From ecdb128996673501429ab3b81061cbbbe3d496d6 Mon Sep 17 00:00:00 2001 From: Ulrike Schlegel <54898984+UlrikeS91@users.noreply.github.com> Date: Tue, 11 Feb 2025 11:21:57 +0100 Subject: [PATCH 01/30] Update MNI-Colin27_1998.jsonld --- .../MNI-Colin27/MNI-Colin27_1998.jsonld | 100 ++++++++++-------- 1 file changed, 54 insertions(+), 46 deletions(-) diff --git a/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_1998.jsonld b/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_1998.jsonld index 68b5989b1..e2ac2a8ef 100644 --- a/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_1998.jsonld +++ b/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_1998.jsonld @@ -1,58 +1,66 @@ { - "@context": { - "@vocab": "https://openminds.om-i.org/props/" - }, - "@id": "https://openminds.om-i.org/instances/commonCoordinateSpaceVersion/MNI-Colin27_1998", - "@type": "https://openminds.om-i.org/types/CommonCoordinateSpaceVersion", - "abbreviation": "MNI-Colin27", - "accessibility": null, - "anatomicalAxesOrientation": { - "@id": "https://openminds.om-i.org/instances/anatomicalAxesOrientation/RAS" - }, + "@context": { + "@vocab": "https://openminds.om-i.org/props/" + }, + "@id": "https://openminds.om-i.org/instances/commonCoordinateSpaceVersion/MNI-Colin27_1998", + "@type": "https://openminds.om-i.org/types/CommonCoordinateSpaceVersion", + "abbreviation": "MNI-Colin27", + "accessibility": { + "@id": "https://openminds.om-i.org/instances/productAccessibility/freeAccess" + }, + "anatomicalAxesOrientation": { + "@id": "https://openminds.om-i.org/instances/anatomicalAxesOrientation/RAS" + }, "author": null, - "axesOrigin": [ + "axesOrigin": [ { "@type": "https://openminds.om-i.org/types/QuantitativeValue", - "value": 75.0 + "value": 75.0 }, { "@type": "https://openminds.om-i.org/types/QuantitativeValue", - "value": 111.0 - }, + "value": 111.0 + }, { "@type": "https://openminds.om-i.org/types/QuantitativeValue", - "value": 67.0 + "value": 67.0 + } + ], + "copyright": null, + "custodian": null, + "defaultImage": null, + "description": "The 'MNI Colin 27 Average Brain Stereotaxic Registration Model' is a stereotaxic average of 27 T1-weighted MRI scans of the same individual. It was created at the Montreal Neurological Institute (MNI) in a two step process: (1) each of the 27 T1-weighted scans were registered to stereotaxic space using MRITOTAL (an automated volumetric registration procedure) and resampled onto a 1mm grid. All 27 scans were averaged together to create an initial average. (2) The initial average volume was used as a target for a second phase of registration where each original T1-weighted MRI was re-registered in stereotaxic space. This two-step procedure has the advantage of removing the small variance in intra-subject mapping in stereotaxic space associated with the use of a multi-subject average resulting in an average brain stereotaxic registration model with high signal-to-noise ratio and structure definition.", + "digitalIdentifier": null, + "fullDocumentation": { + "@id": "https://www.mcgill.ca/bic/software/tools-data-analysis/anatomical-mri/atlases/colin-27" + }, + "fullName": "MNI Colin27 Average Brain Stereotaxic Registration Model", + "funding": null, + "homepage": "https://www.mcgill.ca/bic/software/tools-data-analysis/anatomical-mri/atlases", + "howToCite": "Please make sure to follow the copyright of the [MNI Colin27 Average Brain Stereotaxic Registration Model (original 1998 version)](https://www.mcgill.ca/bic/software/tools-data-analysis/anatomical-mri/atlases/colin-27). You may also cite its original publication, [Holmes et al. (1998)](http://doi.org/10.1097/00004728-199803000-00032).", + "isAlternativeVersionOf": [ + { + "@id": "https://openminds.om-i.org/instances/commonCoordinateSpaceVersion/MNI-Colin27_2008" + } + ], + "isNewVersionOf": null, + "keyword": null, + "license": null, + "nativeUnit": { + "@id": "https://openminds.om-i.org/instances/unitOfMeasurement/millimeter" + }, + "ontologyIdentifier": null, + "otherContribution": null, + "relatedPublication": [ + { + "@id": "https://doi.org/10.1097/00004728-199803000-00032" } ], - "copyright": null, - "custodian": null, - "defaultImage": null, - "description": null, - "digitalIdentifier": null, - "fullDocumentation": null, - "fullName": "MNI Colin27 Average Brain Stereotaxic Registration Model", - "funding": null, - "homepage": "https://www.mcgill.ca/bic/software/tools-data-analysis/anatomical-mri/atlases", - "howToCite": null, - "isAlternativeVersionOf": [ - { - "@id": "https://openminds.om-i.org/instances/commonCoordinateSpaceVersion/MNI-Colin27_2008" - } - ], - "isNewVersionOf": null, - "keyword": null, - "license": null, - "nativeUnit": { - "@id": "https://openminds.om-i.org/instances/unitOfMeasurement/millimeter" - }, - "ontologyIdentifier": null, - "otherContribution": null, - "relatedPublication": null, - "releaseDate": "1998-06-01", - "repository": null, - "supportChannel": null, - "shortName": "MNI Colin27 Average Brain", - "usedSpecimen": null, - "versionIdentifier": "1998", - "versionInnovation": null + "releaseDate": "1998-06-01", + "repository": null, + "shortName": "MNI Colin27 Average Brain", + "supportChannel": null, + "usedSpecimen": null, + "versionIdentifier": "1998", + "versionInnovation": "This is the original version of the common coordinate space." } From d0643e59f06a85a391dadeee6f47500d6b79d6f9 Mon Sep 17 00:00:00 2001 From: Ulrike Schlegel <54898984+UlrikeS91@users.noreply.github.com> Date: Tue, 11 Feb 2025 11:58:29 +0100 Subject: [PATCH 02/30] Update MNI-Colin27_2008.jsonld --- .../MNI-Colin27/MNI-Colin27_2008.jsonld | 88 ++++++++++--------- 1 file changed, 48 insertions(+), 40 deletions(-) diff --git a/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_2008.jsonld b/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_2008.jsonld index d40a5d8e0..1fd3f377f 100644 --- a/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_2008.jsonld +++ b/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_2008.jsonld @@ -1,43 +1,51 @@ { - "@context": { - "@vocab": "https://openminds.om-i.org/props/" - }, - "@id": "https://openminds.om-i.org/instances/commonCoordinateSpaceVersion/MNI-Colin27_2008", - "@type": "https://openminds.om-i.org/types/CommonCoordinateSpaceVersion", - "abbreviation": "MNI-Colin27", - "accessibility": null, - "anatomicalAxesOrientation": null, + "@context": { + "@vocab": "https://openminds.om-i.org/props/" + }, + "@id": "https://openminds.om-i.org/instances/commonCoordinateSpaceVersion/MNI-Colin27_2008", + "@type": "https://openminds.om-i.org/types/CommonCoordinateSpaceVersion", + "abbreviation": "MNI-Colin27", + "accessibility": { + "@id": "https://openminds.om-i.org/instances/productAccessibility/freeAccess" + }, + "anatomicalAxesOrientation": null, "author": null, - "axesOrigin": null, - "copyright": null, - "custodian": null, - "defaultImage": null, - "description": null, - "digitalIdentifier": null, - "fullDocumentation": null, - "fullName": "MNI Colin27 Average Brain Stereotaxic Registration Model", - "funding": null, - "homepage": "https://www.mcgill.ca/bic/software/tools-data-analysis/anatomical-mri/atlases", - "howToCite": null, - "isAlternativeVersionOf": [ - { - "@id": "https://openminds.om-i.org/instances/commonCoordinateSpaceVersion/MNIColin27_1998" - } - ], - "isNewVersionOf": null, - "keyword": null, - "license": null, - "nativeUnit": { - "@id": "https://openminds.om-i.org/instances/unitOfMeasurement/millimeter" - }, - "ontologyIdentifier": null, - "otherContribution": null, - "relatedPublication": null, - "releaseDate": "2006-08-01", - "repository": null, - "supportChannel": null, - "shortName": "MNI Colin27 Average Brain", - "usedSpecimen": null, - "versionIdentifier": "2008", - "versionInnovation": null + "axesOrigin": null, + "copyright": null, + "custodian": null, + "defaultImage": null, + "description": "The 'MNI Colin 27 Average Brain Stereotaxic Registration Model' is a stereotaxic average of T1-, T2- and PD-weighted MRI scans of the same individual (27, 12 and 12 scans, respectively).It was created at the Montreal Neurological Institute (MNI). The MRI scans were automatically registered to a common stereotaxic space using MRITOTAL (an automated volumetric registration procedure), resampled and intensity averaged.", + "digitalIdentifier": null, + "fullDocumentation": { + "@id": "https://www.mcgill.ca/bic/software/tools-data-analysis/anatomical-mri/atlases/colin-27" + }, + "fullName": "MNI Colin27 Average Brain Stereotaxic Registration Model", + "funding": null, + "homepage": "https://www.mcgill.ca/bic/software/tools-data-analysis/anatomical-mri/atlases", + "howToCite": "Please make sure to follow the copyright of the [MNI Colin27 Average Brain Stereotaxic Registration Model (original 1998 version)](https://www.mcgill.ca/bic/software/tools-data-analysis/anatomical-mri/atlases/colin-27). You may also cite its original publication, [Holmes et al. (1998)](http://doi.org/10.1097/00004728-199803000-00032).", + "isAlternativeVersionOf": [ + { + "@id": "https://openminds.om-i.org/instances/commonCoordinateSpaceVersion/MNI-Colin27_2008" + } + ], + "isNewVersionOf": null, + "keyword": null, + "license": null, + "nativeUnit": { + "@id": "https://openminds.om-i.org/instances/unitOfMeasurement/millimeter" + }, + "ontologyIdentifier": null, + "otherContribution": null, + "relatedPublication": [ + { + "@id": "https://doi.org/10.1097/00004728-199803000-00032" + } + ], + "releaseDate": "1998-06-01", + "repository": null, + "shortName": "MNI Colin27 Average Brain", + "supportChannel": null, + "usedSpecimen": null, + "versionIdentifier": "1998", + "versionInnovation": "This is the original version of the common coordinate space." } From e33faeae1272dc6795bd27d1ee55880380dbae5d Mon Sep 17 00:00:00 2001 From: Ulrike Schlegel <54898984+UlrikeS91@users.noreply.github.com> Date: Tue, 11 Feb 2025 11:59:08 +0100 Subject: [PATCH 03/30] Update MNI-Colin27_1998.jsonld --- .../MNI-Colin27/MNI-Colin27_1998.jsonld | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_1998.jsonld b/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_1998.jsonld index e2ac2a8ef..1d6a5a4b8 100644 --- a/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_1998.jsonld +++ b/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_1998.jsonld @@ -29,7 +29,7 @@ "copyright": null, "custodian": null, "defaultImage": null, - "description": "The 'MNI Colin 27 Average Brain Stereotaxic Registration Model' is a stereotaxic average of 27 T1-weighted MRI scans of the same individual. It was created at the Montreal Neurological Institute (MNI) in a two step process: (1) each of the 27 T1-weighted scans were registered to stereotaxic space using MRITOTAL (an automated volumetric registration procedure) and resampled onto a 1mm grid. All 27 scans were averaged together to create an initial average. (2) The initial average volume was used as a target for a second phase of registration where each original T1-weighted MRI was re-registered in stereotaxic space. This two-step procedure has the advantage of removing the small variance in intra-subject mapping in stereotaxic space associated with the use of a multi-subject average resulting in an average brain stereotaxic registration model with high signal-to-noise ratio and structure definition.", + "description": "The 'MNI Colin 27 Average Brain Stereotaxic Registration Model' is a stereotaxic average of T1-, T2- and PD-weighted MRI scans of the same individual (27, 12 and 12 scans, respectively).It was created at the Montreal Neurological Institute (MNI). The MRI scans were automatically registered to a common stereotaxic space using MRITOTAL (an automated volumetric registration procedure), resampled and intensity averaged.", "digitalIdentifier": null, "fullDocumentation": { "@id": "https://www.mcgill.ca/bic/software/tools-data-analysis/anatomical-mri/atlases/colin-27" From 0a5992907318b0f2e2b74afbfe1b4f4abefada6f Mon Sep 17 00:00:00 2001 From: Ulrike Schlegel <54898984+UlrikeS91@users.noreply.github.com> Date: Tue, 11 Feb 2025 11:59:37 +0100 Subject: [PATCH 04/30] Update MNI-Colin27.jsonld --- instances/latest/commonCoordinateSpaces/MNI-Colin27.jsonld | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/instances/latest/commonCoordinateSpaces/MNI-Colin27.jsonld b/instances/latest/commonCoordinateSpaces/MNI-Colin27.jsonld index 4cf3e84e4..d6281156c 100644 --- a/instances/latest/commonCoordinateSpaces/MNI-Colin27.jsonld +++ b/instances/latest/commonCoordinateSpaces/MNI-Colin27.jsonld @@ -7,7 +7,7 @@ "abbreviation": "MNI-Colin27", "author": null, "custodian": null, - "description": "The 'MNI Colin 27 Average Brain Stereotaxic Registration Model' is a stereotaxic average of 27 T1-weighted MRI scans of the same individual. It was created at the Montreal Neurological Institute (MNI) in a two step process: (1) each of the 27 T1-weighted scans were registered to stereotaxic space using MRITOTAL (an automated volumetric registration procedure) and resampled onto a 1mm grid. All 27 scans were averaged together to create an initial average. (2) The initial average volume was used as a target for a second phase of registration where each original T1-weighted MRI was re-registered in stereotaxic space. This two-step procedure has the advantage of removing the small variance in intra-subject mapping in stereotaxic space associated with the use of a multi-subject average resulting in an average brain stereotaxic registration model with high signal-to-noise ratio and structure definition.", + "description": "The 'MNI Colin 27 Average Brain Stereotaxic Registration Model' is a stereotaxic average of T1-, T2- and PD-weighted MRI scans of the same individual (27, 12 and 12 scans, respectively).It was created at the Montreal Neurological Institute (MNI). The MRI scans were automatically registered to a common stereotaxic space using MRITOTAL (an automated volumetric registration procedure), resampled and intensity averaged.", "digitalIdentifier": null, "fullName": "MNI Colin27 Average Brain Stereotaxic Registration Model", "hasVersion": [ From 3673a139c89346b01086c4a985cb5a2144001192 Mon Sep 17 00:00:00 2001 From: Ulrike Schlegel <54898984+UlrikeS91@users.noreply.github.com> Date: Tue, 11 Feb 2025 12:08:17 +0100 Subject: [PATCH 05/30] Update MNI-Colin27_1998.jsonld --- .../MNI-Colin27/MNI-Colin27_1998.jsonld | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_1998.jsonld b/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_1998.jsonld index 1d6a5a4b8..deaeb7783 100644 --- a/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_1998.jsonld +++ b/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_1998.jsonld @@ -62,5 +62,5 @@ "supportChannel": null, "usedSpecimen": null, "versionIdentifier": "1998", - "versionInnovation": "This is the original version of the common coordinate space." + "versionInnovation": "This is the original version of the common coordinate space, and the T1 average image was created in a two step process. First, each of the 27 T1-weighted scans were registered to stereotaxic space using the MRITOTAL procedure and resampled onto a 1 mm grid in stereotaxic space. All 27 scans were averaged together to create an initial average. This average volume was used as a target for the second phase of registration where each original T1-weighted MRI was re-registered in stereotaxic space. This procedure has the advantage of removing the small variance in intra-subject mapping in stereotaxic space associated with the use of a multi-subject average. The T2 and proton density (PD) average images were performed similarly and were also of higher quality than single scans, but the improvement was not as dramatic as that of the T1 volumes." } From 14b33968410500d40ab54aea019cbd6ca518182b Mon Sep 17 00:00:00 2001 From: Ulrike Schlegel <54898984+UlrikeS91@users.noreply.github.com> Date: Tue, 11 Feb 2025 12:16:03 +0100 Subject: [PATCH 06/30] Update MNI-Colin27_2008.jsonld --- .../MNI-Colin27/MNI-Colin27_2008.jsonld | 13 ++++++++----- 1 file changed, 8 insertions(+), 5 deletions(-) diff --git a/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_2008.jsonld b/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_2008.jsonld index 1fd3f377f..ff27affec 100644 --- a/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_2008.jsonld +++ b/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_2008.jsonld @@ -22,10 +22,10 @@ "fullName": "MNI Colin27 Average Brain Stereotaxic Registration Model", "funding": null, "homepage": "https://www.mcgill.ca/bic/software/tools-data-analysis/anatomical-mri/atlases", - "howToCite": "Please make sure to follow the copyright of the [MNI Colin27 Average Brain Stereotaxic Registration Model (original 1998 version)](https://www.mcgill.ca/bic/software/tools-data-analysis/anatomical-mri/atlases/colin-27). You may also cite its original publication, [Holmes et al. (1998)](http://doi.org/10.1097/00004728-199803000-00032).", + "howToCite": "Please make sure to follow the copyright of the [MNI Colin27 Average Brain Stereotaxic Registration Model (original 1998 version)](https://www.mcgill.ca/bic/software/tools-data-analysis/anatomical-mri/atlases/colin-27). You may also cite its original publication, [Holmes et al. (1998)](http://doi.org/10.1097/00004728-199803000-00032), and the corrsponding publication, [Aubert-Broche et al. (2006)](https://doi.org/10.1016/j.neuroimage.2006.03.052).", "isAlternativeVersionOf": [ { - "@id": "https://openminds.om-i.org/instances/commonCoordinateSpaceVersion/MNI-Colin27_2008" + "@id": "https://openminds.om-i.org/instances/commonCoordinateSpaceVersion/MNI-Colin27_1998" } ], "isNewVersionOf": null, @@ -39,13 +39,16 @@ "relatedPublication": [ { "@id": "https://doi.org/10.1097/00004728-199803000-00032" + }, + { + "@id": "https://doi.org/10.1016/j.neuroimage.2006.03.052" } ], - "releaseDate": "1998-06-01", + "releaseDate": "2006-08-01", "repository": null, "shortName": "MNI Colin27 Average Brain", "supportChannel": null, "usedSpecimen": null, - "versionIdentifier": "1998", - "versionInnovation": "This is the original version of the common coordinate space." + "versionIdentifier": "2008", + "versionInnovation": "This is the high-resolution version of the common coordinate space. These volumes are defined at a 0.5mm isotropic voxel grid in Talairach space, with dimensions 362x434x362 (XxYxZ) and start coordinates −90,−126,−72 (x,y,z)." } From 2d3a726d7dc5624f994bdd155235740a2bca48b2 Mon Sep 17 00:00:00 2001 From: Ulrike Schlegel <54898984+UlrikeS91@users.noreply.github.com> Date: Tue, 11 Feb 2025 12:21:56 +0100 Subject: [PATCH 07/30] Update MNI-Colin27.jsonld --- .../commonCoordinateSpaces/MNI-Colin27.jsonld | 50 +++++++++---------- 1 file changed, 25 insertions(+), 25 deletions(-) diff --git a/instances/latest/commonCoordinateSpaces/MNI-Colin27.jsonld b/instances/latest/commonCoordinateSpaces/MNI-Colin27.jsonld index d6281156c..01a2d96d7 100644 --- a/instances/latest/commonCoordinateSpaces/MNI-Colin27.jsonld +++ b/instances/latest/commonCoordinateSpaces/MNI-Colin27.jsonld @@ -1,28 +1,28 @@ { - "@context": { - "@vocab": "https://openminds.om-i.org/props/" - }, - "@id": "https://openminds.om-i.org/instances/commonCoordinateSpace/MNI-Colin27", - "@type": "https://openminds.om-i.org/types/CommonCoordinateSpace", - "abbreviation": "MNI-Colin27", - "author": null, - "custodian": null, - "description": "The 'MNI Colin 27 Average Brain Stereotaxic Registration Model' is a stereotaxic average of T1-, T2- and PD-weighted MRI scans of the same individual (27, 12 and 12 scans, respectively).It was created at the Montreal Neurological Institute (MNI). The MRI scans were automatically registered to a common stereotaxic space using MRITOTAL (an automated volumetric registration procedure), resampled and intensity averaged.", - "digitalIdentifier": null, - "fullName": "MNI Colin27 Average Brain Stereotaxic Registration Model", - "hasVersion": [ - { - "@id": "https://openminds.om-i.org/instances/commonCoordinateSpaceVersion/MNI-Colin27_1998" - }, - { - "@id": "https://openminds.om-i.org/instances/commonCoordinateSpaceVersion/MNI-Colin27_2008" - } - ], - "homepage": "https://www.mcgill.ca/bic/software/tools-data-analysis/anatomical-mri/atlases", - "howToCite": "Holmes CJ, Hoge R, Collins L, Woods R, Toga AW, and Evans AC; 'Enhancement of MR images using registration for signal averaging.'; J Comput Assist Tomogr; 1998 Mar-Apr; 22(2):324–33. [doi: 10.1097/00004728-199803000-00032](http://dx.doi.org/10.1097/00004728-199803000-00032)\nAubert-Broche B, Evans AC, and Collins DL; 'A new improved version of the realistic digital brain phantom'; NeuroImage; 2006 Aug;32(1):138–45. [doi: 10.1016/j.neuroimage.2006.03.052](https://doi.org/10.1016/j.neuroimage.2006.03.052)", + "@context": { + "@vocab": "https://openminds.om-i.org/props/" + }, + "@id": "https://openminds.om-i.org/instances/commonCoordinateSpace/MNI-Colin27", + "@type": "https://openminds.om-i.org/types/CommonCoordinateSpace", + "abbreviation": "MNI-Colin27", + "author": null, + "custodian": null, + "description": "The 'MNI Colin 27 Average Brain Stereotaxic Registration Model' is a stereotaxic average of T1-, T2- and PD-weighted MRI scans of the same individual (27, 12 and 12 scans, respectively).It was created at the Montreal Neurological Institute (MNI). The MRI scans were automatically registered to a common stereotaxic space using MRITOTAL (an automated volumetric registration procedure), resampled and intensity averaged.", + "digitalIdentifier": null, + "fullName": "MNI Colin27 Average Brain Stereotaxic Registration Model", + "hasVersion": [ + { + "@id": "https://openminds.om-i.org/instances/commonCoordinateSpaceVersion/MNI-Colin27_1998" + }, + { + "@id": "https://openminds.om-i.org/instances/commonCoordinateSpaceVersion/MNI-Colin27_2008" + } + ], + "homepage": "https://www.mcgill.ca/bic/software/tools-data-analysis/anatomical-mri/atlases", + "howToCite": "Please make sure to follow the copyright of the [MNI Colin27 Average Brain Stereotaxic Registration Model (original 1998 version)](https://www.mcgill.ca/bic/software/tools-data-analysis/anatomical-mri/atlases/colin-27). You may also cite its original publication, [Holmes et al. (1998)](http://doi.org/10.1097/00004728-199803000-00032), and/or its later publication, [Aubert-Broche et al. (2006)](https://doi.org/10.1016/j.neuroimage.2006.03.052).", "ontologyIdentifier": null, - "shortName": "MNI Colin27 Average Brain", - "usedSpecies": { - "@id": "https://openminds.om-i.org/instances/species/homoSapiens" - } + "shortName": "MNI Colin27 Average Brain", + "usedSpecies": { + "@id": "https://openminds.om-i.org/instances/species/homoSapiens" + } } From e93da8ad3ea2130d31ecb4b6e85de95eb4c1879f Mon Sep 17 00:00:00 2001 From: Ulrike Schlegel <54898984+UlrikeS91@users.noreply.github.com> Date: Tue, 11 Feb 2025 12:23:55 +0100 Subject: [PATCH 08/30] Update MNI-Colin27_1998.jsonld --- .../MNI-Colin27/MNI-Colin27_1998.jsonld | 6 +++--- 1 file changed, 3 insertions(+), 3 deletions(-) diff --git a/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_1998.jsonld b/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_1998.jsonld index deaeb7783..aec12ccf5 100644 --- a/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_1998.jsonld +++ b/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_1998.jsonld @@ -15,15 +15,15 @@ "axesOrigin": [ { "@type": "https://openminds.om-i.org/types/QuantitativeValue", - "value": 75.0 + "value": 75.0 }, { "@type": "https://openminds.om-i.org/types/QuantitativeValue", - "value": 111.0 + "value": 111.0 }, { "@type": "https://openminds.om-i.org/types/QuantitativeValue", - "value": 67.0 + "value": 67.0 } ], "copyright": null, From 4d7404a9bbb43342fcbda528b6643f6cbfc058a3 Mon Sep 17 00:00:00 2001 From: Ulrike Schlegel <54898984+UlrikeS91@users.noreply.github.com> Date: Tue, 11 Feb 2025 12:24:45 +0100 Subject: [PATCH 09/30] Update MNI-Colin27_1998.jsonld --- .../MNI-Colin27/MNI-Colin27_1998.jsonld | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_1998.jsonld b/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_1998.jsonld index aec12ccf5..00f7362e1 100644 --- a/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_1998.jsonld +++ b/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_1998.jsonld @@ -20,7 +20,7 @@ { "@type": "https://openminds.om-i.org/types/QuantitativeValue", "value": 111.0 - }, + }, { "@type": "https://openminds.om-i.org/types/QuantitativeValue", "value": 67.0 From 6ae4abdc590ab6800c83755a8efa01a0e1e16d5d Mon Sep 17 00:00:00 2001 From: Ulrike Schlegel <54898984+UlrikeS91@users.noreply.github.com> Date: Tue, 11 Feb 2025 12:25:02 +0100 Subject: [PATCH 10/30] Update MNI-Colin27.jsonld --- instances/latest/commonCoordinateSpaces/MNI-Colin27.jsonld | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/instances/latest/commonCoordinateSpaces/MNI-Colin27.jsonld b/instances/latest/commonCoordinateSpaces/MNI-Colin27.jsonld index 01a2d96d7..8102aab86 100644 --- a/instances/latest/commonCoordinateSpaces/MNI-Colin27.jsonld +++ b/instances/latest/commonCoordinateSpaces/MNI-Colin27.jsonld @@ -13,7 +13,7 @@ "hasVersion": [ { "@id": "https://openminds.om-i.org/instances/commonCoordinateSpaceVersion/MNI-Colin27_1998" - }, + }, { "@id": "https://openminds.om-i.org/instances/commonCoordinateSpaceVersion/MNI-Colin27_2008" } From 401beed1574ddacec53cf2ae0b9f27d11fef44af Mon Sep 17 00:00:00 2001 From: Ulrike Schlegel <54898984+UlrikeS91@users.noreply.github.com> Date: Tue, 11 Feb 2025 12:27:40 +0100 Subject: [PATCH 11/30] Update MNI-Colin27_2008.jsonld --- .../MNI-Colin27/MNI-Colin27_2008.jsonld | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_2008.jsonld b/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_2008.jsonld index ff27affec..93e2d782b 100644 --- a/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_2008.jsonld +++ b/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_2008.jsonld @@ -50,5 +50,5 @@ "supportChannel": null, "usedSpecimen": null, "versionIdentifier": "2008", - "versionInnovation": "This is the high-resolution version of the common coordinate space. These volumes are defined at a 0.5mm isotropic voxel grid in Talairach space, with dimensions 362x434x362 (XxYxZ) and start coordinates −90,−126,−72 (x,y,z)." + "versionInnovation": "This is the high-resolution version of the common coordinate space. These volumes are defined at a 0.5 mm isotropic voxel grid in Talairach space, with dimensions 362x434x362 (XxYxZ) and start coordinates −90,−126,−72 (x,y,z)." } From 67b436dc73127e3e50e6d2a65006b236c3594465 Mon Sep 17 00:00:00 2001 From: Ulrike Schlegel <54898984+UlrikeS91@users.noreply.github.com> Date: Tue, 11 Feb 2025 12:40:28 +0100 Subject: [PATCH 12/30] Update MNI-Colin27_1998.jsonld From 98d3d8c11d71620ca0a55a31e8b9cc56c57fc2b5 Mon Sep 17 00:00:00 2001 From: Ulrike Schlegel <54898984+UlrikeS91@users.noreply.github.com> Date: Tue, 11 Feb 2025 12:41:37 +0100 Subject: [PATCH 13/30] Update MNI-Colin27_2008.jsonld --- .../MNI-Colin27/MNI-Colin27_2008.jsonld | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_2008.jsonld b/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_2008.jsonld index 93e2d782b..e6f9a59f7 100644 --- a/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_2008.jsonld +++ b/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_2008.jsonld @@ -17,12 +17,12 @@ "description": "The 'MNI Colin 27 Average Brain Stereotaxic Registration Model' is a stereotaxic average of T1-, T2- and PD-weighted MRI scans of the same individual (27, 12 and 12 scans, respectively).It was created at the Montreal Neurological Institute (MNI). The MRI scans were automatically registered to a common stereotaxic space using MRITOTAL (an automated volumetric registration procedure), resampled and intensity averaged.", "digitalIdentifier": null, "fullDocumentation": { - "@id": "https://www.mcgill.ca/bic/software/tools-data-analysis/anatomical-mri/atlases/colin-27" + "@id": "https://www.mcgill.ca/bic/software/tools-data-analysis/anatomical-mri/atlases/colin-27-2008" }, "fullName": "MNI Colin27 Average Brain Stereotaxic Registration Model", "funding": null, "homepage": "https://www.mcgill.ca/bic/software/tools-data-analysis/anatomical-mri/atlases", - "howToCite": "Please make sure to follow the copyright of the [MNI Colin27 Average Brain Stereotaxic Registration Model (original 1998 version)](https://www.mcgill.ca/bic/software/tools-data-analysis/anatomical-mri/atlases/colin-27). You may also cite its original publication, [Holmes et al. (1998)](http://doi.org/10.1097/00004728-199803000-00032), and the corrsponding publication, [Aubert-Broche et al. (2006)](https://doi.org/10.1016/j.neuroimage.2006.03.052).", + "howToCite": "Please make sure to follow the copyright of the [MNI Colin27 Average Brain Stereotaxic Registration Model (high-resolution version 2008)](https://www.mcgill.ca/bic/software/tools-data-analysis/anatomical-mri/atlases/colin-27-2008). You may also cite its original publication, [Holmes et al. (1998)](http://doi.org/10.1097/00004728-199803000-00032), and the corrsponding publication, [Aubert-Broche et al. (2006)](https://doi.org/10.1016/j.neuroimage.2006.03.052).", "isAlternativeVersionOf": [ { "@id": "https://openminds.om-i.org/instances/commonCoordinateSpaceVersion/MNI-Colin27_1998" From c1d265fcf64adc4d78689e6ebf9b3b5e2034d3a9 Mon Sep 17 00:00:00 2001 From: Ulrike Schlegel <54898984+UlrikeS91@users.noreply.github.com> Date: Tue, 11 Feb 2025 12:42:38 +0100 Subject: [PATCH 14/30] Update MNI-Colin27.jsonld --- instances/latest/commonCoordinateSpaces/MNI-Colin27.jsonld | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/instances/latest/commonCoordinateSpaces/MNI-Colin27.jsonld b/instances/latest/commonCoordinateSpaces/MNI-Colin27.jsonld index 8102aab86..e8e37a0f4 100644 --- a/instances/latest/commonCoordinateSpaces/MNI-Colin27.jsonld +++ b/instances/latest/commonCoordinateSpaces/MNI-Colin27.jsonld @@ -19,7 +19,7 @@ } ], "homepage": "https://www.mcgill.ca/bic/software/tools-data-analysis/anatomical-mri/atlases", - "howToCite": "Please make sure to follow the copyright of the [MNI Colin27 Average Brain Stereotaxic Registration Model (original 1998 version)](https://www.mcgill.ca/bic/software/tools-data-analysis/anatomical-mri/atlases/colin-27). You may also cite its original publication, [Holmes et al. (1998)](http://doi.org/10.1097/00004728-199803000-00032), and/or its later publication, [Aubert-Broche et al. (2006)](https://doi.org/10.1016/j.neuroimage.2006.03.052).", + "howToCite": "Please make sure to follow the copyright of the [MNI Colin27 Average Brain Stereotaxic Registration Model](https://www.mcgill.ca/bic/software/tools-data-analysis/anatomical-mri/atlases/colin-27). You may also cite its original publication, [Holmes et al. (1998)](http://doi.org/10.1097/00004728-199803000-00032), and/or its later publication, [Aubert-Broche et al. (2006)](https://doi.org/10.1016/j.neuroimage.2006.03.052).", "ontologyIdentifier": null, "shortName": "MNI Colin27 Average Brain", "usedSpecies": { From 585d9edb9d77416f877ed09456cc16395fef59d4 Mon Sep 17 00:00:00 2001 From: Ulrike Schlegel <54898984+UlrikeS91@users.noreply.github.com> Date: Tue, 11 Feb 2025 12:44:47 +0100 Subject: [PATCH 15/30] Update MNI-Colin27_2008.jsonld --- .../MNI-Colin27/MNI-Colin27_2008.jsonld | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_2008.jsonld b/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_2008.jsonld index e6f9a59f7..c2b180ea8 100644 --- a/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_2008.jsonld +++ b/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_2008.jsonld @@ -22,7 +22,7 @@ "fullName": "MNI Colin27 Average Brain Stereotaxic Registration Model", "funding": null, "homepage": "https://www.mcgill.ca/bic/software/tools-data-analysis/anatomical-mri/atlases", - "howToCite": "Please make sure to follow the copyright of the [MNI Colin27 Average Brain Stereotaxic Registration Model (high-resolution version 2008)](https://www.mcgill.ca/bic/software/tools-data-analysis/anatomical-mri/atlases/colin-27-2008). You may also cite its original publication, [Holmes et al. (1998)](http://doi.org/10.1097/00004728-199803000-00032), and the corrsponding publication, [Aubert-Broche et al. (2006)](https://doi.org/10.1016/j.neuroimage.2006.03.052).", + "howToCite": "Please make sure to follow the copyright of the [MNI Colin27 Average Brain Stereotaxic Registration Model (high-resolution version 2008)](https://www.mcgill.ca/bic/software/tools-data-analysis/anatomical-mri/atlases/colin-27-2008). You may also cite its original publication, [Holmes et al. (1998)](http://doi.org/10.1097/00004728-199803000-00032), and the corresponding publication, [Aubert-Broche et al. (2006)](https://doi.org/10.1016/j.neuroimage.2006.03.052).", "isAlternativeVersionOf": [ { "@id": "https://openminds.om-i.org/instances/commonCoordinateSpaceVersion/MNI-Colin27_1998" From 8be9f39a4e219abde72082ffe8d76c2779b3de6b Mon Sep 17 00:00:00 2001 From: Ulrike Schlegel <54898984+UlrikeS91@users.noreply.github.com> Date: Thu, 26 Jun 2025 10:26:05 +0200 Subject: [PATCH 16/30] Update instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_1998.jsonld Co-authored-by: Lyuba Zehl --- .../MNI-Colin27/MNI-Colin27_1998.jsonld | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_1998.jsonld b/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_1998.jsonld index 00f7362e1..8870b83a9 100644 --- a/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_1998.jsonld +++ b/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_1998.jsonld @@ -62,5 +62,5 @@ "supportChannel": null, "usedSpecimen": null, "versionIdentifier": "1998", - "versionInnovation": "This is the original version of the common coordinate space, and the T1 average image was created in a two step process. First, each of the 27 T1-weighted scans were registered to stereotaxic space using the MRITOTAL procedure and resampled onto a 1 mm grid in stereotaxic space. All 27 scans were averaged together to create an initial average. This average volume was used as a target for the second phase of registration where each original T1-weighted MRI was re-registered in stereotaxic space. This procedure has the advantage of removing the small variance in intra-subject mapping in stereotaxic space associated with the use of a multi-subject average. The T2 and proton density (PD) average images were performed similarly and were also of higher quality than single scans, but the improvement was not as dramatic as that of the T1 volumes." + "versionInnovation": "This is the original version of the common coordinate space. The T1 average image was created in a two step process. First, each of the 27 T1-weighted scans were registered to stereotaxic space using the MRITOTAL procedure and resampled onto a 1 mm grid in stereotaxic space. All 27 scans were averaged together to create an initial average. This average volume was used as a target for the second phase of registration where each original T1-weighted MRI was re-registered in stereotaxic space. This procedure has the advantage of removing the small variance in intra-subject mapping in stereotaxic space associated with the use of a multi-subject average. The T2 and proton density (PD) average images were performed similarly and were also of higher quality than single scans, but the improvement was not as dramatic as that of the T1 volumes." } From daa3a7ac5d3ea2483ea6936cd606a043d84bd67f Mon Sep 17 00:00:00 2001 From: Ulrike Schlegel <54898984+UlrikeS91@users.noreply.github.com> Date: Thu, 26 Jun 2025 10:33:54 +0200 Subject: [PATCH 17/30] Update MNI-Colin27_1998.jsonld --- .../MNI-Colin27/MNI-Colin27_1998.jsonld | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_1998.jsonld b/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_1998.jsonld index 8870b83a9..156b0c2ea 100644 --- a/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_1998.jsonld +++ b/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_1998.jsonld @@ -36,7 +36,7 @@ }, "fullName": "MNI Colin27 Average Brain Stereotaxic Registration Model", "funding": null, - "homepage": "https://www.mcgill.ca/bic/software/tools-data-analysis/anatomical-mri/atlases", + "homepage": "https://www.mcgill.ca/bic/software/tools-data-analysis/anatomical-mri/atlases/colin-27", "howToCite": "Please make sure to follow the copyright of the [MNI Colin27 Average Brain Stereotaxic Registration Model (original 1998 version)](https://www.mcgill.ca/bic/software/tools-data-analysis/anatomical-mri/atlases/colin-27). You may also cite its original publication, [Holmes et al. (1998)](http://doi.org/10.1097/00004728-199803000-00032).", "isAlternativeVersionOf": [ { From b727ebebae92fc21051dcd5fdb94adafb41ef3b6 Mon Sep 17 00:00:00 2001 From: Ulrike Schlegel <54898984+UlrikeS91@users.noreply.github.com> Date: Thu, 26 Jun 2025 10:34:37 +0200 Subject: [PATCH 18/30] Update MNI-Colin27.jsonld --- instances/latest/commonCoordinateSpaces/MNI-Colin27.jsonld | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/instances/latest/commonCoordinateSpaces/MNI-Colin27.jsonld b/instances/latest/commonCoordinateSpaces/MNI-Colin27.jsonld index e8e37a0f4..dabea065e 100644 --- a/instances/latest/commonCoordinateSpaces/MNI-Colin27.jsonld +++ b/instances/latest/commonCoordinateSpaces/MNI-Colin27.jsonld @@ -7,7 +7,7 @@ "abbreviation": "MNI-Colin27", "author": null, "custodian": null, - "description": "The 'MNI Colin 27 Average Brain Stereotaxic Registration Model' is a stereotaxic average of T1-, T2- and PD-weighted MRI scans of the same individual (27, 12 and 12 scans, respectively).It was created at the Montreal Neurological Institute (MNI). The MRI scans were automatically registered to a common stereotaxic space using MRITOTAL (an automated volumetric registration procedure), resampled and intensity averaged.", + "description": "The 'MNI Colin 27 Average Brain Stereotaxic Registration Model' is a stereotaxic average of T1-, T2- and PD-weighted MRI scans of the same individual (27, 12 and 12 scans, respectively). It was created at the Montreal Neurological Institute (MNI). The MRI scans were automatically registered to a common stereotaxic space using MRITOTAL (an automated volumetric registration procedure), resampled and intensity averaged.", "digitalIdentifier": null, "fullName": "MNI Colin27 Average Brain Stereotaxic Registration Model", "hasVersion": [ From 0aa0b3dd5f4aa468e93082d934db178a7ee12355 Mon Sep 17 00:00:00 2001 From: Ulrike Schlegel <54898984+UlrikeS91@users.noreply.github.com> Date: Thu, 26 Jun 2025 10:35:00 +0200 Subject: [PATCH 19/30] Update MNI-Colin27_1998.jsonld --- .../MNI-Colin27/MNI-Colin27_1998.jsonld | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_1998.jsonld b/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_1998.jsonld index 156b0c2ea..8fea47769 100644 --- a/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_1998.jsonld +++ b/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_1998.jsonld @@ -29,7 +29,7 @@ "copyright": null, "custodian": null, "defaultImage": null, - "description": "The 'MNI Colin 27 Average Brain Stereotaxic Registration Model' is a stereotaxic average of T1-, T2- and PD-weighted MRI scans of the same individual (27, 12 and 12 scans, respectively).It was created at the Montreal Neurological Institute (MNI). The MRI scans were automatically registered to a common stereotaxic space using MRITOTAL (an automated volumetric registration procedure), resampled and intensity averaged.", + "description": "The 'MNI Colin 27 Average Brain Stereotaxic Registration Model' is a stereotaxic average of T1-, T2- and PD-weighted MRI scans of the same individual (27, 12 and 12 scans, respectively). It was created at the Montreal Neurological Institute (MNI). The MRI scans were automatically registered to a common stereotaxic space using MRITOTAL (an automated volumetric registration procedure), resampled and intensity averaged.", "digitalIdentifier": null, "fullDocumentation": { "@id": "https://www.mcgill.ca/bic/software/tools-data-analysis/anatomical-mri/atlases/colin-27" From 0147d4db8447d742f4f23294e612c6c1db543b4a Mon Sep 17 00:00:00 2001 From: Ulrike Schlegel <54898984+UlrikeS91@users.noreply.github.com> Date: Thu, 26 Jun 2025 10:35:09 +0200 Subject: [PATCH 20/30] Update MNI-Colin27_2008.jsonld --- .../MNI-Colin27/MNI-Colin27_2008.jsonld | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_2008.jsonld b/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_2008.jsonld index c2b180ea8..58a63ceaa 100644 --- a/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_2008.jsonld +++ b/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_2008.jsonld @@ -14,7 +14,7 @@ "copyright": null, "custodian": null, "defaultImage": null, - "description": "The 'MNI Colin 27 Average Brain Stereotaxic Registration Model' is a stereotaxic average of T1-, T2- and PD-weighted MRI scans of the same individual (27, 12 and 12 scans, respectively).It was created at the Montreal Neurological Institute (MNI). The MRI scans were automatically registered to a common stereotaxic space using MRITOTAL (an automated volumetric registration procedure), resampled and intensity averaged.", + "description": "The 'MNI Colin 27 Average Brain Stereotaxic Registration Model' is a stereotaxic average of T1-, T2- and PD-weighted MRI scans of the same individual (27, 12 and 12 scans, respectively). It was created at the Montreal Neurological Institute (MNI). The MRI scans were automatically registered to a common stereotaxic space using MRITOTAL (an automated volumetric registration procedure), resampled and intensity averaged.", "digitalIdentifier": null, "fullDocumentation": { "@id": "https://www.mcgill.ca/bic/software/tools-data-analysis/anatomical-mri/atlases/colin-27-2008" From abf336232d02fdefb2fb3a812579abe87cbda82b Mon Sep 17 00:00:00 2001 From: Ulrike Schlegel <54898984+UlrikeS91@users.noreply.github.com> Date: Thu, 26 Jun 2025 10:43:08 +0200 Subject: [PATCH 21/30] Update MNI-Colin27_2008.jsonld --- .../MNI-Colin27/MNI-Colin27_2008.jsonld | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_2008.jsonld b/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_2008.jsonld index 58a63ceaa..90791800e 100644 --- a/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_2008.jsonld +++ b/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_2008.jsonld @@ -14,7 +14,7 @@ "copyright": null, "custodian": null, "defaultImage": null, - "description": "The 'MNI Colin 27 Average Brain Stereotaxic Registration Model' is a stereotaxic average of T1-, T2- and PD-weighted MRI scans of the same individual (27, 12 and 12 scans, respectively). It was created at the Montreal Neurological Institute (MNI). The MRI scans were automatically registered to a common stereotaxic space using MRITOTAL (an automated volumetric registration procedure), resampled and intensity averaged.", + "description": "A stereotaxic average of T1-, T2- and PD-weighted MRI scans of the same individual (27, 12 and 12 scans, respectively). It was created at the Montreal Neurological Institute (MNI). The MRI scans were automatically registered to a common stereotaxic space using MRITOTAL (an automated volumetric registration procedure), resampled and intensity averaged. [sources: [Holmes et al. (1998)]( https://doi.org/10.1097/00004728-199803000-00032) and descriptions provided under [‘MNI-Colin27’ on their homepage]( https://www.mcgill.ca/bic/software/tools-data-analysis/anatomical-mri/atlases)]", "digitalIdentifier": null, "fullDocumentation": { "@id": "https://www.mcgill.ca/bic/software/tools-data-analysis/anatomical-mri/atlases/colin-27-2008" From ffab8d0956de6ad0bca88517a16cd49bac8b952c Mon Sep 17 00:00:00 2001 From: Ulrike Schlegel <54898984+UlrikeS91@users.noreply.github.com> Date: Thu, 26 Jun 2025 10:43:35 +0200 Subject: [PATCH 22/30] Update MNI-Colin27_1998.jsonld --- .../MNI-Colin27/MNI-Colin27_1998.jsonld | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_1998.jsonld b/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_1998.jsonld index 8fea47769..02d82a88d 100644 --- a/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_1998.jsonld +++ b/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_1998.jsonld @@ -29,14 +29,14 @@ "copyright": null, "custodian": null, "defaultImage": null, - "description": "The 'MNI Colin 27 Average Brain Stereotaxic Registration Model' is a stereotaxic average of T1-, T2- and PD-weighted MRI scans of the same individual (27, 12 and 12 scans, respectively). It was created at the Montreal Neurological Institute (MNI). The MRI scans were automatically registered to a common stereotaxic space using MRITOTAL (an automated volumetric registration procedure), resampled and intensity averaged.", + "description": "A stereotaxic average of T1-, T2- and PD-weighted MRI scans of the same individual (27, 12 and 12 scans, respectively). It was created at the Montreal Neurological Institute (MNI). The MRI scans were automatically registered to a common stereotaxic space using MRITOTAL (an automated volumetric registration procedure), resampled and intensity averaged. [sources: [Holmes et al. (1998)]( https://doi.org/10.1097/00004728-199803000-00032) and descriptions provided under [‘MNI-Colin27’ on their homepage]( https://www.mcgill.ca/bic/software/tools-data-analysis/anatomical-mri/atlases)]", "digitalIdentifier": null, "fullDocumentation": { "@id": "https://www.mcgill.ca/bic/software/tools-data-analysis/anatomical-mri/atlases/colin-27" }, "fullName": "MNI Colin27 Average Brain Stereotaxic Registration Model", "funding": null, - "homepage": "https://www.mcgill.ca/bic/software/tools-data-analysis/anatomical-mri/atlases/colin-27", + "homepage": "https://www.mcgill.ca/bic/software/tools-data-analysis/anatomical-mri/atlases", "howToCite": "Please make sure to follow the copyright of the [MNI Colin27 Average Brain Stereotaxic Registration Model (original 1998 version)](https://www.mcgill.ca/bic/software/tools-data-analysis/anatomical-mri/atlases/colin-27). You may also cite its original publication, [Holmes et al. (1998)](http://doi.org/10.1097/00004728-199803000-00032).", "isAlternativeVersionOf": [ { From 238761a5a75db6267b05f0763d9ca88111546323 Mon Sep 17 00:00:00 2001 From: Ulrike Schlegel <54898984+UlrikeS91@users.noreply.github.com> Date: Thu, 26 Jun 2025 10:44:03 +0200 Subject: [PATCH 23/30] Update MNI-Colin27.jsonld --- instances/latest/commonCoordinateSpaces/MNI-Colin27.jsonld | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/instances/latest/commonCoordinateSpaces/MNI-Colin27.jsonld b/instances/latest/commonCoordinateSpaces/MNI-Colin27.jsonld index dabea065e..4df325450 100644 --- a/instances/latest/commonCoordinateSpaces/MNI-Colin27.jsonld +++ b/instances/latest/commonCoordinateSpaces/MNI-Colin27.jsonld @@ -7,7 +7,7 @@ "abbreviation": "MNI-Colin27", "author": null, "custodian": null, - "description": "The 'MNI Colin 27 Average Brain Stereotaxic Registration Model' is a stereotaxic average of T1-, T2- and PD-weighted MRI scans of the same individual (27, 12 and 12 scans, respectively). It was created at the Montreal Neurological Institute (MNI). The MRI scans were automatically registered to a common stereotaxic space using MRITOTAL (an automated volumetric registration procedure), resampled and intensity averaged.", + "description": "A stereotaxic average of T1-, T2- and PD-weighted MRI scans of the same individual (27, 12 and 12 scans, respectively). It was created at the Montreal Neurological Institute (MNI). The MRI scans were automatically registered to a common stereotaxic space using MRITOTAL (an automated volumetric registration procedure), resampled and intensity averaged. [sources: [Holmes et al. (1998)]( https://doi.org/10.1097/00004728-199803000-00032) and descriptions provided under [‘MNI-Colin27’ on their homepage]( https://www.mcgill.ca/bic/software/tools-data-analysis/anatomical-mri/atlases)]", "digitalIdentifier": null, "fullName": "MNI Colin27 Average Brain Stereotaxic Registration Model", "hasVersion": [ From 7d7c335e606a3369f3b0dec8a55a6f1ff769aa53 Mon Sep 17 00:00:00 2001 From: Ulrike Schlegel <54898984+UlrikeS91@users.noreply.github.com> Date: Thu, 26 Jun 2025 10:48:20 +0200 Subject: [PATCH 24/30] Update MNI-Colin27_1998.jsonld --- .../MNI-Colin27/MNI-Colin27_1998.jsonld | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_1998.jsonld b/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_1998.jsonld index 02d82a88d..bb054c2ce 100644 --- a/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_1998.jsonld +++ b/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_1998.jsonld @@ -62,5 +62,5 @@ "supportChannel": null, "usedSpecimen": null, "versionIdentifier": "1998", - "versionInnovation": "This is the original version of the common coordinate space. The T1 average image was created in a two step process. First, each of the 27 T1-weighted scans were registered to stereotaxic space using the MRITOTAL procedure and resampled onto a 1 mm grid in stereotaxic space. All 27 scans were averaged together to create an initial average. This average volume was used as a target for the second phase of registration where each original T1-weighted MRI was re-registered in stereotaxic space. This procedure has the advantage of removing the small variance in intra-subject mapping in stereotaxic space associated with the use of a multi-subject average. The T2 and proton density (PD) average images were performed similarly and were also of higher quality than single scans, but the improvement was not as dramatic as that of the T1 volumes." + "versionInnovation": "This is the original version of the common coordinate space. The T1 average image was created in a two step process. First, each of the 27 T1-weighted scans were registered to stereotaxic space using the MRITOTAL procedure and resampled onto a 1 mm grid in stereotaxic space. All 27 scans were averaged together to create an initial average. This average volume was used as a target for the second phase of registration where each original T1-weighted MRI was re-registered in stereotaxic space. This procedure has the advantage of removing the small variance in intra-subject mapping in stereotaxic space associated with the use of a multi-subject average. The T2 and proton density (PD) average images were performed similarly and were also of higher quality than single scans, but the improvement was not as dramatic as that of the T1 volumes. [sources: [’Methods’ summary on their homepage]( https://www.mcgill.ca/bic/software/tools-data-analysis/anatomical-mri/atlases/colin-27) and [Holmes et al. (1998)]( https://doi.org/10.1097/00004728-199803000-00032)]" } From 36994af4fcf385d666033214a98deb355b08d57e Mon Sep 17 00:00:00 2001 From: Ulrike Schlegel <54898984+UlrikeS91@users.noreply.github.com> Date: Thu, 26 Jun 2025 10:58:07 +0200 Subject: [PATCH 25/30] Update MNI-Colin27_1998.jsonld --- .../MNI-Colin27/MNI-Colin27_1998.jsonld | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_1998.jsonld b/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_1998.jsonld index bb054c2ce..8da374e89 100644 --- a/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_1998.jsonld +++ b/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_1998.jsonld @@ -62,5 +62,5 @@ "supportChannel": null, "usedSpecimen": null, "versionIdentifier": "1998", - "versionInnovation": "This is the original version of the common coordinate space. The T1 average image was created in a two step process. First, each of the 27 T1-weighted scans were registered to stereotaxic space using the MRITOTAL procedure and resampled onto a 1 mm grid in stereotaxic space. All 27 scans were averaged together to create an initial average. This average volume was used as a target for the second phase of registration where each original T1-weighted MRI was re-registered in stereotaxic space. This procedure has the advantage of removing the small variance in intra-subject mapping in stereotaxic space associated with the use of a multi-subject average. The T2 and proton density (PD) average images were performed similarly and were also of higher quality than single scans, but the improvement was not as dramatic as that of the T1 volumes. [sources: [’Methods’ summary on their homepage]( https://www.mcgill.ca/bic/software/tools-data-analysis/anatomical-mri/atlases/colin-27) and [Holmes et al. (1998)]( https://doi.org/10.1097/00004728-199803000-00032)]" + "versionInnovation": "This is the original version of the common coordinate space. The T1 average image was created in a two step process. First, each of the 27 T1-weighted scans were registered to stereotaxic space using the MRITOTAL procedure and resampled onto a 1 mm grid in stereotaxic space. All 27 scans were averaged together to create an initial average. This average volume was used as a target for the second phase of registration where each original T1-weighted MRI was re-registered in stereotaxic space. This procedure has the advantage of removing the small variance in intra-subject mapping in stereotaxic space associated with the use of a multi-subject average. The T2 and proton density (PD) average images were performed similarly and were also of higher quality than single scans, but the improvement was not as dramatic as that of the T1 volumes. [sources: [’Methods’ summary on their homepage]( https://www.mcgill.ca/bic/software/tools-data-analysis/anatomical-mri/atlases/colin-27) and [Holmes et al. (1998)](https://doi.org/10.1097/00004728-199803000-00032)]" } From a5890284f3fcd4154484dec0e1d63a0090f8e165 Mon Sep 17 00:00:00 2001 From: Ulrike Schlegel <54898984+UlrikeS91@users.noreply.github.com> Date: Thu, 26 Jun 2025 10:58:32 +0200 Subject: [PATCH 26/30] Update MNI-Colin27_1998.jsonld --- .../MNI-Colin27/MNI-Colin27_1998.jsonld | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_1998.jsonld b/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_1998.jsonld index 8da374e89..209665d45 100644 --- a/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_1998.jsonld +++ b/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_1998.jsonld @@ -29,7 +29,7 @@ "copyright": null, "custodian": null, "defaultImage": null, - "description": "A stereotaxic average of T1-, T2- and PD-weighted MRI scans of the same individual (27, 12 and 12 scans, respectively). It was created at the Montreal Neurological Institute (MNI). The MRI scans were automatically registered to a common stereotaxic space using MRITOTAL (an automated volumetric registration procedure), resampled and intensity averaged. [sources: [Holmes et al. (1998)]( https://doi.org/10.1097/00004728-199803000-00032) and descriptions provided under [‘MNI-Colin27’ on their homepage]( https://www.mcgill.ca/bic/software/tools-data-analysis/anatomical-mri/atlases)]", + "description": "A stereotaxic average of T1-, T2- and PD-weighted MRI scans of the same individual (27, 12 and 12 scans, respectively). It was created at the Montreal Neurological Institute (MNI). The MRI scans were automatically registered to a common stereotaxic space using MRITOTAL (an automated volumetric registration procedure), resampled and intensity averaged. [sources: [Holmes et al. (1998)](https://doi.org/10.1097/00004728-199803000-00032) and descriptions provided under [‘MNI-Colin27’ on their homepage]( https://www.mcgill.ca/bic/software/tools-data-analysis/anatomical-mri/atlases)]", "digitalIdentifier": null, "fullDocumentation": { "@id": "https://www.mcgill.ca/bic/software/tools-data-analysis/anatomical-mri/atlases/colin-27" From 3b92da7fda0ad69ee8e716fcc70db7b0c018a907 Mon Sep 17 00:00:00 2001 From: Ulrike Schlegel <54898984+UlrikeS91@users.noreply.github.com> Date: Thu, 26 Jun 2025 11:02:28 +0200 Subject: [PATCH 27/30] Update MNI-Colin27_2008.jsonld --- .../MNI-Colin27/MNI-Colin27_2008.jsonld | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_2008.jsonld b/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_2008.jsonld index 90791800e..5f9e5ca67 100644 --- a/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_2008.jsonld +++ b/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_2008.jsonld @@ -14,7 +14,7 @@ "copyright": null, "custodian": null, "defaultImage": null, - "description": "A stereotaxic average of T1-, T2- and PD-weighted MRI scans of the same individual (27, 12 and 12 scans, respectively). It was created at the Montreal Neurological Institute (MNI). The MRI scans were automatically registered to a common stereotaxic space using MRITOTAL (an automated volumetric registration procedure), resampled and intensity averaged. [sources: [Holmes et al. (1998)]( https://doi.org/10.1097/00004728-199803000-00032) and descriptions provided under [‘MNI-Colin27’ on their homepage]( https://www.mcgill.ca/bic/software/tools-data-analysis/anatomical-mri/atlases)]", + "description": "A stereotaxic average of T1-, T2- and PD-weighted MRI scans of the same individual (27, 12 and 12 scans, respectively). It was created at the Montreal Neurological Institute (MNI). The MRI scans were automatically registered to a common stereotaxic space using MRITOTAL (an automated volumetric registration procedure), resampled and intensity averaged. [sources: [Holmes et al. (1998)](https://doi.org/10.1097/00004728-199803000-00032) and descriptions provided under [‘MNI-Colin27’ on their homepage]( https://www.mcgill.ca/bic/software/tools-data-analysis/anatomical-mri/atlases)]", "digitalIdentifier": null, "fullDocumentation": { "@id": "https://www.mcgill.ca/bic/software/tools-data-analysis/anatomical-mri/atlases/colin-27-2008" @@ -50,5 +50,5 @@ "supportChannel": null, "usedSpecimen": null, "versionIdentifier": "2008", - "versionInnovation": "This is the high-resolution version of the common coordinate space. These volumes are defined at a 0.5 mm isotropic voxel grid in Talairach space, with dimensions 362x434x362 (XxYxZ) and start coordinates −90,−126,−72 (x,y,z)." + "versionInnovation": "This is the high-resolution version of the common coordinate space. These volumes are defined at a 0.5 mm isotropic voxel grid in Talairach space, with dimensions 362x434x362 (XxYxZ) and start coordinates −90,−126,−72 (x,y,z). [sources: [’Overview’ summary on their homepage]( https://www.mcgill.ca/bic/software/tools-data-analysis/anatomical-mri/atlases/colin-27-2008) and [Aubert-Broche et al. (2008)](https://doi.org/10.1016/j.neuroimage.2006.03.052)]" } From bb3447c72332caacd9fd3f3e596ac67cc6ed825a Mon Sep 17 00:00:00 2001 From: Ulrike Schlegel <54898984+UlrikeS91@users.noreply.github.com> Date: Thu, 26 Jun 2025 11:03:31 +0200 Subject: [PATCH 28/30] Update MNI-Colin27.jsonld --- instances/latest/commonCoordinateSpaces/MNI-Colin27.jsonld | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/instances/latest/commonCoordinateSpaces/MNI-Colin27.jsonld b/instances/latest/commonCoordinateSpaces/MNI-Colin27.jsonld index 4df325450..58eeebb16 100644 --- a/instances/latest/commonCoordinateSpaces/MNI-Colin27.jsonld +++ b/instances/latest/commonCoordinateSpaces/MNI-Colin27.jsonld @@ -7,7 +7,7 @@ "abbreviation": "MNI-Colin27", "author": null, "custodian": null, - "description": "A stereotaxic average of T1-, T2- and PD-weighted MRI scans of the same individual (27, 12 and 12 scans, respectively). It was created at the Montreal Neurological Institute (MNI). The MRI scans were automatically registered to a common stereotaxic space using MRITOTAL (an automated volumetric registration procedure), resampled and intensity averaged. [sources: [Holmes et al. (1998)]( https://doi.org/10.1097/00004728-199803000-00032) and descriptions provided under [‘MNI-Colin27’ on their homepage]( https://www.mcgill.ca/bic/software/tools-data-analysis/anatomical-mri/atlases)]", + "description": "A stereotaxic average of T1-, T2- and PD-weighted MRI scans of the same individual (27, 12 and 12 scans, respectively). It was created at the Montreal Neurological Institute (MNI). The MRI scans were automatically registered to a common stereotaxic space using MRITOTAL (an automated volumetric registration procedure), resampled and intensity averaged. [sources: [Holmes et al. (1998)](https://doi.org/10.1097/00004728-199803000-00032) and descriptions provided under [‘MNI-Colin27’ on their homepage]( https://www.mcgill.ca/bic/software/tools-data-analysis/anatomical-mri/atlases)]", "digitalIdentifier": null, "fullName": "MNI Colin27 Average Brain Stereotaxic Registration Model", "hasVersion": [ From 2271f04d9d19467b24da817870b79bfd975c5f58 Mon Sep 17 00:00:00 2001 From: Ulrike Schlegel <54898984+UlrikeS91@users.noreply.github.com> Date: Thu, 26 Jun 2025 11:03:55 +0200 Subject: [PATCH 29/30] Update MNI-Colin27_2008.jsonld --- .../MNI-Colin27/MNI-Colin27_2008.jsonld | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_2008.jsonld b/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_2008.jsonld index 5f9e5ca67..0379db89d 100644 --- a/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_2008.jsonld +++ b/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_2008.jsonld @@ -50,5 +50,5 @@ "supportChannel": null, "usedSpecimen": null, "versionIdentifier": "2008", - "versionInnovation": "This is the high-resolution version of the common coordinate space. These volumes are defined at a 0.5 mm isotropic voxel grid in Talairach space, with dimensions 362x434x362 (XxYxZ) and start coordinates −90,−126,−72 (x,y,z). [sources: [’Overview’ summary on their homepage]( https://www.mcgill.ca/bic/software/tools-data-analysis/anatomical-mri/atlases/colin-27-2008) and [Aubert-Broche et al. (2008)](https://doi.org/10.1016/j.neuroimage.2006.03.052)]" + "versionInnovation": "This is the high-resolution version of the common coordinate space. These volumes are defined at a 0.5 mm isotropic voxel grid in Talairach space, with dimensions 362x434x362 (XxYxZ) and start coordinates −90,−126,−72 (x,y,z). [sources: [’Overview’ summary on their homepage]( https://www.mcgill.ca/bic/software/tools-data-analysis/anatomical-mri/atlases/colin-27-2008) and [Aubert-Broche et al. (2006)](https://doi.org/10.1016/j.neuroimage.2006.03.052)]" } From 0198d4851cd7b9b3732be856ce3344a2760a82f3 Mon Sep 17 00:00:00 2001 From: Ulrike Schlegel <54898984+UlrikeS91@users.noreply.github.com> Date: Thu, 26 Jun 2025 11:08:23 +0200 Subject: [PATCH 30/30] Update MNI-Colin27_2008.jsonld --- .../MNI-Colin27/MNI-Colin27_2008.jsonld | 4 +++- 1 file changed, 3 insertions(+), 1 deletion(-) diff --git a/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_2008.jsonld b/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_2008.jsonld index 0379db89d..6e61a0dd8 100644 --- a/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_2008.jsonld +++ b/instances/latest/commonCoordinateSpaceVersions/MNI-Colin27/MNI-Colin27_2008.jsonld @@ -8,7 +8,9 @@ "accessibility": { "@id": "https://openminds.om-i.org/instances/productAccessibility/freeAccess" }, - "anatomicalAxesOrientation": null, + "anatomicalAxesOrientation": { + "@id": "https://openminds.om-i.org/instances/anatomicalAxesOrientation/RAS" + }, "author": null, "axesOrigin": null, "copyright": null,