{"id":4995,"date":"2025-07-01T07:04:15","date_gmt":"2025-07-01T07:04:15","guid":{"rendered":"https:\/\/mailitics.com\/index.php\/2025\/07\/01\/2506-22963\/"},"modified":"2025-07-01T07:04:15","modified_gmt":"2025-07-01T07:04:15","slug":"2506-22963","status":"publish","type":"post","link":"https:\/\/mailitics.com\/index.php\/2025\/07\/01\/2506-22963\/","title":{"rendered":"CN-SBM: Categorical Block Modelling For Primary and Residual Copy Number Variation"},"content":{"rendered":"

CN-SBM: Categorical Block Modelling For Primary and Residual Copy Number Variation
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arXiv:2506.22963v1 Announce Type: new
\nAbstract: Cancer is a genetic disorder whose clonal evolution can be monitored by tracking noisy genome-wide copy number variants. We introduce the Copy Number Stochastic Block Model (CN-SBM), a probabilistic framework that jointly clusters samples and genomic regions based on discrete copy number states using a bipartite categorical block model. Unlike models relying on Gaussian or Poisson assumptions, CN-SBM respects the discrete nature of CNV calls and captures subpopulation-specific patterns through block-wise structure. Using a two-stage approach, CN-SBM decomposes CNV data into primary and residual components, enabling detection of both large-scale chromosomal alterations and finer aberrations. We derive a scalable variational inference algorithm for application to large cohorts and high-resolution data. Benchmarks on simulated and real datasets show improved model fit over existing methods. Applied to TCGA low-grade glioma data, CN-SBM reveals clinically relevant subtypes and structured residual variation, aiding patient stratification in survival analysis. These results establish CN-SBM as an interpretable, scalable framework for CNV analysis with direct relevance for tumor heterogeneity and prognosis.<\/div>\n

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\n Kevin Lam, William Daniels, J Maxwell Douglas, Daniel Lai, Samuel Aparicio, Benjamin Bloem-Reddy, Yongjin Park
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CN-SBM: Categorical Block Modelling For Primary and Residual Copy Number Variation arXiv:2506.22963v1 Announce Type: new Abstract: Cancer is a genetic disorder whose clonal evolution can be monitored by tracking noisy genome-wide copy number variants. We introduce the Copy Number Stochastic Block Model (CN-SBM), a probabilistic framework that jointly clusters samples and genomic regions based on […]<\/p>\n","protected":false},"author":2,"featured_media":0,"comment_status":"closed","ping_status":"closed","sticky":false,"template":"","format":"standard","meta":{"footnotes":""},"categories":[62,113,3102,112],"tags":[3105,3103,3104],"class_list":["post-4995","post","type-post","status-publish","format-standard","hentry","category-aimldsaimlds","category-cs-lg","category-q-bio-gn","category-stat-ml","tag-block","tag-cn","tag-sbm"],"_links":{"self":[{"href":"https:\/\/mailitics.com\/index.php\/wp-json\/wp\/v2\/posts\/4995"}],"collection":[{"href":"https:\/\/mailitics.com\/index.php\/wp-json\/wp\/v2\/posts"}],"about":[{"href":"https:\/\/mailitics.com\/index.php\/wp-json\/wp\/v2\/types\/post"}],"author":[{"embeddable":true,"href":"https:\/\/mailitics.com\/index.php\/wp-json\/wp\/v2\/users\/2"}],"replies":[{"embeddable":true,"href":"https:\/\/mailitics.com\/index.php\/wp-json\/wp\/v2\/comments?post=4995"}],"version-history":[{"count":0,"href":"https:\/\/mailitics.com\/index.php\/wp-json\/wp\/v2\/posts\/4995\/revisions"}],"wp:attachment":[{"href":"https:\/\/mailitics.com\/index.php\/wp-json\/wp\/v2\/media?parent=4995"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"https:\/\/mailitics.com\/index.php\/wp-json\/wp\/v2\/categories?post=4995"},{"taxonomy":"post_tag","embeddable":true,"href":"https:\/\/mailitics.com\/index.php\/wp-json\/wp\/v2\/tags?post=4995"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}