We propose a weighted stochastic block model (WSBM) which extends the stochastic block model to the important case in which edges are weighted. We address the parameter estimation of the WSBM by use of maximum likelihood and variational approaches, and establish the consistency of these estimators. The problem of choosing the number of classes in a WSBM is addressed. The proposed model is applied to simulated data and an illustrative data set.
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http://dx.doi.org/10.1007/s10260-021-00590-6 | DOI Listing |
Cell Calcium
December 2024
Department of Physiology and Cell Biology, University of Nevada Reno School of Medicine, Reno, NV, 89557, USA. Electronic address:
Interstitial cells of Cajal in the plane of the myenteric plexus (ICC-MY) serve as electrical pacemakers in the stomach and small intestine. A similar population of cells is found in the colon, but these cells do not appear to generate regular slow wave potentials, as characteristic in more proximal gut regions. Ca handling mechanisms in ICC-MY of the mouse proximal colon were studied using confocal imaging of muscles from animals expressing GCaMP6f exclusively in ICC.
View Article and Find Full Text PDFNetw Neurosci
December 2024
Department of Applied Mathematics and Computer Science, Technical University of Denmark, Lyngby, Denmark.
Understanding the differences between functional and structural human brain connectivity has been a focus of an extensive amount of neuroscience research. We employ a novel approach using the multinomial stochastic block model (MSBM) to explicitly extract components that characterize prominent differences across graphs. We analyze structural and functional connectomes derived from high-resolution diffusion-weighted MRI and fMRI scans of 250 Human Connectome Project subjects, analyzed at group connectivity level across 50 subjects.
View Article and Find Full Text PDFJ Math Biol
December 2024
Département de Mathématiques, Université du Québec à Montréal, Montréal, Canada.
We examine here the effects of recurrent vaccination and waning immunity on the establishment of an endemic equilibrium in a population. An individual-based model that incorporates memory effects for transmission rate during infection and subsequent immunity is introduced, considering stochasticity at the individual level. By letting the population size going to infinity, we derive a set of equations describing the large scale behavior of the epidemic.
View Article and Find Full Text PDFbioRxiv
December 2024
Observatory of Social Media, Luddy School of Informatics, Computing, and Engineering, Indiana University, Indiana, USA.
Single cell RNA-seq (scRNA-seq) technologies provide unprecedented resolution representing transcriptomics at the level of single cell. One of the biggest challenges in scRNA-seq data analysis is the cell type annotation, which is usually inferred by cell separation approaches. In-silico algorithms that accurately identify individual cell types in ongoing single-cell sequencing studies are crucial for unlocking cellular heterogeneity and understanding the biological basis of diseases.
View Article and Find Full Text PDFbioRxiv
December 2024
Dept. of Developmental Biology and Cancer Research, Institute for Medical Research Israel-Canada, The Hebrew University-Hadassah Medical School, Jerusalem, Israel.
Age-dependent changes in DNA methylation allow chronological and biological age inference, but the underlying mechanisms remain unclear. Using ultra-deep sequencing of >300 blood samples from healthy individuals, we show that age-dependent DNA methylation changes are regional and occur at multiple adjacent CpG sites, either stochastically or in a coordinated block-like manner. Deep learning analysis of single-molecule patterns in two genomic loci achieved accurate age prediction with a median error of 1.
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