101 labeled brain images and a consistent human cortical labeling protocol

Frontiers in Neuroscience

Volumn , Issue DEC, 2012, Pages

  Klein, Arno ^a,b   Tourville, Jason ^c  

^a STONY BROOK UNIVERSITY   (United States)

^b Howard Hughes Medical Institute   (United States)

^c BOSTON UNIVERSITY   (United States)

Author keywords

Anatomy; Cerebral cortex; Human brain; Labeling; Mri; Parcellation; Segmentation

Indexed keywords

ACCURACY; ADULT; ALGORITHM; ARTICLE; AUTOMATION; BRAIN CORTEX; BRAIN SIZE; COMPUTER PROGRAM; CONTROLLED STUDY; ENTORHINAL CORTEX; FUNCTIONAL NEUROIMAGING; GRAY MATTER; HUMAN; IMAGE ANALYSIS; MORPHOMETRICS; NUCLEAR MAGNETIC RESONANCE IMAGING; OCCIPITAL LOBE; PARIETAL LOBE; PROBABILITY; QUALITY CONTROL; SUPERIOR TEMPORAL GYRUS; TEST RETEST RELIABILITY;

EID: 84870906999     PISSN: 16624548     EISSN: 1662453X     Source Type: Journal    
DOI: 10.3389/fnins.2012.00171     Document Type: Article

References (36)

1. Aljabar, P., Heckemann, R. A., Hammers, A., Hajnal, J. V., and Rueck-ert, D. (2009). Multi-atlas based segmentation of brain images: atlas selection and its effect on accuracy. Neuroimage 46, 726-738. doi:10. 1016/j.neuroimage.2009.02.018
2. Avants, B. B., Yushkevich, P., Pluta, J., Minkoff, D., Korczykowski, M., Detre, J., et al. (2010). The optimal template effect in hippocampus studies of diseased populations. Neuroimage 49,2457-2466.
3. Bilder, R. M., Toga, A. W., Mirza, M., Shattuck, D. W., Adisetiyo, V., Sala-mon, G., et al. (2008). Construction of a 3D probabilistic atlas of human cortical structures. Neuroimage 39, 1064-1080.
4. Bohland, J. W., Bokil, H., Mitra, P. P., and Allen, C. B. (2009). The brain atlas concordance problem: quantitative comparison of anatomical parcellations. PLoS ONE 4:e7200. doi:10.1371/journal.pone.0007200
5. Cachia, A., Paillère-Martinot, M.-L., Galinowski, A., Januel, D., de Beau-repaire, R., Bellivier, F., et al. (2008). Cortical folding abnormalities in schizophrenia patients with resistant auditory hallucinations. Neuroimage 39, 927-935. doi:10.1016/ j.neuroimage.2007.08.049
6. Caviness, V. S., Meyer, J., Makris, N., and Kennedy, D. N. (1996). MRI-based topographic parcellation of human neocortex: an anatomically specified method with estimate of reliability. J. Cogn. Neurosci. 8, 566-587.
7. Cointepas, Y., Mangin, J.-F., Garnero, L., Poline, J.-B., and Benali, H. (2001). BrainVISA: software platform for visualization and analysis of multi-modality brain data. Hum. Brain Mapp. 13(Suppl.), 98.
8. Crespo-Facorro, B., Kim, J.-J., Andreasen, N. C., Spinks, R., O'Leary, D. S., Bockholt, H. J., et al. (2000). Cerebral cortex: a topographic segmentation method using magnetic resonance imaging. Psychiatry Res. 100, 97-126.
9. Dale, A. M., Fischl, B., and Sereno, M. I. (1999). Cortical surface-based analysis I: segmentation and surface reconstruction. Neuroimage 9, 179-194.
10. Damasio, H. (2005). Human Brain Anatomy in Computerized Images, 2nd Edn. New York: Oxford University Press.
11. Delcroix, N., Tzourio-Mazoyer, N., Landeau, B., Papathanassiou, D., Crivello, F., Mazoyer, B., et al. (2002). Automated anatomical labeling of activations in SPM using a macroscopic anatomical parcellation of the MNIMRI single-subject brain. Neuroimage 15,273-289.
12. Desikan, R. S., Segonne, F., Fischl, B., Quinn, B. T., Dickerson, B. C., Blacker, D., et al. (2006). An automated labeling system for subdividing the human cerebral cortex on MRI scans into gyral based regions of interest. Neuroimage 3, 968-980.
13. Destrieux, C., Fischl, B., Dale, A., and Halgren, E. (2010). Automatic parcellation of human cortical gyri and sulci using standard anatomical nomenclature. Neuroimage 53,1-15. doi:10.1016/j.neuroimage.2010.06.010
14. Duvernoy, H. M. (1999). The Human Brain: Surface, Blood Supply, and Three Dimensional Anatomy. New York: Springer-Verlag Wien.
15. Fischl, B., Liu, A., and Dale, A. M. (2001). Automated manifold surgery: constructing geometrically accurate and topologically correct models of the human cerebral cortex. IEEE Trans. Med. Imaging 20, 70-80. doi:10.1109/42.906426
16. Fischl, B., Salat, D. H., Busa, E., Dale, A. M., Klaveness, S., Haselgrove, C., et al. (2002). Whole brain segmentation: neurotechnique automated labeling of neuroanatomical structures in the human brain. Neuron 33, 341-355.
17. Fischl, B., Sereno, M. I., and Dale, A. M. (1999). Cortical surface-based analysis. II: Inflation, flattening, and a surface-based coordinate system. Neuroimage 9, 179-194.
18. Gronenschild, E. H. B. M., Habets, P., Jacobs, H. I. L., Mengelers, R., Rozen-daal, N., van Os, J., et al. (2012). The effects of FreeSurfer Version, workstation type, and Macintosh Operating System Version on anatomical volume and cortical thickness measurements. PLoS ONE 7:e38234. doi:10.1371/journal.pone.0038234
19. Heckemann, R. A., Hajnal, J. V., Aljabar, P., Rueckert, D., and Hammers, A. (2006). Automatic anatomical brain {MRI} segmentation combining label propagation and decision fusion. Neuroimage 33, 115-126.
20. Holmes, C. J., Hoge, R., Collins, L., Woods, R., Toga, A. W., and Evans, A. C. (1998). Enhancement of MR images using registration for signal averaging. J. Comput. Assist. Tomogr. 22,324-333.
21. Kempton, M. J., Salvador, Z., Munafò, M. R., Geddes, J. R., Simmons, A., Frangou, S., et al. (2011). Structural neuroimaging studies in major depressive disorder. Meta-analysis and comparison with bipolar disorder. Arch. Gen. Psychiatry 68, 675-690. doi:10. 100 1/archgenpsychiatry.2011.60
22. Klein, A., Andersson, J., Ardekani, B. A., Ashburner, J., Avants, B., Chiang, M.-C., et al. (2009). Evaluation of 14 nonlinear deformation algorithms applied to human brain MRI registration. Neuroimage 46, 786-802. doi:10. 1016/j.neuroimage.2008.12.037
23. Klein, A., Dal Canton, T., Ghosh, S. S., Landman, B., Lee, J., and Worth, A. (2010). Open labels: online feedback for a public resource of manually labeled brain images. 16th Annual Meeting for the Organization of Human Brain Mapping, Barcelona.
24. Klein, A., Ghosh, S. S., Avants, B., Yeo, B. T. T., Fischl, B., Ardekani, B., et al. (2010). Evaluation of volume-based and surface-based brain image registration methods. Neuroimage 51, 214-220. doi:10. 1016/j.neuroimage.2010.01.091
25. Klein, A., and Hirsch, J. (2005). Mind-boggle: a scatterbrained approach to automate brain labeling. Neuroimage 24, 261-280. doi:10. 1016/j.neuroimage.2004.09.016
26. Klein, A., Mensh, B., Ghosh, S., Tourville, J., and Hirsch, J. (2005). Mindboggle: automated brain labeling with multiple atlases. BMC Med. Imaging 5:7. doi:10.1186/1471-2342-5-7
27. Landman, B. A., Huang, A. J., Gifford, A., Vikram, D. S., Lim, I. A. L., Far-rell, J. A. D., et al. (2011). Multi-parametric neuroimaging repro-ducibility: a 3-T resource study. Neuroimage 54, 2854-2866. doi:10. 1016/j.neuroimage.2010.11.047
28. Lohmann, G., and von Cramon, D. Y. (2000). Automatic labelling of the human cortical surface using sulcal basins. Med. Image Anal. 4,179-188.
29. Mai, J., Paxinos, G., and Voss, T. (2008). Atlas of the Human Brain. New York: Elsevier.
30. Mangin, J.-F., Jouvent, E., and Cachia, A. (2010). In-vivo measurement of cortical morphology: means and meanings. Curr. Opin. Neurol. 23, 359-367. doi:10. 1097/WCO.0b013e32833a0afc
31. Marcus, D. S., Wang, T. H., Parker, J., Csernansky, J. G., Morris, J. C., and Buckner, R. L. (2007). Open access series of imaging studies (OASIS): cross-sectional MRI data in young, middle aged, nondemented, and demented older adults. J. Cogn. Neurosci. 19, 1498-1507.
32. Morgan, V L., Mishra, A., Newton, A. T., Gore, J. C., and Ding, Z. (2009). Integrating functional and diffusion magnetic resonance imaging for analysis of structure-function relationship in the human language network. PLoS ONE 4:e6660. doi:10.1371/journal.pone.0006660
33. Ono, M., Kubik, S., and Abernathy, C. D. (1990). Atlas of the Cerebral Sulci. Stuttgart: Georg Thieme Verlag.
34. Penttilä, J., Cachia, A., Martinot, J.-L., Ringuenet, D., Wessa, M., Houenou, J., et al. (2009). Cortical folding difference between patients with early-onset and patients with intermediate-onset bipolar disorder. Bipolar Disord. 11, 361-370. doi:10.1111/j.1399-5618.2009.00683.x
35. Petrides, M. (2011). The Human Cerebral Cortex An MRI Atlas of the Sulci and Gyri in MNI Stereotaxic Space. London: Academic Press.
36. S'egonne, F., Salat, D. H., Dale, A. M., Destrieux, C., Fischl, B., van der Kouwe, A., et al. (2004). Automatically parcellating the human cerebral cortex. Cereb. Cortex 14, 11-22.