658", + "UBERON:0001160", [] ], - "name": "Proximal stomach", + "name": "Fundus of stomach", "aliases": [ [ "UBERON:0005477", [] - ], + ] + ] + }, + { + "id": [ + "ILX:0793658", + [] + ], + "name": "Proximal stomach", + "aliases": [ [ "UBERON:0001161", [] diff --git a/human_flatmap_male.svg b/human_flatmap_male.svg index 4e72812..38a9742 100644 --- a/human_flatmap_male.svg +++ b/human_flatmap_male.svg @@ -3322,7 +3322,7 @@ - .id(digestive_81-1) + <Group> @@ -3356,8 +3356,31 @@ - + + .boundary + + + .invisible divider + + + .invisible divider + + + .invisible divider + + + .region id(digestive_81-1) + + + .region id(digestive_118-1) + + + .region id(respiratory_13-1) + + + .region id(digestive_27-1) + .id(digestive_80-1) @@ -23905,7 +23928,10 @@ .id(digestive_91-1) - + + .id(urethral_sphincter) + + .id(urinary_17-1) @@ -24398,6 +24424,18 @@ .id(ganglion_37-1) + + .id(ganglion_39-1) + + + .id(ganglion_40-1) + + + .id(ganglion_41-1) + + + .id(ganglion_42-1) + centrelines @@ -25631,6 +25669,15 @@ .id(lingual_c) + + .id(ansa_subclavia_c) + + + .id(thoracic_splanchnic_nerve_c) + + + .id(mesenteric_nerve_c) + nodes @@ -26213,6 +26260,21 @@ .id(plexus_29-1) + + .id(plexus_31-1) name(prevertebral sympathetic ganglion in abdominal aortic plexus) + + + .id(plexus_32-1) name(aortic plexus) + + + .id(plexus_33-1) name(celiac nerve plexus) + + + .id(plexus_34-1) name(superior mesenteric plexus) + + + .id(plexus_35-1) name(renal nerve plexus) + .id(vagus_4) From afd619ab666620200d853c8b8eb024e382551afe Mon Sep 17 00:00:00 2001 From: napakalas Date: Wed, 29 Jul 2026 11:33:53 +1200 Subject: [PATCH 04/21] Adjust ganglia and plexus positions around the celiac ganglion complex. --- human_flatmap_female.svg | 30 ++++++++++++++++-------------- human_flatmap_male.svg | 30 ++++++++++++++++-------------- properties.json | 12 ++++++------ 3 files changed, 38 insertions(+), 34 deletions(-) diff --git a/human_flatmap_female.svg b/human_flatmap_female.svg index d71dc9b..12f0458 100644 --- a/human_flatmap_female.svg +++ b/human_flatmap_female.svg @@ -43352,16 +43352,16 @@ .id(ganglion_37-1) - + .id(ganglion_39-1) - + .id(ganglion_40-1) - + .id(ganglion_41-1) - + .id(ganglion_42-1) @@ -44808,19 +44808,21 @@ .id(plexus_30-1) - - .id(plexus_31-1) name(prevertebral sympathetic ganglion in abdominal aortic plexus) - - - .id(plexus_32-1) name(aortic plexus) - - + + + .id(plexus_32-1) name(aortic plexus) + + + .id(ganglion_43-1) + + + .id(plexus_33-1) name(celiac nerve plexus) - + .id(plexus_34-1) name(superior mesenteric plexus) - + .id(plexus_35-1) name(renal nerve plexus) @@ -45177,7 +45179,7 @@ .id(thoracic_splanchnic_nerve_c) - + .id(mesenteric_nerve_c) diff --git a/human_flatmap_male.svg b/human_flatmap_male.svg index 38a9742..00bb39e 100644 --- a/human_flatmap_male.svg +++ b/human_flatmap_male.svg @@ -24424,16 +24424,16 @@ .id(ganglion_37-1) - + .id(ganglion_39-1) - + .id(ganglion_40-1) - + .id(ganglion_41-1) - + .id(ganglion_42-1) @@ -25675,7 +25675,7 @@ .id(thoracic_splanchnic_nerve_c) - + .id(mesenteric_nerve_c) @@ -26260,19 +26260,21 @@ .id(plexus_29-1) - - .id(plexus_31-1) name(prevertebral sympathetic ganglion in abdominal aortic plexus) - - - .id(plexus_32-1) name(aortic plexus) - - + + + .id(plexus_32-1) name(aortic plexus) + + + .id(ganglion_43-1) + + + .id(plexus_33-1) name(celiac nerve plexus) - + .id(plexus_34-1) name(superior mesenteric plexus) - + .id(plexus_35-1) name(renal nerve plexus) diff --git a/properties.json b/properties.json index 2a1f3dc..fd4fa22 100644 --- a/properties.json +++ b/properties.json @@ -2761,6 +2761,12 @@ "type": "ganglion", "class": "auto-hide" }, + "ganglion_43-1": { + "models": "ILX:0793821", + "name": "prevertebral sympathetic ganglion in abdominal aortic plexus", + "type": "ganglion", + "class": "auto-hide" + }, "body_1-1": { "class": "body_1" }, @@ -4202,12 +4208,6 @@ "type": "ganglion", "class": "auto-hide" }, - "plexus_31-1": { - "models": "ILX:0793821", - "name": "prevertebral sympathetic ganglion in abdominal aortic plexus", - "type": "ganglion", - "class": "auto-hide" - }, "plexus_32-1": { "models": "UBERON:0035772", "name": "aortic plexus", From 3fa2516e0374b52472c88033d5b82eb805200631 Mon Sep 17 00:00:00 2001 From: napakalas Date: Wed, 29 Jul 2026 15:10:24 +1200 Subject: [PATCH 05/21] Tidy up. --- connectivity_terms_female.json | 4 +--- 1 file changed, 1 insertion(+), 3 deletions(-) diff --git a/connectivity_terms_female.json b/connectivity_terms_female.json index a95a3f2..f55366f 100644 --- a/connectivity_terms_female.json +++ b/connectivity_terms_female.json @@ -974,9 +974,7 @@ "aliases": [ [ "ILX:0795026", - [], - "dorsal grey horn of T10", - "need check" + [] ] ] }, From f123f647e59a9ac82c84586bf7eb9a3f0e208169 Mon Sep 17 00:00:00 2001 From: napakalas Date: Thu, 30 Jul 2026 11:40:08 +1200 Subject: [PATCH 06/21] Adjust nerve and ganglion locations along CN IX. --- human_flatmap_female.svg | 82 ++++++++++++++++++++-------------------- human_flatmap_male.svg | 46 +++++++++++----------- 2 files changed, 64 insertions(+), 64 deletions(-) diff --git a/human_flatmap_female.svg b/human_flatmap_female.svg index 12f0458..1731a48 100644 --- a/human_flatmap_female.svg +++ b/human_flatmap_female.svg @@ -43286,7 +43286,7 @@ .id(ganglion_5-1) - + .id(ganglion_12-1) @@ -43631,21 +43631,12 @@ .centreline id(bolser_10) - - .centreline id(bolser_12) - - - .centreline id(bolser_13) - .centreline id(bolser_26) .centreline id(ardell_4) - - .centreline id(PH_GN) - .centreline id(bolser_14) @@ -44159,22 +44150,31 @@ .centreline id(L5_S1_cns) - + + .centreline id(S1_S2_cns) + + + .centreline id(bolser_12) + + + .centreline id(bolser_13) + + + .centreline id(PH_GN) + + .centreline id(bolser_11) - + .centreline id(bolser_31) - + .centreline id(bolser_25) - - .centreline id(S1_S2_cns) - - + .centreline id(tympanic) - + .centreline id(less_pet) @@ -44327,31 +44327,31 @@ .node id(point_38) - + .node id(point_40) - + .node id(point_41) - + .node id(point_42) - + .node id(point_44) - + .node id(point_45) - + .node id(point_46) - + .node id(point_47) - + .node id(point_49) - + .node id(point_50) @@ -45035,18 +45035,6 @@ .id(bolser_114) - - .id(bolser_106) - - - .id(bolser_108) - - - .id(bolser_115) - - - .id(bolser_107) - .id(bolser_9_c) @@ -45113,10 +45101,22 @@ .id(splanchnic) - + + .id(bolser_106) + + + .id(bolser_108) + + + .id(bolser_115) + + + .id(bolser_107) + + .id(tymp) - + .id(lesser_petrosal) diff --git a/human_flatmap_male.svg b/human_flatmap_male.svg index 00bb39e..ed7d82c 100644 --- a/human_flatmap_male.svg +++ b/human_flatmap_male.svg @@ -24358,7 +24358,7 @@ .id(ganglion_5-1) - + .id(ganglion_12-1) @@ -24628,19 +24628,19 @@ .centreline id(bolser_10) - + .centreline id(bolser_11) - + .centreline id(bolser_31) - + .centreline id(bolser_25) - + .centreline id(bolser_12) - + .centreline id(bolser_13) @@ -24649,7 +24649,7 @@ .centreline id(ardell_4) - + .centreline id(PH_GN) @@ -25219,13 +25219,13 @@ .centreline id(bolser_2) name(recurrent laryngeal nerve to epiglottis) - - .centreline id(tympanic) - .centreline id(CNVII) - + + .centreline id(tympanic) + + .centreline id(less_pet) @@ -25516,16 +25516,16 @@ .id(bolser_114) - + .id(bolser_106) - + .id(bolser_108) - + .id(bolser_115) - + .id(bolser_107) @@ -25594,10 +25594,10 @@ .id(splanchnic) - + .id(tymp) - + .id(lesser_petrosal) @@ -25780,19 +25780,19 @@ .node id(point_38) - + .node id(point_40) .node id(point_41) - + .node id(point_42) - + .node id(point_44) - + .node id(point_45) @@ -25801,10 +25801,10 @@ .node id(point_47) - + .node id(point_49) - + .node id(point_50) From f5368a33acd67e82b47aa2a04dd2a8df33c288e8 Mon Sep 17 00:00:00 2001 From: napakalas Date: Thu, 30 Jul 2026 15:30:14 +1200 Subject: [PATCH 07/21] Adjust aliasing and proxies related to the liver and portal triad. --- connectivity_terms_female.json | 33 --------------------------------- connectivity_terms_male.json | 29 ----------------------------- human_flatmap_female.svg | 15 +++++++++++++++ human_flatmap_male.svg | 15 +++++++++++++++ properties.json | 26 ++++++++++++++++++++++++++ proxy_features.json | 7 +++++++ 6 files changed, 63 insertions(+), 62 deletions(-) diff --git a/connectivity_terms_female.json b/connectivity_terms_female.json index f55366f..dca0913 100644 --- a/connectivity_terms_female.json +++ b/connectivity_terms_female.json @@ -786,47 +786,14 @@ [ "UBERON:0004820", [] - ] - ] - }, - { - "id": [ - "UBERON:0002107", - [] - ], - "name": "liver", - "aliases": [ - [ - "UBERON:0001281", - [] - ], - [ - "UBERON:0006729", - [] - ], - [ - "UBERON:0004647", - [] - ], - [ - "UBERON:0001172", - [] ], [ "ILX:0795016", [] ], - [ - "ILX:0795010", - [] - ], [ "UBERON:0015423", [] - ], - [ - "UBERON:0001279", - [] ] ] }, diff --git a/connectivity_terms_male.json b/connectivity_terms_male.json index 23c4636..086f5bd 100644 --- a/connectivity_terms_male.json +++ b/connectivity_terms_male.json @@ -713,40 +713,11 @@ [ "UBERON:0004820", [] - ] - ] - }, - { - "id": [ - "UBERON:0002107", - [] - ], - "name": "liver", - "aliases": [ - [ - "UBERON:0001281", - [] - ], - [ - "UBERON:0006729", - [] - ], - [ - "UBERON:0004647", - [] - ], - [ - "UBERON:0001172", - [] ], [ "ILX:0795016", [] ], - [ - "ILX:0795010", - [] - ], [ "UBERON:0015423", [] diff --git a/human_flatmap_female.svg b/human_flatmap_female.svg index 1731a48..3dd2e85 100644 --- a/human_flatmap_female.svg +++ b/human_flatmap_female.svg @@ -43226,6 +43226,18 @@ .id(digestive_115-1) + + .id(digestive_119-1) + + + .id(digestive_120-1) + + + .id(digestive_121-1) + + + .id(digestive_122-1) + .id(digestive_47-1) @@ -43364,6 +43376,9 @@ .id(ganglion_42-1) + + .id(ganglion_45-1) + centrelines diff --git a/human_flatmap_male.svg b/human_flatmap_male.svg index ed7d82c..98dd52b 100644 --- a/human_flatmap_male.svg +++ b/human_flatmap_male.svg @@ -24331,6 +24331,18 @@ .id(digestive_115-1) + + .id(digestive_119-1) + + + .id(digestive_120-1) + + + .id(digestive_121-1) + + + .id(digestive_122-1) + .id(digestive_47-1) @@ -24436,6 +24448,9 @@ .id(ganglion_42-1) + + .id(ganglion_45-1) + centrelines diff --git a/properties.json b/properties.json index fd4fa22..de2a0c8 100644 --- a/properties.json +++ b/properties.json @@ -2767,6 +2767,12 @@ "type": "ganglion", "class": "auto-hide" }, + "ganglion_45-1": { + "models": "ILX:0795010", + "name": "parasympathetic ganglia of the liver", + "type": "ganglion", + "class": "auto-hide" + }, "body_1-1": { "class": "body_1" }, @@ -3466,6 +3472,26 @@ "models": "UBERON:0009959", "name": "oropharynx lumen" }, + "digestive_119-1": { + "models": "UBERON:0001172", + "name": "hepatic acinus" + }, + "digestive_120-1": { + "models": "UBERON:0001281", + "name": "hepatic sinusoid" + }, + "digestive_121-1": { + "models": "UBERON:0004647", + "name": "liver lobule" + }, + "digestive_122-1": { + "models": "UBERON:0006729", + "name": "liver perisinusoidal space" + }, + "digestive_123-1": { + "models": "ILX:0795016", + "name": "liver perisinusoidal space" + }, "skeleton_1-1": { "class": "skeleton_1" }, diff --git a/proxy_features.json b/proxy_features.json index d062c4e..7fbb39d 100644 --- a/proxy_features.json +++ b/proxy_features.json @@ -919,5 +919,12 @@ "proxies": [ "ILX:0788282" ] + }, + { + "feature": "UBERON:0001279", + "name": "portal triad", + "proxies": [ + "UBERON:0002394" + ] } ] From a442f5851afd432e6c52e8ed2d8203851c7cee10 Mon Sep 17 00:00:00 2001 From: napakalas Date: Fri, 31 Jul 2026 15:05:17 +1200 Subject: [PATCH 08/21] Correct the annotation term use for mouth mucosa. --- anatomical_map.json | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/anatomical_map.json b/anatomical_map.json index e1b3778..3fcdbd0 100644 --- a/anatomical_map.json +++ b/anatomical_map.json @@ -1812,7 +1812,7 @@ "name": "face" }, "label_30": { - "term": "UBERON:0000167", + "term": "UBERON:0003729", "name": "mouth mucosa" }, "label_31": { From 67b3d549fff1b669c83ff6ac1fe970ebedc0ccea Mon Sep 17 00:00:00 2001 From: napakalas Date: Tue, 4 Aug 2026 13:08:15 +1200 Subject: [PATCH 09/21] Adjust aliasing, proxies, and drawing related to the kidney. --- connectivity_terms_female.json | 45 ++++-------- connectivity_terms_male.json | 45 ++++-------- human_flatmap_female.svg | 121 ++++++++++++++++++++++++--------- human_flatmap_male.svg | 121 ++++++++++++++++++++++++--------- properties.json | 78 +++++++++++++++++---- proxy_features.json | 8 --- 6 files changed, 270 insertions(+), 148 deletions(-) diff --git a/connectivity_terms_female.json b/connectivity_terms_female.json index dca0913..f0e3abf 100644 --- a/connectivity_terms_female.json +++ b/connectivity_terms_female.json @@ -704,57 +704,38 @@ }, { "id": [ - "UBERON:0002113", + "UBERON:0002303", [] ], - "name": "kidney", + "name": "juxtaglomerular apparatus", "aliases": [ - [ - "UBERON:0009773", - [] - ], [ "UBERON:0004639", [] ], - [ - "UBERON:0002303", - [] - ], [ "UBERON:0004640", [] ], - [ - "UBERON:0001224", - [] - ], - [ - "UBERON:0003517", - [] - ], [ "UBERON:0001230", [] ], - [ - "UBERON:0005006", - [] - ], - [ - "UBERON:0001225", - [] - ], [ "UBERON:0006853", [] - ], - [ - "UBERON:0006851", - [] - ], + ] + ] + }, + { + "id": [ + "UBERON:0001224", + [] + ], + "name": "renal pelvis", + "aliases": [ [ - "ILX:0795056", + "UBERON:0005006", [] ] ] diff --git a/connectivity_terms_male.json b/connectivity_terms_male.json index 086f5bd..e526a91 100644 --- a/connectivity_terms_male.json +++ b/connectivity_terms_male.json @@ -631,57 +631,38 @@ }, { "id": [ - "UBERON:0002113", + "UBERON:0002303", [] ], - "name": "kidney", + "name": "juxtaglomerular apparatus", "aliases": [ - [ - "UBERON:0009773", - [] - ], [ "UBERON:0004639", [] ], - [ - "UBERON:0002303", - [] - ], [ "UBERON:0004640", [] ], - [ - "UBERON:0001224", - [] - ], - [ - "UBERON:0003517", - [] - ], [ "UBERON:0001230", [] ], - [ - "UBERON:0005006", - [] - ], - [ - "UBERON:0001225", - [] - ], [ "UBERON:0006853", [] - ], - [ - "UBERON:0006851", - [] - ], + ] + ] + }, + { + "id": [ + "UBERON:0001224", + [] + ], + "name": "renal pelvis", + "aliases": [ [ - "ILX:0795056", + "UBERON:0005006", [] ] ] diff --git a/human_flatmap_female.svg b/human_flatmap_female.svg index 3dd2e85..a63db8b 100644 --- a/human_flatmap_female.svg +++ b/human_flatmap_female.svg @@ -26186,7 +26186,7 @@ .id(digestive_52-5) - + .id(urinary_12-Left) @@ -26215,14 +26215,31 @@ - + - + + .boundary + + + .invisible divider + + + .invisible divider + + + .region id(urinary_27-1) + + + .region id(urinary_21-1) + + + .region id(urinary_22-1) + @@ -26280,14 +26297,31 @@ - + - + + .boundary + + + .invisible divider + + + .invisible divider + + + .region id(urinary_27-2) + + + .region id(urinary_21-2) + + + .region id(urinary_22-2) + @@ -26319,18 +26353,6 @@ - - .id(urinary_21-1) - - - .id(urinary_22-1) - - - .id(urinary_21-2) - - - .id(urinary_22-2) - .id(reproductive_2-1) @@ -26558,6 +26580,27 @@ + + .id(urinary_31-1) + + + .id(urinary_33-1) + + + .id(urinary_25-1) + + + .id(ganglion_44-1) + + + .id(urinary_23-1) + + + .id(urinary_28-1) + + + .id(urinary_20-1) + @@ -26598,6 +26641,27 @@ + + .id(urinary_31-2) + + + .id(urinary_33-2) + + + .id(urinary_25-2) + + + .id(ganglion_44-2) + + + .id(urinary_23-2) + + + .id(urinary_28-2) + + + .id(urinary_20-2) + @@ -42775,12 +42839,6 @@ .id(urinary_15-1) - - .id(urinary_20-Left) - - - .id(urinary_20-Right) - .id(reproductive_16-1) @@ -43334,12 +43392,6 @@ .id(ganglion_26-1) - - .id(ganglion_27-1) - - - .id(ganglion_27-2) - .id(ganglion_29-1) @@ -44837,9 +44889,14 @@ .id(plexus_34-1) name(superior mesenteric plexus) - - .id(plexus_35-1) name(renal nerve plexus) - + + + .id(plexus_35-1) name(renal nerve plexus) + + + .id(ganglion_27-1) + + cuffs diff --git a/human_flatmap_male.svg b/human_flatmap_male.svg index 98dd52b..d348730 100644 --- a/human_flatmap_male.svg +++ b/human_flatmap_male.svg @@ -7189,7 +7189,7 @@ - + .id(urinary_12-Left) @@ -7218,14 +7218,31 @@ - + - + + .boundary + + + .invisible divider + + + .invisible divider + + + .region id(urinary_27-1) + + + .region id(urinary_21-1) + + + .region id(urinary_22-1) + @@ -7283,14 +7300,31 @@ - + - + + .boundary + + + .invisible divider + + + .invisible divider + + + .region id(urinary_27-2) + + + .region id(urinary_21-2) + + + .region id(urinary_22-2) + @@ -7322,18 +7356,6 @@ - - .id(urinary_21-1) - - - .id(urinary_22-1) - - - .id(urinary_21-2) - - - .id(urinary_22-2) - .id(urinary_2-1) @@ -7411,6 +7433,27 @@ + + .id(urinary_31-2) + + + .id(urinary_33-2) + + + .id(urinary_25-2) + + + .id(ganglion_44-2) + + + .id(urinary_23-2) + + + .id(urinary_28-2) + + + .id(urinary_20-2) + @@ -7451,6 +7494,27 @@ + + .id(urinary_31-1) + + + .id(urinary_33-1) + + + .id(urinary_25-1) + + + .id(ganglion_44-1) + + + .id(urinary_23-1) + + + .id(urinary_28-1) + + + .id(urinary_20-1) + @@ -23934,12 +23998,6 @@ .id(urinary_17-1) - - .id(urinary_20-Left) - - - .id(urinary_20-Right) - .id(endocrine_2-1) @@ -24406,12 +24464,6 @@ .id(ganglion_26-1) - - .id(ganglion_27-1) - - - .id(ganglion_27-2) - .id(ganglion_29-1) @@ -26289,9 +26341,14 @@ .id(plexus_34-1) name(superior mesenteric plexus) - - .id(plexus_35-1) name(renal nerve plexus) - + + + .id(plexus_35-1) name(renal nerve plexus) + + + .id(ganglion_27-1) + + .id(vagus_4) diff --git a/properties.json b/properties.json index de2a0c8..3b27d5e 100644 --- a/properties.json +++ b/properties.json @@ -2665,12 +2665,6 @@ "type": "ganglion", "class": "auto-hide" }, - "ganglion_27-2": { - "models": "ILX:0795057", - "name": "renal nerve plexus ganglion", - "type": "ganglion", - "class": "auto-hide" - }, "ganglion_28-1": { "models": "ILX:0793734", "name": "Myenteric ganglion", @@ -2767,6 +2761,18 @@ "type": "ganglion", "class": "auto-hide" }, + "ganglion_44-1": { + "models": "ILX:0795056", + "name": "intramural ganglion of the kidney", + "type": "ganglion", + "class": "auto-hide" + }, + "ganglion_44-2": { + "models": "ILX:0795056", + "name": "intramural ganglion of the kidney", + "type": "ganglion", + "class": "auto-hide" + }, "ganglion_45-1": { "models": "ILX:0795010", "name": "parasympathetic ganglia of the liver", @@ -4088,13 +4094,13 @@ "urinary_19-1": { "class": "urinary_19" }, - "urinary_20-Left": { - "models": "UBERON:0001186", - "name": "left renal artery" + "urinary_20-1": { + "models": "UBERON:0001184", + "name": "renal artery" }, - "urinary_20-Right": { - "models": "UBERON:0001185", - "name": "right renal artery" + "urinary_20-2": { + "models": "UBERON:0001184", + "name": "renal artery" }, "urinary_21-1": { "class": "urinary_21" @@ -4108,6 +4114,54 @@ "urinary_22-2": { "class": "urinary_22" }, + "urinary_23-1": { + "models": "UBERON:0009773", + "name": "renal tubule" + }, + "urinary_23-2": { + "models": "UBERON:0009773", + "name": "renal tubule" + }, + "urinary_25-1": { + "models": "UBERON:0002303", + "name": "juxtaglomerular apparatus" + }, + "urinary_25-2": { + "models": "UBERON:0002303", + "name": "juxtaglomerular apparatus" + }, + "urinary_27-1": { + "models": "UBERON:0001224", + "name": "renal pelvis" + }, + "urinary_27-2": { + "models": "UBERON:0001224", + "name": "renal pelvis" + }, + "urinary_28-1": { + "models": "UBERON:0003517", + "name": "kidney blood vessel" + }, + "urinary_28-2": { + "models": "UBERON:0003517", + "name": "kidney blood vessel" + }, + "urinary_31-1": { + "models": "UBERON:0001225", + "name": "cortex of kidney" + }, + "urinary_31-2": { + "models": "UBERON:0001225", + "name": "cortex of kidney" + }, + "urinary_33-1": { + "models": "UBERON:0006851", + "name": "renal cortex peritubular capillary" + }, + "urinary_33-2": { + "models": "UBERON:0006851", + "name": "renal cortex peritubular capillary" + }, "plexus_1-1": { "models": "ILX:0793621", "name": "external carotid nerve plexus", diff --git a/proxy_features.json b/proxy_features.json index 7fbb39d..e55b526 100644 --- a/proxy_features.json +++ b/proxy_features.json @@ -420,14 +420,6 @@ "UBERON:0004539" ] }, - { - "feature": "UBERON:0001184", - "name": "renal artery", - "proxies": [ - "UBERON:0001185", - "UBERON:0001186" - ] - }, { "feature": "UBERON:0000992", "name": "ovary", From 96581418dcc2acc19c3650af717cceeb0e47cf87 Mon Sep 17 00:00:00 2001 From: napakalas Date: Wed, 5 Aug 2026 13:49:14 +1200 Subject: [PATCH 10/21] Adjust aliasing, proxies, and cuffs related to the vagus nerve. --- connectivity_terms_female.json | 45 +++++++++------------------------- connectivity_terms_male.json | 45 +++++++++------------------------- human_flatmap_female.svg | 27 +++++++++++++++----- human_flatmap_male.svg | 27 +++++++++++++++----- properties.json | 32 ++++++++++++++++++++++-- 5 files changed, 94 insertions(+), 82 deletions(-) diff --git a/connectivity_terms_female.json b/connectivity_terms_female.json index f0e3abf..4f94f67 100644 --- a/connectivity_terms_female.json +++ b/connectivity_terms_female.json @@ -833,44 +833,21 @@ "name": "vagus nerve", "aliases": [ [ - "ILX:0790553", - [] - ], - [ - "ILX:0794142", - [] - ], - [ - "ILX:0793826", - [] - ], - [ - "ILX:0794141", - [] - ], - [ - "ILX:0794506", - [] - ], - [ - "ILX:0793827", - [] - ], - [ - "ILX:0789580", + "UBERON:0003535", [] - ], + ] + ] + }, + { + "id": [ + "ILX:0794473", + [] + ], + "name": "abdominal branch of vagus nerve", + "aliases": [ [ "ILX:0794476", [] - ], - [ - "ILX:0794853", - [] - ], - [ - "UBERON:0003535", - [] ] ] }, diff --git a/connectivity_terms_male.json b/connectivity_terms_male.json index e526a91..b49fc8b 100644 --- a/connectivity_terms_male.json +++ b/connectivity_terms_male.json @@ -760,44 +760,21 @@ "name": "vagus nerve", "aliases": [ [ - "ILX:0790553", - [] - ], - [ - "ILX:0794142", - [] - ], - [ - "ILX:0793826", - [] - ], - [ - "ILX:0794141", - [] - ], - [ - "ILX:0794506", - [] - ], - [ - "ILX:0793827", - [] - ], - [ - "ILX:0789580", + "UBERON:0003535", [] - ], + ] + ] + }, + { + "id": [ + "ILX:0794473", + [] + ], + "name": "abdominal branch of vagus nerve", + "aliases": [ [ "ILX:0794476", [] - ], - [ - "ILX:0794853", - [] - ], - [ - "UBERON:0003535", - [] ] ] }, diff --git a/human_flatmap_female.svg b/human_flatmap_female.svg index a63db8b..a12bd5f 100644 --- a/human_flatmap_female.svg +++ b/human_flatmap_female.svg @@ -45032,9 +45032,6 @@ .id(esophageal_vagus_3) - - .id(n_57_c) - .id(ardell_6_c) @@ -45062,9 +45059,6 @@ .id(vagus_13) - - .id(n_76_c) - .id(vagus_14) @@ -45254,5 +45248,26 @@ .id(mesenteric_nerve_c) + + .id(esophageal_vagus_trunk_c) + + + .id(abdominal_branch_of_vagus_nerve_c) + + + .id(posterior_abdominal_vagal_trunk_c) + + + .id(anterior_abdominal_vagal_trunk_c) + + + .id(posterior_hepatic_branch_of_vagus_nerve_c) + + + .id(hepatic_branch_of_left_vagus_nerve_c) + + + .id(celiac_branch_of_posterior_vagal_trunk_c) + \ No newline at end of file diff --git a/human_flatmap_male.svg b/human_flatmap_male.svg index d348730..e74e502 100644 --- a/human_flatmap_male.svg +++ b/human_flatmap_male.svg @@ -25502,9 +25502,6 @@ .id(esophageal_vagus_1) - - .id(n_57_c) - .id(ardell_6_c) @@ -25535,9 +25532,6 @@ .id(n_82_c) - - .id(n_76_c) - .id(n_89_c) @@ -25745,6 +25739,27 @@ .id(mesenteric_nerve_c) + + .id(esophageal_vagus_trunk_c) + + + .id(abdominal_branch_of_vagus_nerve_c) + + + .id(posterior_abdominal_vagal_trunk_c) + + + .id(anterior_abdominal_vagal_trunk_c) + + + .id(posterior_hepatic_branch_of_vagus_nerve_c) + + + .id(celiac_branch_of_posterior_vagal_trunk_c) + + + .id(hepatic_branch_of_left_vagus_nerve_c) + nodes diff --git a/properties.json b/properties.json index 3b27d5e..be9f3d4 100644 --- a/properties.json +++ b/properties.json @@ -4406,11 +4406,11 @@ }, "vagus_2": { "type": "nerve", - "models": "ILX:0786624" + "models": "ILX:0794142" }, "vagus_3": { "type": "nerve", - "models": "ILX:0791151" + "models": "ILX:0794141" }, "vagus_4": { "type": "nerve", @@ -4837,6 +4837,34 @@ "mesenteric_nerve_c": { "type": "nerve", "models": "ILX:0793714" + }, + "esophageal_vagus_trunk_c": { + "type": "nerve", + "models": "ILX:0794853" + }, + "abdominal_branch_of_vagus_nerve_c": { + "type": "nerve", + "models": "ILX:0794473" + }, + "posterior_abdominal_vagal_trunk_c": { + "type": "nerve", + "models": "ILX:0793827" + }, + "anterior_abdominal_vagal_trunk_c": { + "type": "nerve", + "models": "ILX:0793826" + }, + "posterior_hepatic_branch_of_vagus_nerve_c": { + "type": "nerve", + "models": "ILX:0794506" + }, + "celiac_branch_of_posterior_vagal_trunk_c": { + "type": "nerve", + "models": "ILX:0789580" + }, + "hepatic_branch_of_left_vagus_nerve_c": { + "type": "nerve", + "models": "ILX:0790553" } }, "networks": [ From 0832a7867eb2530cf8973418585e18c385e3f7d5 Mon Sep 17 00:00:00 2001 From: napakalas Date: Wed, 5 Aug 2026 17:32:52 +1200 Subject: [PATCH 11/21] Add dots for C8 segment, DRG, and nerves. --- connectivity_terms_female.json | 19 +++++++++++++++++++ connectivity_terms_male.json | 19 +++++++++++++++++++ human_flatmap_female.svg | 12 ++++++++++++ human_flatmap_male.svg | 12 ++++++++++++ properties.json | 17 +++++++++++++++++ 5 files changed, 79 insertions(+) diff --git a/connectivity_terms_female.json b/connectivity_terms_female.json index 4f94f67..bc611c6 100644 --- a/connectivity_terms_female.json +++ b/connectivity_terms_female.json @@ -1164,5 +1164,24 @@ [] ] ] + }, + { + "id": [ + "UBERON:0006470", + [] + ], + "name": "eight cervical spinal cord segment", + "aliases": [ + [ + "ILX:0797431", + [] + ], + [ + "UBERON:0016578", + [ + "UBERON:0006470" + ] + ] + ] } ] diff --git a/connectivity_terms_male.json b/connectivity_terms_male.json index b49fc8b..4297d7e 100644 --- a/connectivity_terms_male.json +++ b/connectivity_terms_male.json @@ -1104,5 +1104,24 @@ [] ] ] + }, + { + "id": [ + "UBERON:0006470", + [] + ], + "name": "eight cervical spinal cord segment", + "aliases": [ + [ + "ILX:0797431", + [] + ], + [ + "UBERON:0016578", + [ + "UBERON:0006470" + ] + ] + ] } ] diff --git a/human_flatmap_female.svg b/human_flatmap_female.svg index a12bd5f..8e0e47d 100644 --- a/human_flatmap_female.svg +++ b/human_flatmap_female.svg @@ -3018,6 +3018,15 @@ .class(spinal_32) style(1) closed + + .id(spinal_8-1) + + + .id(eighth_cervical_dorsal_root_g) + + + .id(left_eighth_cervical_spinal_ganglion_g) + .id(brain_35-1) @@ -45269,5 +45278,8 @@ .id(celiac_branch_of_posterior_vagal_trunk_c) + + .id(anterior_root_of_C8_c) + \ No newline at end of file diff --git a/human_flatmap_male.svg b/human_flatmap_male.svg index e74e502..ad0ee01 100644 --- a/human_flatmap_male.svg +++ b/human_flatmap_male.svg @@ -3018,6 +3018,15 @@ .class(spinal_32) style(1) closed + + .id(spinal_8-1) + + + .id(eighth_cervical_dorsal_root_g) + + + .id(left_eighth_cervical_spinal_ganglion_g) + .id(body_6-1) @@ -25760,6 +25769,9 @@ .id(hepatic_branch_of_left_vagus_nerve_c) + + .id(anterior_root_of_C8_c) + nodes diff --git a/properties.json b/properties.json index be9f3d4..ff2287b 100644 --- a/properties.json +++ b/properties.json @@ -1084,6 +1084,11 @@ "models": "ILX:0786212", "name": "Anterior root of right seventh cervical nerve" }, + "anterior_root_of_C8_c": { + "models": "ILX:0786163", + "name": "Anterior root of eighth cervical nerve", + "type": "nerve" + }, "S43_T1-Left": { "models": "ILX:0785339", "name": "Anterior root of left first thoracic nerve" @@ -1548,6 +1553,10 @@ "models": "ILX:0789091", "name": "right seventh cervical dorsal root ganglion" }, + "left_eighth_cervical_spinal_ganglion_g": { + "models": "ILX:0785251", + "name": "Left eighth cervical spinal ganglion" + }, "S45_T1-Left": { "models": "ILX:0784660", "name": "left first thoracic dorsal root ganglion" @@ -4029,9 +4038,17 @@ "spinal_7-1": { "class": "spinal_7" }, + "spinal_8-1": { + "models": "UBERON:0006470", + "name": "C8 segment of cervical spinal cord" + }, "spinal_9-1": { "class": "spinal_9" }, + "eighth_cervical_dorsal_root_g": { + "models": "UBERON:0002844", + "name": "eighth cervical dorsal root ganglion" + }, "spinal_69-1": { "class": "spinal_69" }, From 82d224fd8fa521cd3258850f6278224356dba977 Mon Sep 17 00:00:00 2001 From: napakalas Date: Wed, 5 Aug 2026 17:33:46 +1200 Subject: [PATCH 12/21] Add proxy features for posterior root of T1-T3. --- proxy_features.json | 28 ++++++++++++++++++++++++++++ 1 file changed, 28 insertions(+) diff --git a/proxy_features.json b/proxy_features.json index e55b526..b325110 100644 --- a/proxy_features.json +++ b/proxy_features.json @@ -118,6 +118,27 @@ "ILX:0788285" ] }, + { + "feature": "ILX:0785632", + "name": "posterior root of first thoracic nerve", + "proxies": [ + "ILX:0790800" + ] + }, + { + "feature": "ILX:0791802", + "name": "posterior root of second thoracic nerve", + "proxies": [ + "ILX:0791275" + ] + }, + { + "feature": "ILX:0789246", + "name": "posterior root of third thoracic nerve", + "proxies": [ + "ILX:0789845" + ] + }, { "feature": "ILX:0784605", "name": "posterior root of seventh thoracic nerve", @@ -828,6 +849,13 @@ "ILX:0788772" ] }, + { + "feature": "UBERON:0002849", + "name": "sixth thoracic dorsal root ganglion", + "proxies": [ + "ILX:0791527" + ] + }, { "feature": "UBERON:0002860", "name": "first sacral dorsal root ganglion", From a1093981a6233ba7bc5b16ce4a74cd7e6446e1fc Mon Sep 17 00:00:00 2001 From: napakalas Date: Thu, 6 Aug 2026 10:17:50 +1200 Subject: [PATCH 13/21] Tidy up svg files. --- human_flatmap_female.svg | 1 - human_flatmap_male.svg | 1 - 2 files changed, 2 deletions(-) diff --git a/human_flatmap_female.svg b/human_flatmap_female.svg index 8e0e47d..1fdfec6 100644 --- a/human_flatmap_female.svg +++ b/human_flatmap_female.svg @@ -22905,7 +22905,6 @@ - <Group> diff --git a/human_flatmap_male.svg b/human_flatmap_male.svg index ad0ee01..99d2abc 100644 --- a/human_flatmap_male.svg +++ b/human_flatmap_male.svg @@ -3331,7 +3331,6 @@ - <Group> From 602684809b007659ddb264c1b2d2b4b174d398fb Mon Sep 17 00:00:00 2001 From: napakalas Date: Mon, 10 Aug 2026 15:53:31 +1200 Subject: [PATCH 14/21] Add celiac periarterial nerve plexus and thoracic sympathetic nerve trunk. --- human_flatmap_female.svg | 6 ++++++ human_flatmap_male.svg | 6 ++++++ properties.json | 12 +++++++++++- 3 files changed, 23 insertions(+), 1 deletion(-) diff --git a/human_flatmap_female.svg b/human_flatmap_female.svg index 1fdfec6..9f440cc 100644 --- a/human_flatmap_female.svg +++ b/human_flatmap_female.svg @@ -44905,6 +44905,9 @@ .id(ganglion_27-1) + + .id(plexus_26-1) + cuffs @@ -45280,5 +45283,8 @@ .id(anterior_root_of_C8_c) + + .id(thoracic_sympathetic_nerve_trunk_c) + \ No newline at end of file diff --git a/human_flatmap_male.svg b/human_flatmap_male.svg index 99d2abc..456a6ea 100644 --- a/human_flatmap_male.svg +++ b/human_flatmap_male.svg @@ -25771,6 +25771,9 @@ .id(anterior_root_of_C8_c) + + .id(thoracic_sympathetic_nerve_trunk_c) + nodes @@ -26350,6 +26353,9 @@ .id(plexus_25-1) + + .id(plexus_26-1) + .id(plexus_29-1) diff --git a/properties.json b/properties.json index ff2287b..ab0b38c 100644 --- a/properties.json +++ b/properties.json @@ -3505,7 +3505,7 @@ }, "digestive_123-1": { "models": "ILX:0795016", - "name": "liver perisinusoidal space" + "name": "peribiliary gland" }, "skeleton_1-1": { "class": "skeleton_1" @@ -4293,6 +4293,12 @@ "type": "ganglion", "class": "auto-hide" }, + "plexus_26-1": { + "models": "ILX:0795340", + "name": "celiac periarterial nerve plexus", + "type": "ganglion", + "class": "auto-hide" + }, "plexus_29-1": { "models": "ILX:0797430", "name": "nerve plexus along the left precaval vein", @@ -4882,6 +4888,10 @@ "hepatic_branch_of_left_vagus_nerve_c": { "type": "nerve", "models": "ILX:0790553" + }, + "thoracic_sympathetic_nerve_trunk_c": { + "type": "nerve", + "models": "UBERON:0004863" } }, "networks": [ From f88b5bca27e926bfd81bd935602831364b0b8339 Mon Sep 17 00:00:00 2001 From: napakalas Date: Mon, 10 Aug 2026 16:33:29 +1200 Subject: [PATCH 15/21] Add dots for spinal trigeminal and spinothalamic tracts. --- anatomical_map.json | 8 ++++++++ human_flatmap_female.svg | 6 ++++++ human_flatmap_male.svg | 6 ++++++ properties.json | 6 ++++++ 4 files changed, 26 insertions(+) diff --git a/anatomical_map.json b/anatomical_map.json index 3fcdbd0..3af7192 100644 --- a/anatomical_map.json +++ b/anatomical_map.json @@ -1535,6 +1535,14 @@ "term": "ILX:0793626", "name": "Ventrolateral periaqueductal gray" }, + "brain_59": { + "term": "UBERON:0014761", + "name": "spinal trigeminal tract" + }, + "brain_60": { + "term": "UBERON:0007703", + "name": "spinothalamic tract" + }, "bolser_4": { "term": "ILX:0738374", "name": "External branch of superior laryngeal nerve" diff --git a/human_flatmap_female.svg b/human_flatmap_female.svg index 9f440cc..bf93eec 100644 --- a/human_flatmap_female.svg +++ b/human_flatmap_female.svg @@ -3541,6 +3541,12 @@ .id(brain_57-1) + + .id(brain_59-1) + + + .id(brain_60-1) + .id(body_6-1) diff --git a/human_flatmap_male.svg b/human_flatmap_male.svg index 456a6ea..84974fe 100644 --- a/human_flatmap_male.svg +++ b/human_flatmap_male.svg @@ -22433,6 +22433,12 @@ .id(brain_57-1) + + .id(brain_59-1) + + + .id(brain_60-1) + body_1-1 diff --git a/properties.json b/properties.json index ab0b38c..df8b6c3 100644 --- a/properties.json +++ b/properties.json @@ -2920,6 +2920,12 @@ "brain_58-1": { "class": "brain_58" }, + "brain_59-1": { + "class": "brain_59" + }, + "brain_60-1": { + "class": "brain_60" + }, "trochlear_nucleus": { "models": "UBERON:0002722", "name": "Trochlear Nucleus" From 7336e45b6cadce3cb754f88453f9268d626db614 Mon Sep 17 00:00:00 2001 From: napakalas Date: Tue, 11 Aug 2026 12:39:17 +1200 Subject: [PATCH 16/21] Fix aliasing related to urether spinchter and adjust nerve positions. --- anatomical_map.json | 8 ++++---- connectivity_terms_female.json | 17 +++++++++++++++++ connectivity_terms_male.json | 17 +++++++++++++++++ human_flatmap_female.svg | 8 ++++---- human_flatmap_male.svg | 8 ++++---- 5 files changed, 46 insertions(+), 12 deletions(-) diff --git a/anatomical_map.json b/anatomical_map.json index 3af7192..f4ea94c 100644 --- a/anatomical_map.json +++ b/anatomical_map.json @@ -48,16 +48,16 @@ "name": "urethra" }, "urinary_15": { - "term": "ILX:0738416", - "name": "rhabdosphincter of female" + "term": "UBERON:0011380", + "name": "female external urethral sphincter" }, "urinary_16": { "term": "UBERON:0002384", "name": "connective tissue" }, "urinary_17": { - "term": "ILX:0738408", - "name": "Rhabdosphincter of male" + "term": "UBERON:0011379", + "name": "male external urether" }, "urinary_18": { "term": "UBERON:0004538", diff --git a/connectivity_terms_female.json b/connectivity_terms_female.json index bc611c6..26daa1f 100644 --- a/connectivity_terms_female.json +++ b/connectivity_terms_female.json @@ -1183,5 +1183,22 @@ ] ] ] + }, + { + "id": [ + "UBERON:0011380", + [] + ], + "name": "female external urether", + "aliases": [ + [ + "ILX:0793141", + [] + ], + [ + "UBERON:0004919", + [] + ] + ] } ] diff --git a/connectivity_terms_male.json b/connectivity_terms_male.json index 4297d7e..b4f9e97 100644 --- a/connectivity_terms_male.json +++ b/connectivity_terms_male.json @@ -1123,5 +1123,22 @@ ] ] ] + }, + { + "id": [ + "UBERON:0011379", + [] + ], + "name": "male external urether", + "aliases": [ + [ + "ILX:0793141", + [] + ], + [ + "UBERON:0004919", + [] + ] + ] } ] diff --git a/human_flatmap_female.svg b/human_flatmap_female.svg index bf93eec..abc00b5 100644 --- a/human_flatmap_female.svg +++ b/human_flatmap_female.svg @@ -45256,9 +45256,6 @@ .id(clitoral_cavernous_c) - - .id(ansa_subclavia_c) - .id(thoracic_splanchnic_nerve_c) @@ -45289,7 +45286,10 @@ .id(anterior_root_of_C8_c) - + + .id(ansa_subclavia_c) + + .id(thoracic_sympathetic_nerve_trunk_c) diff --git a/human_flatmap_male.svg b/human_flatmap_male.svg index 84974fe..81060ed 100644 --- a/human_flatmap_male.svg +++ b/human_flatmap_male.svg @@ -25744,9 +25744,6 @@ .id(lingual_c) - - .id(ansa_subclavia_c) - .id(thoracic_splanchnic_nerve_c) @@ -25777,7 +25774,10 @@ .id(anterior_root_of_C8_c) - + + .id(ansa_subclavia_c) + + .id(thoracic_sympathetic_nerve_trunk_c) From ac5e8f2a69cd25f4d8ebc12a87e535242c3cb48d Mon Sep 17 00:00:00 2001 From: napakalas Date: Tue, 11 Aug 2026 13:56:12 +1200 Subject: [PATCH 17/21] Adjust the position of esophageal nerve plexus. --- human_flatmap_female.svg | 2 +- human_flatmap_male.svg | 2 +- 2 files changed, 2 insertions(+), 2 deletions(-) diff --git a/human_flatmap_female.svg b/human_flatmap_female.svg index abc00b5..9ea66e5 100644 --- a/human_flatmap_female.svg +++ b/human_flatmap_female.svg @@ -44877,7 +44877,7 @@ .id(plexus_22-1) - + .id(plexus_24-1) diff --git a/human_flatmap_male.svg b/human_flatmap_male.svg index 81060ed..b837192 100644 --- a/human_flatmap_male.svg +++ b/human_flatmap_male.svg @@ -26353,7 +26353,7 @@ .id(plexus_23-1) - + .id(plexus_24-1) From fe8b39f6e0b4da989e0d61ebf62a8bac68db181a Mon Sep 17 00:00:00 2001 From: napakalas Date: Fri, 21 Aug 2026 12:12:09 +1200 Subject: [PATCH 18/21] Fix spinal cord gray commissure annotations. --- anatomical_map.json | 8 ++- connectivity_terms_female.json | 38 +---------- connectivity_terms_male.json | 4 +- human_flatmap_female.svg | 121 ++++++++++++++++++++------------- human_flatmap_male.svg | 121 ++++++++++++++++++++------------- properties.json | 31 +++++++++ proxy_features.json | 14 ++++ 7 files changed, 207 insertions(+), 130 deletions(-) diff --git a/anatomical_map.json b/anatomical_map.json index f4ea94c..f94ce35 100644 --- a/anatomical_map.json +++ b/anatomical_map.json @@ -1288,8 +1288,12 @@ "name": "spinal nerve" }, "spinal_51": { - "term": "UBERON:0011776", - "name": "Dorsal commissural nucleus" + "term": "UBERON:0014631", + "name": "dorsal gray commissure of spinal cord" + }, + "spinal_52": { + "term": "UBERON:0014630", + "name": "ventral gray commissure of spinal cord" }, "spinal_53": { "term": "UBERON:0002240", diff --git a/connectivity_terms_female.json b/connectivity_terms_female.json index 26daa1f..f56c8a5 100644 --- a/connectivity_terms_female.json +++ b/connectivity_terms_female.json @@ -1,21 +1,4 @@ [ - { - "id": [ - "UBERON:0007240", - [ - "UBERON:0000947" - ] - ], - "name": "tunica adventitia of artery/aorta", - "aliases": [ - [ - "UBERON:0007240", - [ - "UBERON:0001496" - ] - ] - ] - }, { "id": [ "UBERON:0016578", @@ -672,23 +655,6 @@ ] ] }, - { - "id": [ - "ILX:0793644", - [ - "UBERON:0001158" - ] - ], - "name": "Arteriole in Myenteric Nerve Plexus of Descending Colon/descending colon", - "aliases": [ - [ - "ILX:0793657", - [ - "UBERON:0001158" - ] - ] - ] - }, { "id": [ "UBERON:0001964", @@ -1193,7 +1159,9 @@ "aliases": [ [ "ILX:0793141", - [] + [ + "UBERON:0000057" + ] ], [ "UBERON:0004919", diff --git a/connectivity_terms_male.json b/connectivity_terms_male.json index b4f9e97..850979a 100644 --- a/connectivity_terms_male.json +++ b/connectivity_terms_male.json @@ -1133,7 +1133,9 @@ "aliases": [ [ "ILX:0793141", - [] + [ + "UBERON:0000057" + ] ], [ "UBERON:0004919", diff --git a/human_flatmap_female.svg b/human_flatmap_female.svg index 9ea66e5..3c14224 100644 --- a/human_flatmap_female.svg +++ b/human_flatmap_female.svg @@ -1340,12 +1340,15 @@ .class(spinal_31) style(1) - - .class(spinal_51) id(S51_S5) - - + .class(spinal_42) id(S42_S5) - + + .class(spinal_51) id(S51_S5) + + + .class(spinal_52) id(S52_S5) + + .class(spinal_41) id(S41_S5) @@ -1391,12 +1394,15 @@ .class(spinal_31) style(1) - - .class(spinal_51) id(S51_S4) - - + .class(spinal_42) id(S42_S4) - + + .class(spinal_51) id(S51_S4) + + + .class(spinal_52) id(S52_S4) + + .class(spinal_41) id(S41_S4) @@ -1442,12 +1448,15 @@ .class(spinal_31) style(1) - - .class(spinal_51) id(S51_S3) - - + .class(spinal_42) id(S42_S3) - + + .class(spinal_51) id(S51_S3) + + + .class(spinal_52) id(S52_S3) + + .class(spinal_41) id(S41_S3) @@ -1493,12 +1502,15 @@ .class(spinal_31) style(1) - + .class(spinal_42) id(S42_S2) - - - .class(spinal_51) id(S51_S2) - + + .class(spinal_52) id(S52_S2) + + + .class(spinal_51) id(S51_S2) + + .class(spinal_41) id(S41_S2) @@ -1544,12 +1556,15 @@ .class(spinal_31) style(1) - + .class(spinal_42) id(S42_S1) - - - .class(spinal_51) id(S51_S1) - + + .class(spinal_52) id(S52_S1) + + + .class(spinal_51) id(S51_S1) + + .class(spinal_41) id(S41_1_S1) @@ -1785,12 +1800,15 @@ .class(spinal_31) style(1) - + .class(spinal_42) id(S42_L2) - - - .class(spinal_51) id(S51_L2) - + + .class(spinal_52) id(S52_L2) + + + .class(spinal_51) id(S51_L2) + + .class(spinal_41) id(S41_1_L2) @@ -1850,12 +1868,15 @@ .class(spinal_31) style(1) - + .class(spinal_42) id(S42_L1) - - - .class(spinal_51) id(S51_L1) - + + .class(spinal_52) id(S52_L1) + + + .class(spinal_51) id(S51_L1) + + .class(spinal_41) id(S41_1_L1) @@ -1918,12 +1939,15 @@ .class(spinal_31) style(1) - + .class(spinal_42) id(S42_T12) - - - .class(spinal_51) id(S51_T12) - + + .class(spinal_52) id(S52_T12) + + + .class(spinal_51) id(S51_T12) + + .class(spinal_41) id(S41_1_T12) @@ -1983,12 +2007,15 @@ .class(spinal_31) style(1) - + .class(spinal_42) id(S42_T11) - - - .class(spinal_51) id(S51_T11) - + + .class(spinal_52) id(S52_T11) + + + .class(spinal_51) id(S51_T11) + + .class(spinal_41) id(S41_1_T11) @@ -2886,7 +2913,6 @@ .class(spinal_41) id(S41_3_C3) - class(spinal_40) id(S40_C3) .class(spinal_40) id(S40_C3) @@ -45292,5 +45318,8 @@ .id(thoracic_sympathetic_nerve_trunk_c) + + .id(posterior_root_of_left_eighth_cervical_nerve_c) + \ No newline at end of file diff --git a/human_flatmap_male.svg b/human_flatmap_male.svg index b837192..e514f17 100644 --- a/human_flatmap_male.svg +++ b/human_flatmap_male.svg @@ -1340,12 +1340,15 @@ .class(spinal_31) style(1) - - .class(spinal_51) id(S51_S5) - - + .class(spinal_42) id(S42_S5) - + + .class(spinal_51) id(S51_S5) + + + .class(spinal_52) id(S52_S5) + + .class(spinal_41) id(S41_S5) @@ -1391,12 +1394,15 @@ .class(spinal_31) style(1) - - .class(spinal_51) id(S51_S4) - - + .class(spinal_42) id(S42_S4) - + + .class(spinal_51) id(S51_S4) + + + .class(spinal_52) id(S52_S4) + + .class(spinal_41) id(S41_S4) @@ -1442,12 +1448,15 @@ .class(spinal_31) style(1) - - .class(spinal_51) id(S51_S3) - - + .class(spinal_42) id(S42_S3) - + + .class(spinal_51) id(S51_S3) + + + .class(spinal_52) id(S52_S3) + + .class(spinal_41) id(S41_S3) @@ -1493,12 +1502,15 @@ .class(spinal_31) style(1) - + .class(spinal_42) id(S42_S2) - - - .class(spinal_51) id(S51_S2) - + + .class(spinal_52) id(S52_S2) + + + .class(spinal_51) id(S51_S2) + + .class(spinal_41) id(S41_S2) @@ -1544,12 +1556,15 @@ .class(spinal_31) style(1) - + .class(spinal_42) id(S42_S1) - - - .class(spinal_51) id(S51_S1) - + + .class(spinal_52) id(S52_S1) + + + .class(spinal_51) id(S51_S1) + + .class(spinal_41) id(S41_1_S1) @@ -1785,12 +1800,15 @@ .class(spinal_31) style(1) - + .class(spinal_42) id(S42_L2) - - - .class(spinal_51) id(S51_L2) - + + .class(spinal_52) id(S52_L2) + + + .class(spinal_51) id(S51_L2) + + .class(spinal_41) id(S41_1_L2) @@ -1850,12 +1868,15 @@ .class(spinal_31) style(1) - + .class(spinal_42) id(S42_L1) - - - .class(spinal_51) id(S51_L1) - + + .class(spinal_52) id(S52_L1) + + + .class(spinal_51) id(S51_L1) + + .class(spinal_41) id(S41_1_L1) @@ -1918,12 +1939,15 @@ .class(spinal_31) style(1) - + .class(spinal_42) id(S42_T12) - - - .class(spinal_51) id(S51_T12) - + + .class(spinal_52) id(S52_T12) + + + .class(spinal_51) id(S51_T12) + + .class(spinal_41) id(S41_1_T12) @@ -1983,12 +2007,15 @@ .class(spinal_31) style(1) - + .class(spinal_42) id(S42_T11) - - - .class(spinal_51) id(S51_T11) - + + .class(spinal_52) id(S52_T11) + + + .class(spinal_51) id(S51_T11) + + .class(spinal_41) id(S41_1_T11) @@ -2886,7 +2913,6 @@ .class(spinal_41) id(S41_3_C3) - class(spinal_40) id(S40_C3) .class(spinal_40) id(S40_C3) @@ -25780,6 +25806,9 @@ .id(thoracic_sympathetic_nerve_trunk_c) + + .id(posterior_root_of_left_eighth_cervical_nerve_c) + nodes diff --git a/properties.json b/properties.json index df8b6c3..0d0d19c 100644 --- a/properties.json +++ b/properties.json @@ -2512,6 +2512,33 @@ "S51_T12": { "class": "spinal_51" }, + "S52_S1": { + "class": "spinal_52" + }, + "S52_S2": { + "class": "spinal_52" + }, + "S52_S3": { + "class": "spinal_52" + }, + "S52_S4": { + "class": "spinal_52" + }, + "S52_S5": { + "class": "spinal_52" + }, + "S52_L1": { + "class": "spinal_52" + }, + "S52_L2": { + "class": "spinal_52" + }, + "S52_T11": { + "class": "spinal_52" + }, + "S52_T12": { + "class": "spinal_52" + }, "ganglion_1-1": { "models": "UBERON:0005364", "name": "superior vagus X ganglion", @@ -4898,6 +4925,10 @@ "thoracic_sympathetic_nerve_trunk_c": { "type": "nerve", "models": "UBERON:0004863" + }, + "posterior_root_of_left_eighth_cervical_nerve_c": { + "type": "nerve", + "models": "ILX:0792093" } }, "networks": [ diff --git a/proxy_features.json b/proxy_features.json index b325110..23c0999 100644 --- a/proxy_features.json +++ b/proxy_features.json @@ -946,5 +946,19 @@ "proxies": [ "UBERON:0002394" ] + }, + { + "feature": "ILX:0789655", + "name": "S2 sympathetic chain ganglion", + "proxies": [ + "ILX:0792153" + ] + }, + { + "feature": "ILX:0790394", + "name": "S3 sympathetic chain ganglion", + "proxies": [ + "ILX:0787496" + ] } ] From 9d00c718f7523ee03208d1179331334e162bef2a Mon Sep 17 00:00:00 2001 From: napakalas Date: Fri, 21 Aug 2026 14:37:24 +1200 Subject: [PATCH 19/21] Adjust mediastinal ganglion position. --- human_flatmap_female.svg | 2 +- human_flatmap_male.svg | 2 +- 2 files changed, 2 insertions(+), 2 deletions(-) diff --git a/human_flatmap_female.svg b/human_flatmap_female.svg index 3c14224..b38b9cd 100644 --- a/human_flatmap_female.svg +++ b/human_flatmap_female.svg @@ -43429,7 +43429,7 @@ .id(ganglion_22-1) - + .id(ganglion_26-1) diff --git a/human_flatmap_male.svg b/human_flatmap_male.svg index e514f17..c071db4 100644 --- a/human_flatmap_male.svg +++ b/human_flatmap_male.svg @@ -24501,7 +24501,7 @@ .id(ganglion_22-1) - + .id(ganglion_26-1) From eb86f13e3b86646806cfc55a601c4e39fdcb288e Mon Sep 17 00:00:00 2001 From: napakalas Date: Mon, 24 Aug 2026 15:35:29 +1200 Subject: [PATCH 20/21] Annotate diencephalon, cerebellum, and mucosa of tongue. --- human_flatmap_female.svg | 11 ++++++++--- human_flatmap_male.svg | 11 ++++++++--- properties.json | 10 ++++++++++ 3 files changed, 26 insertions(+), 6 deletions(-) diff --git a/human_flatmap_female.svg b/human_flatmap_female.svg index b38b9cd..fb00a65 100644 --- a/human_flatmap_female.svg +++ b/human_flatmap_female.svg @@ -3198,7 +3198,9 @@ - + + .id(brain_29-1) + @@ -38771,7 +38773,7 @@ - .id(brain_8-2) + .id(brain_8-1) <Group> @@ -41308,7 +41310,7 @@ - body_1-1 + .id(body_1-1) .id(eye_1-1) @@ -43384,6 +43386,9 @@ .id(digestive_117-1) + + .id(digestive_11-1) + ganglia diff --git a/human_flatmap_male.svg b/human_flatmap_male.svg index c071db4..3cb42f5 100644 --- a/human_flatmap_male.svg +++ b/human_flatmap_male.svg @@ -19410,7 +19410,7 @@ - .id(brain_8-2) + .id(brain_8-1) <Group> @@ -22090,7 +22090,9 @@ - + + .id(brain_29-1) + @@ -22467,7 +22469,7 @@ - body_1-1 + .id(body_1-1) .id(eye_1-1) @@ -24456,6 +24458,9 @@ .id(digestive_117-1) + + .id(digestive_11-1) + ganglia diff --git a/properties.json b/properties.json index 0d0d19c..c441700 100644 --- a/properties.json +++ b/properties.json @@ -2845,6 +2845,9 @@ "brain_1-2": { "class": "brain_1" }, + "brain_8-1": { + "class": "brain_8" + }, "brain_11-1": { "class": "brain_11" }, @@ -2899,6 +2902,9 @@ "class": "brain_27", "unrouted": true }, + "brain_29-1": { + "class": "brain_29" + }, "brain_3-1": { "class": "brain_3" }, @@ -3195,6 +3201,9 @@ "digestive_10-1": { "class": "digestive_10" }, + "digestive_11-1": { + "class": "digestive_11" + }, "digestive_12-1": { "class": "digestive_12" }, @@ -7018,6 +7027,7 @@ }, { "id": "bolser_4", + "models": "ILX:0738374", "connects": [ "point_21", "respiratory_5-1" From a508a1525a6e4657ec579f7e01fb88a13a0451c4 Mon Sep 17 00:00:00 2001 From: napakalas Date: Wed, 26 Aug 2026 11:24:25 +1200 Subject: [PATCH 21/21] Clean up unused anatomical terms and properties. --- anatomical_map.json | 476 --------------------------------------- human_flatmap_female.svg | 2 +- properties.json | 132 +---------- 3 files changed, 3 insertions(+), 607 deletions(-) diff --git a/anatomical_map.json b/anatomical_map.json index f94ce35..49b86cb 100644 --- a/anatomical_map.json +++ b/anatomical_map.json @@ -1,8 +1,4 @@ { - "urinary_1": { - "term": "UBERON:0001008", - "name": "renal system" - }, "urinary_2": { "term": "UBERON:0001255", "name": "urinary bladder" @@ -15,10 +11,6 @@ "term": "UBERON:0001258", "name": "neck of urinary bladder" }, - "urinary_5": { - "term": "UBERON:0004919", - "name": "external urethral sphincter" - }, "urinary_6": { "term": "UBERON:0000483", "name": "epithelium" @@ -31,18 +23,6 @@ "term": "UBERON:0035965", "name": "wall of blood vessel" }, - "urinary_10": { - "term": "UBERON:0004230", - "name": "urinary bladder neck smooth muscle" - }, - "urinary_12": { - "term": "UBERON:0000056", - "name": "ureter" - }, - "urinary_13": { - "term": "UBERON:0002113", - "name": "kidney" - }, "urinary_14": { "term": "UBERON:0000057", "name": "urethra" @@ -79,10 +59,6 @@ "term": "ILX:0795055", "name": "lower ureter" }, - "cardio_1": { - "term": "UBERON:0004535", - "name": "cardiovascular system" - }, "cardio_2": { "term": "UBERON:0000948", "name": "heart" @@ -131,54 +107,22 @@ "term": "ILX:0738316", "name": "Aortic arch baroreceptors" }, - "cardio_14": { - "term": "UBERON:0001530", - "name": "common carotid artery plus branches" - }, - "cardio_15": { - "term": "UBERON:0001532", - "name": "internal carotid artery" - }, "cardio_16": { "term": "UBERON:0004664", "name": "aorta tunica adventitia" }, - "cardio_17": { - "term": "UBERON:0005742", - "name": "adventitia" - }, - "cardio_18": { - "term": "UBERON:0001986", - "name": "endothelium" - }, "cardio_19": { "term": "UBERON:0003380", "name": "cardiac muscle of left atrium" }, - "cardio_20": { - "term": "UBERON:0001986", - "name": "endothelium" - }, "cardio_21": { "term": "UBERON:0003379", "name": "cardiac muscle of right atrium" }, - "cardio_22": { - "term": "UBERON:0001986", - "name": "endothelium" - }, - "cardio_23": { - "term": "UBERON:0003382", - "name": "cardiac muscle of left ventricle" - }, "cardio_24": { "term": "UBERON:0015129", "name": "epicardial fat" }, - "cardio_25": { - "term": "UBERON:0003381", - "name": "cardiac muscle of right ventricle" - }, "cardio_26": { "term": "UBERON:0001072", "name": "posterior vena cava" @@ -195,22 +139,6 @@ "term": "UBERON:0002349", "name": "Myocardium" }, - "cardio_31": { - "term": "UBERON:0001074", - "name": "Pericardial Cavity" - }, - "cardio_32": { - "term": "UBERON:0002409", - "name": "Pericardial Fluid" - }, - "cardio_33": { - "term": "UBERON:0002408", - "name": "Parietal Serous Pericardium" - }, - "cardio_34": { - "term": "UBERON:0002359", - "name": "Fibrous Pericardium" - }, "cardio_35": { "term": "UBERON:0007240", "name": "Tunica Adventitia of Artery" @@ -227,18 +155,10 @@ "term": "ILX:0738304", "name": "Wall of Arch of Aorta" }, - "respiratory_1": { - "term": "UBERON:0001004", - "name": "respiratory system" - }, "respiratory_2": { "term": "UBERON:0002048", "name": "lung" }, - "respiratory_3": { - "term": "UBERON:0003126", - "name": "trachea" - }, "respiratory_4": { "term": "UBERON:0001103", "name": "diaphragm" @@ -247,14 +167,6 @@ "term": "ILX:0738326", "name": "Wall of larynx" }, - "respiratory_6": { - "term": "UBERON:0003604", - "name": "trachea cartilage" - }, - "respiratory_7": { - "term": "UBERON:0000211", - "name": "ligament" - }, "respiratory_8": { "term": "ILX:0738317", "name": "Laryngeal mechanoreceptors" @@ -279,14 +191,6 @@ "term": "UBERON:0001707", "name": "nasal cavity" }, - "respiratory_14": { - "term": "UBERON:0001740", - "name": "arytenoid cartilage" - }, - "respiratory_15": { - "term": "UBERON:0001005", - "name": "respiratory airway" - }, "respiratory_16": { "term": "UBERON:0003387", "name": "smooth muscle of trachea" @@ -343,38 +247,14 @@ "term": "UBERON:0000379", "name": "Tracheal Mucosa" }, - "respiratory_30": { - "term": "ILX:0742928", - "name": "laryngeal vestibule" - }, - "digestive_1": { - "term": "UBERON:0001007", - "name": "digestive system" - }, "digestive_2": { "term": "UBERON:0000945", "name": "stomach" }, - "digestive_3": { - "term": "UBERON:0000059", - "name": "large intestine" - }, - "digestive_4": { - "term": "UBERON:0001155", - "name": "colon" - }, - "digestive_5": { - "term": "UBERON:0002108", - "name": "small intestine" - }, "digestive_6": { "term": "UBERON:0001831", "name": "parotid gland" }, - "digestive_7": { - "term": "UBERON:0001113", - "name": "lobe of liver" - }, "digestive_8": { "term": "UBERON:0002107", "name": "liver" @@ -395,10 +275,6 @@ "term": "UBERON:0001043", "name": "esophagus" }, - "digestive_13": { - "term": "UBERON:0001153", - "name": "caecum" - }, "digestive_14": { "term": "UBERON:0001156", "name": "ascending colon" @@ -447,18 +323,6 @@ "term": "UBERON:0000167", "name": "oral cavity" }, - "digestive_28": { - "term": "UBERON:0008972", - "name": "right colon" - }, - "digestive_29": { - "term": "UBERON:0001157", - "name": "transverse colon" - }, - "digestive_30": { - "term": "UBERON:0008971", - "name": "left colon" - }, "digestive_31": { "term": "UBERON:0002110", "name": "gall bladder" @@ -471,46 +335,14 @@ "term": "UBERON:0001736", "name": "submandibular gland" }, - "digestive_34": { - "term": "UBERON:0001206", - "name": "serosa of small intestine" - }, - "digestive_35": { - "term": "UBERON:0012402", - "name": "small intestine smooth muscle longitudinal layer" - }, "digestive_36": { "term": "ILX:0793739", "name": "Nerve fiber from submandibular ganglion to sublingual gland" }, - "digestive_37": { - "term": "UBERON:0012401", - "name": "small intestine smooth muscle circular layer" - }, "digestive_38": { "term": "ILX:0793738", "name": "Nerve fiber from submandibular ganglion to mouth mucosa" }, - "digestive_39": { - "term": "UBERON:0001238", - "name": "lamina propria of small intestine" - }, - "digestive_40": { - "term": "UBERON:0001902", - "name": "epithelium of small intestine" - }, - "digestive_41": { - "term": "UBERON:0018543", - "name": "lumen of intestine" - }, - "digestive_42": { - "term": "UBERON:0003454", - "name": "small intestine Peyer's patch" - }, - "digestive_43": { - "term": "UBERON:0001210", - "name": "muscularis mucosae of small intestine" - }, "digestive_44": { "term": "UBERON:0002394", "name": "bile duct" @@ -831,22 +663,10 @@ "term": "UBERON:0000473", "name": "testis" }, - "reproductive_4": { - "term": "UBERON:0000992", - "name": "ovary" - }, "reproductive_5": { "term": "UBERON:0002367", "name": "prostate gland" }, - "reproductive_6": { - "term": "UBERON:0002247", - "name": "uterine horn" - }, - "reproductive_7": { - "term": "UBERON:0003885", - "name": "mesometrium" - }, "reproductive_8": { "term": "UBERON:0003889", "name": "fallopian tube" @@ -987,10 +807,6 @@ "term": "ILX:0738319", "name": "T1-T2 intercostal muscle" }, - "muscle_2": { - "term": "UBERON:0001134", - "name": "skeletal muscle tissue" - }, "endocrine_1": { "term": "UBERON:0002046", "name": "thyroid gland" @@ -999,22 +815,6 @@ "term": "UBERON:0002370", "name": "thymus" }, - "endocrine_3": { - "term": "UBERON:0002369", - "name": "adrenal gland" - }, - "endocrine_4": { - "term": "UBERON:0009753", - "name": "adrenal gland cortex zone" - }, - "endocrine_5": { - "term": "UBERON:0001236", - "name": "adrenal medulla" - }, - "endocrine_6": { - "term": "ILX:0102147", - "name": "Chromaffin cell" - }, "endocrine_7": { "term": "UBERON:0001233", "name": "right adrenal gland" @@ -1027,30 +827,10 @@ "term": "UBERON:0000019", "name": "camera-type eye" }, - "body_2": { - "term": "UBERON:0006378", - "name": "strand of vibrissa hair" - }, - "body_3": { - "term": "UBERON:0000978", - "name": "leg" - }, - "body_4": { - "term": "UBERON:0002415", - "name": "tail" - }, - "body_5": { - "term": "UBERON:0001690", - "name": "ear" - }, "body_6": { "term": "UBERON:0013702", "name": "body proper" }, - "body_7": { - "term": "UBERON:0000165", - "name": "mouth" - }, "body_8": { "term": "UBERON:0001723", "name": "tongue" @@ -1067,10 +847,6 @@ "term": "UBERON:0001817", "name": "Lacrimal gland" }, - "eye_2": { - "term": "UBERON:0001697", - "name": "Orbit of Skull" - }, "eye_3": { "term": "UBERON:0001769", "name": "Iris" @@ -1083,10 +859,6 @@ "term": "UBERON:0001605", "name": "Ciliary muscle" }, - "circulatory_1": { - "term": "UBERON:0001981", - "name": "blood vessel" - }, "receptor_1": { "term": "ILX:0100241", "name": "Acetylcholine (muscarinic) receptor" @@ -1095,10 +867,6 @@ "term": "ILX:0101253", "name": "Beta2 receptor" }, - "receptor_3": { - "term": "ILX:0107579", - "name": "Nicotinic Acetylcholine Receptor" - }, "spinal_1": { "term": "UBERON:0006469", "name": "C1 segment of cervical spinal cord" @@ -1319,14 +1087,6 @@ "term": "ILX:0738291", "name": "T1-ICG sympathetic cord" }, - "spinal_65": { - "term": "ILX:0777088", - "name": "L1 - L2 Interganglionic segment" - }, - "spinal_68": { - "term": "ILX:0738371", - "name": "Rexed Lamina VII of T1" - }, "spinal_69": { "term": "UBERON:0006463", "name": "S4 segment of sacral spinal cord" @@ -1347,22 +1107,10 @@ "term": "UBERON:0002336", "name": "corpus callosum" }, - "brain_4": { - "term": "UBERON:0000446", - "name": "septum of telencephalon" - }, "brain_5": { "term": "UBERON:0000007", "name": "pituitary gland" }, - "brain_6": { - "term": "UBERON:0002129", - "name": "cerebellar cortex" - }, - "brain_7": { - "term": "UBERON:0027333", - "name": "arbor vitae" - }, "brain_8": { "term": "UBERON:0002037", "name": "cerebellum" @@ -1371,10 +1119,6 @@ "term": "UBERON:0001930", "name": "paraventricular nucleus of hypothalamus" }, - "brain_10": { - "term": "UBERON:0009918", - "name": "retrotrapezoid nucleus" - }, "brain_11": { "term": "UBERON:0005807", "name": "rostral ventrolateral medulla" @@ -1415,18 +1159,6 @@ "term": "UBERON:0000956", "name": "cerebral cortex" }, - "brain_22": { - "term": "UBERON:0005366", - "name": "olfactory lobe" - }, - "brain_23": { - "term": "UBERON:0001981", - "name": "blood vessel" - }, - "brain_24": { - "term": "UBERON:0002264", - "name": "olfactory bulb" - }, "brain_25": { "term": "UBERON:0001891", "name": "midbrain" @@ -1439,18 +1171,10 @@ "term": "UBERON:0001896", "name": "medulla oblongata" }, - "brain_28": { - "term": "UBERON:0001890", - "name": "forebrain" - }, "brain_29": { "term": "UBERON:0001894", "name": "diencephalon" }, - "brain_31": { - "term": "UBERON:0001869", - "name": "cerebral hemisphere" - }, "brain_32": { "term": "UBERON:0002022", "name": "insula" @@ -1459,38 +1183,10 @@ "term": "UBERON:0000955", "name": "brain" }, - "brain_36": { - "term": "UBERON:0001928", - "name": "preoptic area" - }, - "brain_37": { - "term": "UBERON:0001908", - "name": "optic tract" - }, - "brain_38": { - "term": "UBERON:0002743", - "name": "basal forebrain" - }, - "brain_39": { - "term": "UBERON:0001063", - "name": "flocculus" - }, "brain_40": { "term": "UBERON:0001905", "name": "pineal body" }, - "brain_41": { - "term": "UBERON:0001945", - "name": "superior colliculus" - }, - "brain_42": { - "term": "UBERON:0001946", - "name": "inferior colliculus" - }, - "brain_43": { - "term": "UBERON:0002265", - "name": "olfactory tract" - }, "brain_45": { "term": "UBERON:0007634", "name": "Parabrachial Nucleus" @@ -1499,10 +1195,6 @@ "term": "UBERON:0009918", "name": "Retrotrapezoid Nucleus" }, - "brain_49": { - "term": "UBERON:0001893", - "name": "Telencephalon" - }, "brain_50": { "term": "UBERON:0001954", "name": "hippocampus" @@ -1547,30 +1239,10 @@ "term": "UBERON:0007703", "name": "spinothalamic tract" }, - "bolser_4": { - "term": "ILX:0738374", - "name": "External branch of superior laryngeal nerve" - }, "bolser_5": { "term": "UBERON:0001649", "name": "glossopharyngeal nerve" }, - "bolser_16": { - "term": "ILX:0738315", - "name": "Pharyngeal branch of the Hypoglossal nerve" - }, - "bolser_17": { - "term": "UBERON:0001884", - "name": "phrenic nerve" - }, - "bolser_20": { - "term": "ILX:0789339", - "name": "Pharyngeal Branch of Glossopharyngeal Nerve" - }, - "bolser_22": { - "term": "UBERON:0009009", - "name": "carotid sinus nerve" - }, "keast_1": { "term": "ILX:0793559", "name": "bladder nerve" @@ -1591,158 +1263,14 @@ "term": "UBERON:0018683", "name": "lumbar splanchnic nerve" }, - "mawe_1": { - "term": "UBERON:0005479", - "name": "superior mesenteric ganglion" - }, - "ganglion_1": { - "term": "UBERON:0005364", - "name": "superior vagus X ganglion" - }, - "ganglion_2": { - "term": "UBERON:0005363", - "name": "inferior vagus X ganglion" - }, - "ganglion_3": { - "term": "UBERON:0001989", - "name": "superior cervical ganglion" - }, - "ganglion_4": { - "term": "UBERON:0016508", - "name": "pelvic ganglion" - }, - "ganglion_5": { - "term": "UBERON:0005453", - "name": "inferior mesenteric ganglion" - }, - "ganglion_8": { - "term": "UBERON:0001808", - "name": "parasympathetic ganglion" - }, - "ganglion_9": { - "term": "UBERON:0001990", - "name": "middle cervical ganglion" - }, "ganglion_10": { "term": "UBERON:0002440", "name": "inferior cervical ganglion" }, - "ganglion_11": { - "term": "UBERON:0002441", - "name": "cervicothoracic ganglion" - }, - "ganglion_12": { - "term": "UBERON:0005360", - "name": "Inferior Glossopharyngeal IX Ganglion" - }, - "ganglion_13": { - "term": "ILX:0793555", - "name": "Atrial Intrinsic Cardiac Ganglion" - }, - "ganglion_14": { - "term": "ILX:0793556", - "name": "Ventricular Intrinsic Cardiac Ganglion" - }, - "ganglion_15": { - "term": "ILX:0793570", - "name": "Trachea Parasympathetic Ganglia" - }, - "ganglion_16": { - "term": "ILX:0793571", - "name": "Bronchus Parasympathetic Ganglia" - }, - "ganglion_17": { - "term": "ILX:0793572", - "name": "Bronchiole Parasympathetic Ganglia" - }, - "ganglion_18": { - "term": "ILX:0793573", - "name": "Terminal Bronchiole Parasympathetic Ganglia" - }, - "ganglion_19": { - "term": "ILX:0793082", - "name": "Celiac Ganglion-Superior Mesenteric Ganglion Complex" - }, "ganglion_23": { "term": "UBERON:0001675", "name": "Trigeminal Ganglion" }, - "lung_2": { - "term": "UBERON:0003715", - "name": "splanchnic nerve" - }, - "plexus_1": { - "term": "ILX:0793621", - "name": "external carotid nerve plexus" - }, - "plexus_2": { - "term": "UBERON:0011325", - "name": "pharyngeal nerve plexus" - }, - "plexus_3": { - "term": "ILX:0775776", - "name": "deep cardiac nerve plexus" - }, - "plexus_4": { - "term": "ILX:0775546", - "name": "anterior pulmonary nerve plexus" - }, - "plexus_5": { - "term": "ILX:0793704", - "name": "esophageal nerve plexus" - }, - "plexus_7": { - "term": "UBERON:0002024", - "name": "internal carotid nerve plexus" - }, - "plexus_8": { - "term": "ILX:0793657", - "name": "Myenteric Nerve Plexus of Descending Colon" - }, - "plexus_9": { - "term": "ILX:0793659", - "name": "Submucous Nerve Plexus of Descending Colon" - }, - "plexus_10": { - "term": "ILX:0793656", - "name": "Myenteric Nerve Plexus of Stomach" - }, - "plexus_11": { - "term": "ILX:0793660", - "name": "Myenteric Nerve Plexus of Lower Esophagus" - }, - "plexus_12": { - "term": "ILX:0726846", - "name": "celiac nerve plexus" - }, - "plexus_13": { - "term": "ILX:0776628", - "name": "posterior pulmonary nerve plexus" - }, - "plexus_14": { - "term": "ILX:0773392", - "name": "superficial cardiac nerve plexus" - }, - "plexus_15": { - "term": "ILX:0771304", - "name": "hepatic nerve plexus" - }, - "label_4": { - "term": "UBERON:0002364", - "name": "tympanic membrane" - }, - "label_5": { - "term": "UBERON:0010033", - "name": "back part of the tongue*" - }, - "label_6": { - "term": "UBERON:0006562", - "name": "pharynx" - }, - "label_7": { - "term": "UBERON:0000355", - "name": "mucosa of pharynx" - }, "label_8": { "term": "UBERON:0013165", "name": "epiglottic vallecula" @@ -1795,10 +1323,6 @@ "term": "UBERON:0008577", "name": "vocalis muscle" }, - "label_23": { - "term": "ILX:0742928", - "name": "laryngeal vestibule" - }, "label_24": { "term": "ILX:0795059", "name": "eccrine sweat gland of the upper limb" diff --git a/human_flatmap_female.svg b/human_flatmap_female.svg index fb00a65..f0674b7 100644 --- a/human_flatmap_female.svg +++ b/human_flatmap_female.svg @@ -42900,7 +42900,7 @@ .id(reproductive_22-1) - .id(reproductive_24-3) + .id(reproductive_24-1) .id(reproductive_27-1) diff --git a/properties.json b/properties.json index c441700..765fff8 100644 --- a/properties.json +++ b/properties.json @@ -1,46 +1,13 @@ { "classes": { - "ganglion_6": { - "label": "atrial intracardiac ganglion" - }, - "ganglion_7": { - "label": "ventricular intracardiac ganglion" - }, - "label_12": { - "label": "mucosa of arytenoid cartilage" - }, - "label_13": { - "label": "vocal cords" - }, - "plexus_6": { - "label": "gastric nerve plexus" - }, "body_1": { "tooltip": false }, - "body_2": { - "tooltip": false - }, - "body_3": { - "tooltip": false - }, - "body_4": { - "tooltip": false - }, - "body_5": { - "tooltip": false - }, "body_6": { "tooltip": false }, "brain_35": { "tooltip": false - }, - "respiratory_6": { - "tooltip": false - }, - "respiratory_7": { - "tooltip": false } }, "features": { @@ -2573,12 +2540,6 @@ "type": "ganglion", "class": "auto-hide" }, - "ganglion_8-1": { - "models": "UBERON:0001808", - "name": "parasympathetic ganglion", - "type": "ganglion", - "class": "auto-hide" - }, "ganglion_9-Left": { "models": "ILX:0786820", "name": "left middle cervical ganglion", @@ -3099,33 +3060,18 @@ "cardio_16-1": { "class": "cardio_16" }, - "cardio_18-1": { - "class": "cardio_18" - }, "cardio_19-1": { "class": "cardio_19" }, "cardio_2-1": { "class": "cardio_2" }, - "cardio_20-1": { - "class": "cardio_20" - }, "cardio_21-1": { "class": "cardio_21" }, - "cardio_22-1": { - "class": "cardio_22" - }, - "cardio_23-1": { - "class": "cardio_23" - }, "cardio_24-1": { "class": "cardio_24" }, - "cardio_25-1": { - "class": "cardio_25" - }, "cardio_26-1": { "class": "cardio_26" }, @@ -3159,15 +3105,6 @@ "cardio_3-1": { "class": "cardio_3" }, - "cardio_31-1": { - "class": "cardio_31" - }, - "cardio_33-1": { - "class": "cardio_33" - }, - "cardio_34-1": { - "class": "cardio_34" - }, "cardio_35-1": { "class": "cardio_35" }, @@ -3545,10 +3482,6 @@ "models": "UBERON:0006729", "name": "liver perisinusoidal space" }, - "digestive_123-1": { - "models": "ILX:0795016", - "name": "peribiliary gland" - }, "skeleton_1-1": { "class": "skeleton_1" }, @@ -3720,12 +3653,6 @@ "reproductive_24-1": { "class": "reproductive_24" }, - "reproductive_24-2": { - "class": "reproductive_24" - }, - "reproductive_24-3": { - "class": "reproductive_24" - }, "reproductive_25-1": { "class": "reproductive_25" }, @@ -3849,9 +3776,6 @@ "respiratory_29-1": { "class": "respiratory_29" }, - "respiratory_30-1": { - "class": "respiratory_30" - }, "respiratory_4-1": { "class": "respiratory_4" }, @@ -3958,9 +3882,6 @@ "models": "ILX:0795040", "name": "Dorsal grey horn of right T6" }, - "S32_T7": { - "class": "spinal_32" - }, "S32_T7-Right": { "models": "ILX:0795041", "name": "Dorsal grey horn of right T7" @@ -4094,9 +4015,6 @@ "spinal_69-1": { "class": "spinal_69" }, - "urinary_10-1": { - "class": "urinary_10" - }, "urinary_8-2": { "class": "urinary_8" }, @@ -4154,12 +4072,10 @@ "class": "urinary_19" }, "urinary_20-1": { - "models": "UBERON:0001184", - "name": "renal artery" + "class": "urinary_20" }, "urinary_20-2": { - "models": "UBERON:0001184", - "name": "renal artery" + "class": "urinary_20" }, "urinary_21-1": { "class": "urinary_21" @@ -4389,12 +4305,6 @@ "label_11-1": { "class": "label_11" }, - "label_12-1": { - "class": "label_12" - }, - "label_13-1": { - "class": "label_13" - }, "label_14-1": { "class": "label_14" }, @@ -4422,9 +4332,6 @@ "label_22-1": { "class": "label_22" }, - "label_23-1": { - "class": "label_23" - }, "label_24-1": { "class": "label_24" }, @@ -4665,10 +4572,6 @@ "type": "nerve", "models": "ILX:0790681" }, - "n_57_c": { - "type": "nerve", - "models": "ILX:0791632" - }, "vagus_11": { "type": "nerve", "models": "ILX:0793828" @@ -4836,9 +4739,6 @@ "n_84_c": { "type": "nerve" }, - "n_76_c": { - "type": "nerve" - }, "ardell_5_c": { "type": "nerve" }, @@ -5344,14 +5244,6 @@ "label_11-1" ] }, - { - "id": "n_27", - "models": "ILX:0785951", - "connects": [ - "point_21", - "label_12-1" - ] - }, { "id": "n_28", "models": "ILX:0787299", @@ -7084,9 +6976,6 @@ "connects": [ "ganglion_12-1", "point_40" - ], - "contained-in": [ - "bolser_22-1" ] }, { @@ -7245,23 +7134,6 @@ "vidian_branching_point" ] }, - { - "id": "ophthalmic", - "models": "UBERON:0000348", - "connects": [ - "ganglion_23-1", - "ophthalmic_branching_point" - ] - }, - { - "id": "lacrimal", - "models": "UBERON:0011096", - "connects": [ - "ophthalmic_branching_point", - "lacrimal_branching_point", - "eye_1-1" - ] - }, { "id": "maxillary", "models": "UBERON:0000377",