Difference between revisions of "CCA:AtlasTools:LabelPage:Sample"

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| style="background:#FF4400"|in the old SPL-BrainAtlas-Colorfile.txt ''L'' and ''R'' are mislabeled (switched)
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Revision as of 20:44, 24 February 2010

Home < CCA:AtlasTools:LabelPage:Sample

Title

NAC CCA Core 2010 MRI Brain Atlas

Description

This file contains the label information that corresponds to the 2010 SPL Brain Atlas.

Credits

Author
Ion-Florin Talos MD
Michael Halle PhD
Institution
Center for Computational Anatomy Core
Neuroimage Analysis Center
Surgical Planning Lab
Brigham and Women's Hospital
Grants
National Institutes of Health (NIH)'s National Center for Research Resources (NCRR), NIH P41 RR13218.
Creation Date
02/16/2009

Imports

Links to other labeltag pages go here. The contents of those pages are imported before the data described on this page.

Lookup table information

These tables are just mediawiki tables with a couple of css classes included to make them sortable and declare them as Label Pages.

Generally, the workflow for Label Pages is to import an initial (and possibly large) table using a bulk data converter (say, from a CSV file), then make small edits through the wiki. The label tables can be broken up into smaller tables to make it easier to browse and edit them.

Atlas lookup table

integer_label text_label color notes
2 white matter of left cerebral hemisphere rgb(245,245,245)
4 left lateral ventricle rgb(120,18,134)
5 temporal horn of left lateral ventricle rgb(196,58,250)
7 white matter of cerebellum left rgb(221,248,164)
8 left cerebellar cortex rgb(230,148,34)
10 left thalamus rgb(0,118,14)
11 left caudate nucleus rgb(122,186,220)
12 left putamen rgb(236,13,176)
13 left globus pallidus pars externa rgb(12,48,255)
14 wall of third ventricle rgb(204,182,142)
15 fourth ventricle rgb(42,204,164)
17 left hippocampus rgb(220,216,20)
18 left amygdala rgb(103,255,255)
24 third ventricle (1) rgb(60,60,60)
25 left globus pallidus pars interna rgb(255,165,0)
26 left nucleus accumbens rgb(165,0,255)
27 left middle cerebellar peduncle rgb(0,255,127)
28 left hypothalamus rgb(165,42,42)
34 left superior cerebellar peduncle rgb(122,135,50)
35 pons rgb(51,50,135)
40 midbrain rgb(205,62,78)
41 white matter of right cerebral hemisphere rgb(0,225,0)
43 right lateral ventricle rgb(120,18,134)
44 temporal horn of right lateral ventricle rgb(196,58,250)
46 white matter of cerebellum right rgb(220,248,164)
47 right cerebellar cortex rgb(230,148,34)
49 right thalamus rgb(0,118,14)
50 right caudate nucleus rgb(122,186,220)
51 right putamen rgb(236,13,176)
52 right globus pallidus pars externa rgb(13,48,255)
53 right hippocampus rgb(220,216,20)
54 right amygdala rgb(103,255,255)
55 right insula rgb(80,196,98)
58 right nucleus accumbens rgb(255,165,0)
60 right hypothalamus rgb(165,42,42)
61 medulla oblongata rgb(135,206,235)
63 choroid plexus of right lateral ventricle rgb(0,200,221)
66 left substantia nigra rgb(122,135,50)
71 right substantia nigra rgb(122,135,50)
72 pineal body rgb(120,190,150)
78 left optic tract rgb(255,148,10)
79 left red nucleus rgb(255,148,10)
84 right red nucleus rgb(255,218,185)
85 optic chiasm rgb(234,169,30)
96 pellucid septum rgb(205,10,125)
100 left mammillothalamic tract rgb(124,140,178)
142 anterior commissure rgb(221,226,68)
200 right mammillothalamic tract rgb(0,50,128)
216 right optic tract rgb(255,204,102)
1000 left insula rgb(25,5,25)
1001 left superior temporal gyrus (1) rgb(25,100,40)
1002 left cingulate gyrus (1) rgb(125,100,160)
1003 left middle frontal gyrus (1) rgb(100,25,0)
1005 left cuneus rgb(220,20,100)
1006 left ambiens gyrus rgb(220,20,10)
1007 left fusiform gyrus rgb(180,220,140)
1008 left inferior parietal lobule rgb(220,60,220)
1009 left inferior temporal gyrus rgb(180,40,120)
1010 left cingulate gyrus (2) rgb(140,20,140)
1011 left lateral occipital gyrus rgb(20,30,140)
1012 left orbital gyri rgb(35,75,50)
1013 left lingual gyrus rgb(225,140,140)
1014 left straight gyrus rgb(200,35,75)
1015 left middle temporal gyrus rgb(160,100,50)
1017 left paracentral lobule rgb(20,220,60)
1018 opercular part of left inferior frontal gyrus rgb(60,220,60)
1019 orbital part of left inferior frontal gyrus rgb(220,180,140)
1020 triangular part of left inferior frontal gyrus rgb(220,60,20)
1021 left visual cortex rgb(120,100,60)
1022 left postcentral gyrus rgb(220,20,20)
1023 left cingulate gyrus (1) rgb(220,180,220)
1024 left precentral gyrus rgb(60,20,220)
1025 left precuneus rgb(160,140,180)
1026 left cingulate gyrus (3) rgb(80,20,140)
1027 left middle frontal gyrus (2) rgb(75,50,125)
1028 left superior frontal gyrus (1) rgb(20,220,160)
1029 left superior parietal lobule and precuneus rgb(20,180,140)
1030 left superior temporal gyrus rgb(140,220,220)
1031 left angular and supramarginal gyrus rgb(80,160,20)
1032 left frontal pole rgb(100,0,100)
1033 left temporal pole rgb(70,70,70)
1034 left transverse temporal gyri rgb(150,150,200)
2001 right superior temporal gyrus (2) rgb(25,100,40)
2003 right middle frontal gyrus (1) rgb(100,25,0)
2005 right cuneus rgb(220,20,100)
2006 right parahippocampal gyrus rgb(220,20,10)
2007 right fusiform gyrus rgb(180,220,140)
2008 right angular and supramarginal gyri rgb(220,60,220)
2009 right inferior temporal gyrus rgb(180,40,120)
2010 right cingulate gyrus (2) rgb(140,20,140)
2011 right lateral occipital gyrus rgb(20,30,140)
2012 right orbital gyri (1) rgb(35,75,50)
2013 right lingual gyrus rgb(225,140,140)
2014 right straight gyrus rgb(200,35,75)
2015 right middle temporal gyrus rgb(160,100,50)
2017 right paracentral lobule rgb(60,220,60)
2018 opercular part of right inferior frontal gyrus rgb(220,180,140)
2019 orbital part of right inferior frontal gyrus rgb(20,100,50)
2020 triangular part of right inferior frontal gyrus rgb(220,60,20)
2021 right visual cortex rgb(120,100,60)
2022 right postcentral gyrus rgb(220,20,20)
2023 right cingulate gyrus (1) rgb(220,180,220)
2024 right precentral gyrus rgb(60,20,220)
2025 right precuneus rgb(160,140,180)
2027 right middle frontal gyrus (1) rgb(75,50,125)
2028 right superior frontal gyrus rgb(20,220,160)
2029 right superior parietal lobule rgb(20,180,140)
2030 right superior temporal gyrus (3) rgb(140,220,220)
2031 right supramarginal gyrus rgb(80,160,20)
2032 right frontal pole rgb(100,0,100)
2033 right temporal pole rgb(70,70,70)
2108 right angular and supramarginal gyri rgb(230,250,230)
3000 right claustrum rgb(230,250,230)
3001 left claustrum rgb(230,155,215)
3002 right mamillary body rgb(130,155,95)
3003 left mamillary body rgb(155,230,255)
3004 corpus callosum rgb(135,185,205)
3005 right fornix of forebrain rgb(35,235,155)
3007 left fornix of forebrain rgb(75,35,115)
3008 infundibulum of neurohypophysis rgb(35,195,35)
3011 adenohypophysis rgb(235,225,115)
3012 neurohypophysis rgb(220,180,205)

Thalamic Nuclei Expansion

integer_label text_label color notes
500 internal_medullar_lamina_R rgb(200,200,200)
501 internal_medullar_lamina_L rgb(200,200,200)
502 medial_geniculate_body_R rgb(125,250,21)
503 medial_geniculate_body_L rgb(125,250, 21)
504 lateral_geniculate_body_R rgb(102,178,255)
505 lateral_geniculate_body_L rgb(102,178,255)
506 pulvinar_R rgb(63,104,224)
507 pulvinar_L rgb(63,104,224)
508 anterior_thalamic_nucleus_R rgb(255,25,127) in the old SPL-BrainAtlas-Colorfile.txt L and R are mislabeled (switched)
509 anterior_thalamic_nucleus_L rgb(255,25,127) in the old SPL-BrainAtlas-Colorfile.txt L and R are mislabeled (switched)
510 dorsomedial_thalamic_nucleus_R rgb(60,189,130)
511 dorsomedial_thalamic_nucleus_L rgb(60,189,130)
512 centromedian_thalamic_nucleus_R rgb(188,181,105)
513 centromedian_thalamic_nucleus_L rgb(188,181,105)
514 ventral_anterior_thalamic_nucleus_R rgb(254,213,0)
515 ventral_anterior_thalamic_nucleus_R rgb(254,213,0)
516 ventral_lateral_thalamic_nucleus_R rgb(60,180,180)
517 ventral_lateral_thalamic_nucleus_L rgb(60,180,180)
518 lateral_posterior_thalamic_nucleus_R rgb(204,127,0)
519 lateral_posterior_thalamic_nucleus_L rgb(204,127,0)
520 lateral_dorsal_thalamic_nucleus_R rgb(175,194,221)
521 lateral_dorsal_thalamic_nucleus_L rgb(175,194,221)
522 VPM_thalamic_nucleus_R rgb(225,167,104)
523 VPM_thalamic_nucleus_L rgb(225,167,104)
524 VPL_thalamic_nucleus_R rgb(229,127,127)
525 VPL_thalamic_nucleus_L rgb(229,127,127)

Small addon table

user interface colors
integer_label text_label color notes
0 background rgb(0,0,0) The background value is stored here because it isn't anatomical.
10000 bounding box rgb(255, 128, 128) This is just a made-up label.
10001 selection rgb(255, 255, 255) Also made up.

Output color file

An external script processes this page and produces the following color file, suitable for Slicer.

Pages suitable for generating Slicer color files should be marked with the Category "LabelPageSlicerColorFile".

TODO: Generate this file automatically as part of wiki editing. 

#WARNING: This file is automatically generated.
#WARNING: Any edits made to this file may be overwritten.
#
#Filename: CCA_AtlasTools_LabelPage_Sample.txt
#Title: CCA:AtlasTools:LabelPage:Sample
#PageName: CCA:AtlasTools:LabelPage:Sample
#Source: http://www.na-mic.org/Wiki/index.php/CCA:AtlasTools:LabelPage:Sample
#
#Imported page URLs:
# 0: http://www.na-mic.org/Wiki/index.php/CCA:AtlasTools:LabelPage:SampleExternal
# 1: http://www.na-mic.org/Wiki/index.php/CCA:AtlasTools:LabelPage:SampleExternal2
#
#Begin table data:
0 background 0 0 0 255
2 white_matter_of_left_cerebral_hemisphere 245 245 245 255
4 left_lateral_ventricle 120 18 134 255
5 temporal_horn_of_left_lateral_ventricle 196 58 250 255
7 white_matter_of_cerebellum_left 220 248 164 255
8 left_cerebellar_cortex 230 148 34 255
10 left_thalamus 0 118 14 255
11 left_caudate_nucleus 122 186 220 255
12 left_putamen 236 13 176 255
13 left_globus_pallidus_pars_externa 12 48 255 255
14 wall_of_third_ventricle 204 182 142 255
15 fourth_ventricle 42 204 164 255
17 left_hippocampus 220 216 20 255
18 left_amygdala 103 255 255 255
24 third_ventricle_(1) 60 60 60 255
25 left_globus_pallidus_pars_interna 255 165 0 255
26 left_nucleus_accumbens 165 0 255 255
27 left_middle_cerebellar_peduncle 0 255 127 255
28 left_hypothalamus 165 42 42 255
34 left_superior_cerebellar_peduncle 122 135 50 255
35 pons 51 50 135 255
40 midbrain 205 62 78 255
41 white_matter_of_right_cerebral_hemisphere 0 225 0 255
43 right_lateral_ventricle 120 18 134 255
44 temporal_horn_of_right_lateral_ventricle 196 58 250 255
46 white_matter_of_cerebellum_right 220 248 164 255
47 right_cerebellar_cortex 230 148 34 255
49 right_thalamus 0 118 14 255
50 right_caudate_nucleus 122 186 220 255
51 right_putamen 236 13 176 255
52 right_globus_pallidus_pars_externa 13 48 255 255
53 right_hippocampus 220 216 20 255
54 right_amygdala 103 255 255 255
55 right_insula 80 196 98 255
58 right_nucleus_accumbens 255 165 0 255
60 right_hypothalamus 165 42 42 255
61 medulla_oblongata 135 206 235 255
63 choroid_plexus_of_right_lateral_ventricle 0 200 221 255
66 left_substantia_nigra 122 135 50 255
71 right_substantia_nigra 122 135 50 255
72 pineal_body 120 190 150 255
78 left_optic_tract 255 148 10 255
79 left_red_nucleus 255 148 10 255
84 right_red_nucleus 255 218 185 255
85 optic_chiasm 234 169 30 255
96 pellucid_septum 205 10 125 255
100 left_mammillothalamic_tract 124 140 178 255
142 anterior_commissure 221 226 68 255
200 right_mammillothalamic_tract 0 50 128 255
216 right_optic_tract 255 204 102 255
1000 left_insula 25 5 25 255
1001 left_superior_temporal_gyrus_(1) 25 100 40 255
1002 left_cingulate_gyrus_(1) 125 100 160 255
1003 left_middle_frontal_gyrus_(1) 100 25 0 255
1005 left_cuneus 220 20 100 255
1006 left_ambiens_gyrus 220 20 10 255
1007 left_fusiform_gyrus 180 220 140 255
1008 left_inferior_parietal_lobule 220 60 220 255
1009 left_inferior_temporal_gyrus 180 40 120 255
1010 left_cingulate_gyrus_(2) 140 20 140 255
1011 left_lateral_occipital_gyrus 20 30 140 255
1012 left_orbital_gyri 35 75 50 255
1013 left_lingual_gyrus 225 140 140 255
1014 left_straight_gyrus 200 35 75 255
1015 left_middle_temporal_gyrus 160 100 50 255
1017 left_paracentral_lobule 20 220 60 255
1018 opercular_part_of_left_inferior_frontal_gyrus 60 220 60 255
1019 orbital_part_of_left_inferior_frontal_gyrus 220 180 140 255
1020 triangular_part_of_left_inferior_frontal_gyrus 220 60 20 255
1021 left_visual_cortex 120 100 60 255
1022 left_postcentral_gyrus 220 20 20 255
1023 left_cingulate_gyrus_(1) 220 180 220 255
1024 left_precentral_gyrus 60 20 220 255
1025 left_precuneus 160 140 180 255
1026 left_cingulate_gyrus_(3) 80 20 140 255
1027 left_middle_frontal_gyrus_(2) 75 50 125 255
1028 left_superior_frontal_gyrus_(1) 20 220 160 255
1029 left_superior_parietal_lobule_and_precuneus 20 180 140 255
1030 left_superior_temporal_gyrus 140 220 220 255
1031 left_angular_and_supramarginal_gyrus 80 160 20 255
1032 left_frontal_pole 100 0 100 255
1033 left_temporal_pole 70 70 70 255
1034 left_transverse_temporal_gyri 150 150 200 255
2001 right_superior_temporal_gyrus_(2) 25 100 40 255
2003 right_middle_frontal_gyrus_(1) 100 25 0 255
2005 right_cuneus 220 20 100 255
2006 right_parahippocampal_gyrus 220 20 10 255
2007 right_fusiform_gyrus 180 220 140 255
2008 right_angular_and_supramarginal_gyri 220 60 220 255
2009 right_inferior_temporal_gyrus 180 40 120 255
2010 right_cingulate_gyrus_(2) 140 20 140 255
2011 right_lateral_occipital_gyrus 20 30 140 255
2012 right_orbital_gyri_(1) 35 75 50 255
2013 right_lingual_gyrus 225 140 140 255
2014 right_straight_gyrus 200 35 75 255
2015 right_middle_temporal_gyrus 160 100 50 255
2017 right_paracentral_lobule 60 220 60 255
2018 opercular_part_of_right_inferior_frontal_gyrus 220 180 140 255
2019 orbital_part_of_right_inferior_frontal_gyrus 20 100 50 255
2020 triangular_part_of_right_inferior_frontal_gyrus 220 60 20 255
2021 right_visual_cortex 120 100 60 255
2022 right_postcentral_gyrus 220 20 20 255
2023 right_cingulate_gyrus_(1) 220 180 220 255
2024 right_precentral_gyrus 60 20 220 255
2025 right_precuneus 160 140 180 255
2027 right_middle_frontal_gyrus_(1) 75 50 125 255
2028 right_superior_frontal_gyrus 20 220 160 255
2029 right_superior_parietal_lobule 20 180 140 255
2030 right_superior_temporal_gyrus_(3) 140 220 220 255
2031 right_supramarginal_gyrus 80 160 20 255
2032 right_frontal_pole 100 0 100 255
2033 right_temporal_pole 70 70 70 255
2108 right_angular_and_supramarginal_gyri 230 250 230 255
3000 right_claustrum 230 250 230 255
3001 left_claustrum 230 155 215 255
3002 right_mamillary_body 130 155 95 255
3003 left_mamillary_body 155 230 255 255
3004 corpus_callosum 135 185 205 255
3005 right_fornix_of_forebrain 35 235 155 255
3007 left_fornix_of_forebrain 75 35 115 255
3008 infundibulum_of_neurohypophysis 35 195 35 255
3011 adenohypophysis 235 225 115 255
3012 neurohypophysis 220 180 205 255
15000 test_label_15000 0 0 5 255
15001 test_label_15001 255 255 5 255
50000 test_label_50000 0 0 5 255
50001 test_label_50001 255 255 5 255
#EOF
Retrieved from "https://www.na-mic.org/w/index.php?title=CCA:AtlasTools:LabelPage:Sample&oldid=49410"