Inter-subject registration of cortical areas is necessary in functional imaging (fMRI) studies for making inferences about equivalent brain function across a population. However, many high-level visual brain areas are defined as peaks of functional contrasts whose cortical position is highly variable. As such, most alignment methods fail to accurately map functional regions of interest (ROIs) across participants. To address this problem, we propose a locally optimized registration method that directly predicts the location of a seed ROI on a separate target cortical sheet by maximizing the functional correlation between their time courses, while simultaneously allowing for non-smooth local deformations in region topology. Our method outperforms the two most commonly used alternatives (anatomical landmark-based AFNI alignment and cortical convexity-based FreeSurfer alignment) in overlap between predicted region and functionally-defined LOC. Furthermore, the maps obtained using our method are more consistent across subjects than both baseline measures. Critically, our method represents an important step forward towards predicting brain regions without explicit localizer scans and deciphering the poorly understood relationship between the location of functional regions, their anatomical extent, and the consistency of computations those regions perform across people.
Our problem can be thought of as a special instance of cortical alignment, where the main goal becomes accurate prediction of a particular region's location, rather than finding a complete correspondence between entire brain volumes. By comparison, virtually all extant alignment methods ( @cite_10 @cite_12 @cite_15 @cite_7 @cite_1 @cite_11 @cite_16 @cite_4 ) define transformations across full cortical volumes and subsequently check whether specific regions of interest (ROIs) are accurately matched between subjects.
@cite_4 @cite_7 @cite_1 @cite_15 @cite_16 @cite_10 @cite_12 @cite_11
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A new approach is proposed for registering a set of histological coronal two-dimensional images of a rat brain sectional material with coronal sections of a three-dimensional brain atlas, an intrinsic step and a significant challenge to current efforts in brain mapping and multimodal fusion of experimental data. The alignment problem is based on matching external contours of the brain sections, and operates in the presence of tissue distortion and tears which are routinely encountered, and possible scale, rotation, and shear changes (the affine and weak perspective groups). It is based on a novel set of local absolute affine invariants derived from the set of ordered inflection points on the external contour represented by a cubic B-spline curve. The inflection points are local intrinsic geometric features, which are preserved under both the affine and the weak perspective transformations. The invariants are constructed from the sequence of area patches bounded by the contour and the line connecting two consecutive inflection points, and hence do make direct use of the area (volume) invariance property associated with the affine transformation. These local absolute invariants are very well suited to handle the tissue distortion and tears (occlusion problem). Inter-subject alignment of functional MRI (fMRI) data is necessary for group analyses. The standard approach to this problem matches anatomical features of the brain, such as major anatomical landmarks or cortical curvature. Precise alignment of functional cortical topographies, however, cannot be derived using only anatomical features. We propose a new inter-subject registration algorithm that aligns intra-subject patterns of functional connectivity across subjects. We derive functional connectivity patterns by correlating fMRI BOLD time-series, measured during movie viewing, between spatially remote cortical regions. We validate our technique extensively on real fMRI experimental data and compare our method to two state-of-the-art inter-subject registration algorithms. By cross-validating our method on independent datasets, we show that the derived alignment generalizes well to other experimental paradigms. The human brain can be described as containing a number of functional regions. These regions, as well as the connections between them, play a key role in information processing in the brain. However, most existing multi-voxel pattern analysis approaches either treat multiple regions as one large uniform region or several independent regions, ignoring the connections between them. In this paper we propose to model such connections in an Hidden Conditional Random Field (HCRF) framework, where the classifier of one region of interest (ROI) makes predictions based on not only its voxels but also the predictions from ROIs that it connects to. Furthermore, we propose a structural learning method in the HCRF framework to automatically uncover the connections between ROIs. We illustrate this approach with fMRI data acquired while human subjects viewed images of different natural scene categories and show that our model can improve the top-level (the classifier combining information from all ROIs) and ROI-level prediction accuracy, as well as uncover some meaningful connections between ROIs. Group analysis of fMRI data via multivariate pattern methods requires accurate alignments between neuronal activities of different subjects in order to attain competitive inter-subject classification rates. Hyperalignment, a recent technique pioneered by Haxby and collaborators, aligns the activations of different subjects by mapping them into a common abstract high-dimensional space. While hyperalignment is very successful in terms of classification performance, its “anatomy free” nature excludes the use of potentially helpful information inherent in anatomy. In this paper, we present a novel approach to hyperalignment that allows incorporating anatomical information in a non-trivial way. Experiments demonstrate the effectiveness of our approach over the original hyperalignment and several other natural alternatives.