Hi Bas,
how nice that others are asking this question, too :)
If I remember correctly, the AAL labels (PMID: 11771995) were derived
from the Colin 27 high-resolution single subject brain, meaning they fit
this brain very well. They may also fit pretty well when applied to
other brains out there in MNI space, but as soon as you move away with
your population and/or template (you can see where I am going :) ...
some years ago, I used the AAL brain to parcellate children's brains,
and first matched it to my template before doing this (PMID 14527581).
Also, I usually smooth and binarize such masks before applying them to a
population, particularly when assessing t-maps or con images, as these
are usually derived from smoothed images anyway. Also, in my personal
opinion, I believe that using very small masks is problematic as it
assumes your spatial registration is very good, which may or may not be
the case.
Not sure this answered your question, or anyone's, but I thought I'd say
it anyway :)
Cheers,
Marko
Bas Neggers wrote:
> Hi Hasan, Donald, Miro, all,
>
> as I am currently exploring atlas options beyond what I'm used to, and
> Just out of interest: are all these atlasses you mention below based on
> the exact same 'MNI' space? That is, can they be used directly for SPM8
> results? I'm used to AAL-MRIcron/wfu_pickatlas ROIs that nicely match
> SPMs MNI templates. Is the same true for the atlas options 1) and 2)
> below? Or does one need to transform that atlas a bit for it to work
> with SPM results?
>
> And another easy answer for Miro: in MRIcron, when you load the AAL
> atlas, click on a region you are interested in. MRIcron then displays
> the label, the index and the MNI coordinate.
>
> Thanks for your insights,
>
> Bas
>
>
>
> On 11/14/2012 04:02 AM, Hasan, Khader M wrote:
>> 1. http://www.cyceron.fr/web/aal__anatomical_automatic_labeling.html
>>
>> a. AAL toolbox (SPM99, SPM2, SPM5, SPM8)
>>
>> b. Paper: Automated Anatomical Labeling of Activations in SPM Using a
>> Macroscopic Anatomical Parcellation of the MNI MRI Single-Subject
>> Brain. N. Tzourio-Mazoyer, B. Landeau, D. Papathanassiou, F. Crivello,
>> O. Etard, N. Delcroix, B. Mazoyer, and M. Joliot. NeuroImage 2002. 15
>> :273-289
>>
>> 2. International Consortium for Brain Mapping (ICBM)
>>
>> http://www.loni.ucla.edu/ICBM/Downloads/Downloads_Atlases.shtml
>>
>> 3. Check templates and files provided with MRIcro and Human Brain
>> Connectome works (AAl.txt --below)
>>
>> 1 Precentral_L 2001
>> 2 Precentral_R 2002
>> 3 Frontal_Sup_L 2101
>> 4 Frontal_Sup_R 2102
>> 5 Frontal_Sup_Orb_L 2111
>> 6 Frontal_Sup_Orb_R 2112
>> 7 Frontal_Mid_L 2201
>> 8 Frontal_Mid_R 2202
>> 9 Frontal_Mid_Orb_L 2211
>> 10 Frontal_Mid_Orb_R 2212
>> 11 Frontal_Inf_Oper_L 2301
>> 12 Frontal_Inf_Oper_R 2302
>> 13 Frontal_Inf_Tri_L 2311
>> 14 Frontal_Inf_Tri_R 2312
>> 15 Frontal_Inf_Orb_L 2321
>> 16 Frontal_Inf_Orb_R 2322
>> 17 Rolandic_Oper_L 2331
>> 18 Rolandic_Oper_R 2332
>> 19 Supp_Motor_Area_L 2401
>> 20 Supp_Motor_Area_R 2402
>> 21 Olfactory_L 2501
>> 22 Olfactory_R 2502
>> 23 Frontal_Sup_Medial_L 2601
>> 24 Frontal_Sup_Medial_R 2602
>> 25 Frontal_Med_Orb_L 2611
>> 26 Frontal_Med_Orb_R 2612
>> 27 Rectus_L 2701
>> 28 Rectus_R 2702
>> 29 Insula_L 3001
>> 30 Insula_R 3002
>> 31 Cingulum_Ant_L 4001
>> 32 Cingulum_Ant_R 4002
>> 33 Cingulum_Mid_L 4011
>> 34 Cingulum_Mid_R 4012
>> 35 Cingulum_Post_L 4021
>> 36 Cingulum_Post_R 4022
>> 37 Hippocampus_L 4101
>> 38 Hippocampus_R 4102
>> 39 ParaHippocampal_L 4111
>> 40 ParaHippocampal_R 4112
>> 41 Amygdala_L 4201
>> 42 Amygdala_R 4202
>> 43 Calcarine_L 5001
>> 44 Calcarine_R 5002
>> 45 Cuneus_L 5011
>> 46 Cuneus_R 5012
>> 47 Lingual_L 5021
>> 48 Lingual_R 5022
>> 49 Occipital_Sup_L 5101
>> 50 Occipital_Sup_R 5102
>> 51 Occipital_Mid_L 5201
>> 52 Occipital_Mid_R 5202
>> 53 Occipital_Inf_L 5301
>> 54 Occipital_Inf_R 5302
>> 55 Fusiform_L 5401
>> 56 Fusiform_R 5402
>> 57 Postcentral_L 6001
>> 58 Postcentral_R 6002
>> 59 Parietal_Sup_L 6101
>> 60 Parietal_Sup_R 6102
>> 61 Parietal_Inf_L 6201
>> 62 Parietal_Inf_R 6202
>> 63 SupraMarginal_L 6211
>> 64 SupraMarginal_R 6212
>> 65 Angular_L 6221
>> 66 Angular_R 6222
>> 67 Precuneus_L 6301
>> 68 Precuneus_R 6302
>> 69 Paracentral_Lobule_L 6401
>> 70 Paracentral_Lobule_R 6402
>> 71 Caudate_L 7001
>> 72 Caudate_R 7002
>> 73 Putamen_L 7011
>> 74 Putamen_R 7012
>> 75 Pallidum_L 7021
>> 76 Pallidum_R 7022
>> 77 Thalamus_L 7101
>> 78 Thalamus_R 7102
>> 79 Heschl_L 8101
>> 80 Heschl_R 8102
>> 81 Temporal_Sup_L 8111
>> 82 Temporal_Sup_R 8112
>> 83 Temporal_Pole_Sup_L 8121
>> 84 Temporal_Pole_Sup_R 8122
>> 85 Temporal_Mid_L 8201
>> 86 Temporal_Mid_R 8202
>> 87 Temporal_Pole_Mid_L 8211
>> 88 Temporal_Pole_Mid_R 8212
>> 89 Temporal_Inf_L 8301
>> 90 Temporal_Inf_R 8302
>> 91 Cerebelum_Crus1_L 9001
>> 92 Cerebelum_Crus1_R 9002
>> 93 Cerebelum_Crus2_L 9011
>> 94 Cerebelum_Crus2_R 9012
>> 95 Cerebelum_3_L 9021
>> 96 Cerebelum_3_R 9022
>> 97 Cerebelum_4_5_L 9031
>> 98 Cerebelum_4_5_R 9032
>> 99 Cerebelum_6_L 9041
>> 100 Cerebelum_6_R 9042
>> 101 Cerebelum_7b_L 9051
>> 102 Cerebelum_7b_R 9052
>> 103 Cerebelum_8_L 9061
>> 104 Cerebelum_8_R 9062
>> 105 Cerebelum_9_L 9071
>> 106 Cerebelum_9_R 9072
>> 107 Cerebelum_10_L 9081
>> 108 Cerebelum_10_R 9082
>> 109 Vermis_1_2 9100
>> 110 Vermis_3 9110
>> 111 Vermis_4_5 9120
>> 112 Vermis_6 9130
>> 113 Vermis_7 9140
>> 114 Vermis_8 9150
>> 115 Vermis_9 9160
>> 116 Vermis_10 9170
>>
>>
>>
>> Khader M Hasan, PhD
>> Associate Professor of Radiology
>> MSE 168, Tel 713 500 7690 (FAX 713 500 7684)
>> University of Texas Health Science Center at Houston
>> Medical School
>> Diagnostic and Interventional Imaging
>> Magnetic Resonance Imaging Research Division
>> Diffusion Tensor Imaging Lab, Tel 713 500 7683
>> http://www.uth.tmc.edu/radiology/faculty/khader-m-hasan/index.html
>> ________________________________________
>> From: SPM (Statistical Parametric Mapping) [[log in to unmask]] On
>> Behalf Of Miro Drahos [[log in to unmask]]
>> Sent: Tuesday, November 13, 2012 7:47 PM
>> To: [log in to unmask]
>> Subject: [SPM] AAL atlas labels
>>
>> Hi,
>> where can I find the labels for the AAL atlas ROIs? A legend that maps
>> the intensity in aal atlas to an anatomical description.
>> Thank you,
>> Miro
>
>
--
____________________________________________________
PD Dr. med. Marko Wilke
Facharzt für Kinder- und Jugendmedizin
Leiter, Experimentelle Pädiatrische Neurobildgebung
Universitäts-Kinderklinik
Abt. III (Neuropädiatrie)
Marko Wilke, MD, PhD
Pediatrician
Head, Experimental Pediatric Neuroimaging
University Children's Hospital
Dept. III (Pediatric Neurology)
Hoppe-Seyler-Str. 1
D - 72076 Tübingen, Germany
Tel. +49 7071 29-83416
Fax +49 7071 29-5473
[log in to unmask]
http://www.medizin.uni-tuebingen.de/kinder/epn/
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