Brain data recorded with electroencephalography (EEG), magnetoencephalography (MEG) and related techniques often have poor signal-to-noise ratios due to the presence of multiple competing sources and artifacts. A common remedy is to average responses over repeats of the same stimulus, but this is not applicable for temporally extended stimuli that are presented only once (speech, music, movies, natural sound). An alternative is to average responses over multiple subjects that were presented with identical stimuli, but differences in geometry of brain sources and sensors reduce the effectiveness of this solution. Multiway canonical correlation analysis (MCCA) brings a solution to this problem by allowing data from multiple subjects to be fused in such a way as to extract components common to all. This paper reviews the method, offers application examples that illustrate its effectiveness, and outlines the caveats and risks entailed by the method.
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http://dx.doi.org/10.1016/j.neuroimage.2018.11.026 | DOI Listing |
Bioinformatics
June 2024
Department of Computer Science and Engineering, University of Minnesota Twin Cities, Minneapolis, MN, 55455, United States.
Unlabelled: Spatial transcripome (ST) profiling can reveal cells' structural organizations and functional roles in tissues. However, deciphering the spatial context of gene expressions in ST data is a challenge-the high-order structure hiding in whole transcriptome space over 2D/3D spatial coordinates requires modeling and detection of interpretable high-order elements and components for further functional analysis and interpretation. This paper presents a new method GraphTucker-graph-regularized Tucker tensor decomposition for learning high-order factorization in ST data.
View Article and Find Full Text PDFBiom J
March 2024
Department of Mathematical Sciences, KAIST, Daejeon, South Korea.
Conventional canonical correlation analysis (CCA) measures the association between two datasets and identifies relevant contributors. However, it encounters issues with execution and interpretation when the sample size is smaller than the number of variables or there are more than two datasets. Our motivating example is a stroke-related clinical study on pigs.
View Article and Find Full Text PDFNat Commun
March 2023
State Key Laboratory of Ophthalmology, Zhongshan Ophthalmic Center, Sun Yat-Sen University, Guangdong Provincial Key Laboratory of Ophthalmology and Visual Science, Guangzhou, 510060, China.
Canonical three-dimensional (3D) genome structures represent the ensemble average of pairwise chromatin interactions but not the single-allele topologies in populations of cells. Recently developed Pore-C can capture multiway chromatin contacts that reflect regional topologies of single chromosomes. By carrying out high-throughput Pore-C, we reveal extensive but regionally restricted clusters of single-allele topologies that aggregate into canonical 3D genome structures in two human cell types.
View Article and Find Full Text PDFNucleic Acids Res
April 2023
Department of Physics, Department of Biochemistry and Institute for Data Science and Informatics, University of Missouri, Columbia, MO 65211, USA.
RNA 3D structures are critical for understanding their functions. However, only a limited number of RNA structures have been experimentally solved, so computational prediction methods are highly desirable. Nevertheless, accurate prediction of RNA 3D structures, especially those containing multiway junctions, remains a significant challenge, mainly due to the complicated non-canonical base pairing and stacking interactions in the junction loops and the possible long-range interactions between loop structures.
View Article and Find Full Text PDFMed Image Anal
May 2021
School of Automation, Northwestern Polytechnical University, Xi'an 710072, China.
To uncover the genetic underpinnings of brain disorders, brain imaging genomics usually jointly analyzes genetic variations and imaging measurements. Meanwhile, other biomarkers such as proteomic expressions can also carry valuable complementary information. Therefore, it is necessary yet challenging to investigate the underlying relationships among genetic variations, proteomic expressions, and neuroimaging measurements, which stands a chance of gaining new insights into the pathogenesis of brain disorders.
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