{"id":8859,"date":"2026-03-05T11:13:37","date_gmt":"2026-03-05T10:13:37","guid":{"rendered":"https:\/\/ubc.uu.nl\/?p=8859"},"modified":"2026-03-05T13:28:04","modified_gmt":"2026-03-05T12:28:04","slug":"recent-publications-by-ubc-members-13","status":"publish","type":"post","link":"https:\/\/ubc.uu.nl\/recent-publications-by-ubc-members-13\/","title":{"rendered":"Recent publications by UBC members"},"content":{"rendered":"\t\t
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Below, you can find an overview of publications by UBC principal investigators during the period from December 2025 \u2013 February 2026.<\/p>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t

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Benchmarking fungal species classification using Oxford Nanopore Technologies long-read ITS metabarcodes<\/a><\/p>

Fungal Genetics and Biology, Vol.181 , December 2025<\/p>

Abigail Graetz et al. (With\u00a0Duong Vu<\/a>)<\/p>

\u00a0<\/p>

Matthews correlation coefficient-based feature ranking in recursive ensemble feature selection for high-dimensional and low-sample size data<\/a><\/p>

Machine Learning with Applications, Volume 22, December 2025<\/p>

David Rojas-Velazquez et al. (With\u00a0Alejandro Lopez Rincon<\/a>)<\/p>

\u00a0<\/p>

A computational framework to dissect imputation strategies for single-cell histone modification data<\/a><\/p>

NAR Genomics and Bioinformatics<\/i>, Volume 7, 1 December 2025\u00a0<\/p>

Marta Moreno-Gonz\u00e1lez, Jeroen de Ridder, Jop Kind &\u00a0Robin van der Weide<\/a><\/p>

\u00a0<\/p>

Closed-loop optogenetic control of cell biology enables outcome-driven microscopy<\/a><\/p>

Nature Communications<\/i>, 17, 23 December 2025\u00a0<\/p>

Josiah B. Passmore et al. (With\u00a0Ihor Smal<\/a>)<\/p>

\u00a0<\/p>

Do we need a more structured system for gene names and pathways now that omics studies revealed a higher complexity of fungal carbon metabolism?<\/a><\/p>

Fungal Biology Reviews<\/i>, 55, 29 December 2025<\/p>

Ronald P. de Vries<\/a>\u00a0and Jiajia Li<\/p>

\u00a0<\/p>

PLM-eXplain: divide and conquer the protein embedding space<\/a><\/p>

Bioinformatics<\/i>, Volume 42, 1 January 2026<\/p>

Jan van Eck et al. (With\u00a0Sanne Abeln<\/a>)<\/p>

\u00a0<\/p>

VirJenDB: a FAIR (meta)data and bioinformatics platform for all viruses<\/a><\/p>

Nucleic Acids Research<\/i>, Volume 54, 6 January 2026<\/p>

Shahram Saghaei et al. (With\u00a0Bas Dutilh<\/a>)<\/p>

\u00a0<\/p>

Proteomic Signatures Over Age Reveal Significant Changes From Infancy Till Late Adulthood<\/a><\/p>

Advanced Biology<\/u><\/i>, 10 January 2026<\/p>

Eveline M. Delemarre et al. (With\u00a0Julia Drylewicz<\/a>)<\/p>

\u00a0<\/p>

Coccidiosis prevention strategies shape the microbiome, resistome and mobilome composition in the broiler gut<\/a><\/p>

Animal Microbiome<\/i>, Volume 8, 12 January 2026<\/p>

Matteo Buffoni et al. (With\u00a0Anita Schurch<\/a>)<\/p>

\u00a0<\/p>

Mixed-effects additive Bayesian networks for the assessment of ruptured intracranial aneurysms: Insights from multicenter data<\/a><\/p>

Computers in Biology and Medicine<\/i>, Volume 201, 15 January 2026<\/p>

Matteo Delucchi et al. (With\u00a0Mark Bakker & Ynte Ruigrok<\/a>)<\/p>

\u00a0<\/p>

Extensive horizontal transfer of transposable elements shapes fungal mobilomes<\/a><\/p>

Current Biology<\/i>, Volume 36, 19 January 2026<\/p>

Josje Romeijn, I\u00f1igo Ba\u00f1ales, and\u00a0Michael Seidl<\/a><\/p>

\u00a0<\/p>

Pangenome graph analysis reveals evolution of resistance breaking in spinach downy mildew<\/a>\u00a0<\/p>

PLOS Biology<\/i>, 24, 20 January 2026<\/p>

Petros Skiadas et al. (With\u00a0Ronnie de Jonge<\/a>\u00a0&\u00a0Michael Seidl<\/a>)<\/p>

\u00a0<\/p>

3SD: Rotational symmetry single-shot denoising in fluorescence microscopy<\/a>\u00a0<\/p>

Journal of Microscopy<\/i>, 23 January 2026<\/p>

Tijmen H. de Wolf et al. (With\u00a0Ihor Smal<\/a>)<\/p>

\u00a0<\/p>

Induced uterine infection alters bovine endometrial function and embryonic competence<\/a><\/p>

Reproduction<\/i>, Volume 171, 23 January 2026<\/p>

Zachary K Seekford et al. (With\u00a0Belen Rabaglino<\/a>)<\/p>

\u00a0<\/p>

Beyond olfaction: New insights into human odorant binding proteins<\/a><\/p>

Protein Science<\/i>, Volume 35, 28 January 2026<\/p>

Mifen Chen et al. (With\u00a0Sanne Abeln<\/a>)<\/p>

\u00a0<\/p>

Pre-assembly of biomolecular condensate seeds drives RSV replication<\/a><\/p>

Nature<\/i>, 28 January 2026<\/p>

Dhanushika Ratnayake et al. (With\u00a0Geert Kops<\/a>\u00a0&\u00a0Marvin Tanenbaum<\/a>)<\/p>

\u00a0<\/p>

Major depression and atherosclerotic disease: Linking shared genetics to pathways in blood, brain, heart, and atherosclerotic plaques<\/a><\/p>

European Neuropsychopharmacology<\/i>, Volume 106, 29 January 2026<\/p>

Emma Pruin et al. (With\u00a0Ernest Diez Benavente<\/a>\u00a0&\u00a0Sander van der Laan<\/a>)<\/p>

\u00a0<\/p>

AI\u2010driven antibody design from an antigen sequence<\/a><\/p>

Vita<\/i>, 2 February 2026\u00a0<\/p>

Pavel Sinitcyn<\/a>\u00a0and\u00a0Albert Heck<\/a><\/p>

\u00a0<\/p>

Regulatory grammar in human promoters uncovered by MPRA-based deep learning<\/a><\/p>

Nature<\/i>, 4 February 2026<\/p>

Luc\u00eda Barbadilla-Mart\u00ednez et al. (With\u00a0Jeroen de Ridder<\/a>\u00a0&\u00a0Bas van Steensel<\/a>)<\/p>

\u00a0<\/p>

Spectral Quality-Guided Optimization of Hybrid EAciD Fragmentation on the ZenoTOF 7600 System Enables Efficient Characterization of the Serum N-Glycoproteome<\/a><\/p>

Analytical Chemistry<\/i>, Volume 98, 10 February 2026<\/p>

Shelley Jager et al. (With\u00a0Albert Heck<\/a>)<\/p>

\u00a0<\/p>

Monogenic no more: are all epilepsies polygenic?<\/a><\/p>

Trends in Genetics<\/i>, 10 February 2026<\/p>

M. Martijn Piet et al. (With\u00a0Bobby Koeleman<\/a>\u00a0& Remi Stevelink)<\/p>

\u00a0<\/p>

Spatial mapping of stability in human atherosclerosis for the next generation of patient stratification Get access<\/a><\/p>

European Heart Journal<\/i>, 18 February 2026<\/p>

Gerard Pasterkamp, Minna U Kaikkonen &\u00a0Michal Mokry<\/a><\/p>

\u00a0<\/p>

Immune responses may make HIV-1 therapeutic interfering particles less effective<\/a><\/p>

Journal of Theoretical Biology<\/i>, Volume 619, 21 February 2026<\/p>

Griffin Kutler Dodd and\u00a0Rob de Boer<\/a><\/p>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/section>\n\t\t\t\t\t<\/div>\n\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/section>\n\t\t\t\t<\/div>\n\t\t","protected":false},"excerpt":{"rendered":"

Below, you can find an overview of publications by UBC principal investigators during the period from December 2025 \u2013 February 2026. Benchmarking fungal species classification using Oxford Nanopore Technologies long-read ITS metabarcodes Fungal Genetics and Biology, Vol.181 , December 2025 Abigail Graetz et al. (With\u00a0Duong Vu) \u00a0 Matthews correlation coefficient-based feature ranking in recursive ensemble […]<\/p>\n","protected":false},"author":94,"featured_media":6628,"comment_status":"closed","ping_status":"closed","sticky":false,"template":"","format":"standard","meta":{"_acf_changed":false,"_angie_page":false,"_jetpack_newsletter_access":"","_jetpack_dont_email_post_to_subs":false,"_jetpack_newsletter_tier_id":0,"_jetpack_memberships_contains_paywalled_content":false,"page_builder":"","_jetpack_memberships_contains_paid_content":false,"footnotes":""},"categories":[398,27,64,408,397],"tags":[],"class_list":["post-8859","post","type-post","status-publish","format-standard","has-post-thumbnail","hentry","category-activities","category-highlights","category-news","category-news_freestyle","category-research"],"acf":[],"jetpack_sharing_enabled":true,"jetpack_featured_media_url":"https:\/\/ubc.uu.nl\/wp-content\/uploads\/2024\/08\/Screenshot-2024-08-15-at-11.48.41.png","_links":{"self":[{"href":"https:\/\/ubc.uu.nl\/wp-json\/wp\/v2\/posts\/8859","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/ubc.uu.nl\/wp-json\/wp\/v2\/posts"}],"about":[{"href":"https:\/\/ubc.uu.nl\/wp-json\/wp\/v2\/types\/post"}],"author":[{"embeddable":true,"href":"https:\/\/ubc.uu.nl\/wp-json\/wp\/v2\/users\/94"}],"replies":[{"embeddable":true,"href":"https:\/\/ubc.uu.nl\/wp-json\/wp\/v2\/comments?post=8859"}],"version-history":[{"count":4,"href":"https:\/\/ubc.uu.nl\/wp-json\/wp\/v2\/posts\/8859\/revisions"}],"predecessor-version":[{"id":8874,"href":"https:\/\/ubc.uu.nl\/wp-json\/wp\/v2\/posts\/8859\/revisions\/8874"}],"wp:featuredmedia":[{"embeddable":true,"href":"https:\/\/ubc.uu.nl\/wp-json\/wp\/v2\/media\/6628"}],"wp:attachment":[{"href":"https:\/\/ubc.uu.nl\/wp-json\/wp\/v2\/media?parent=8859"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"https:\/\/ubc.uu.nl\/wp-json\/wp\/v2\/categories?post=8859"},{"taxonomy":"post_tag","embeddable":true,"href":"https:\/\/ubc.uu.nl\/wp-json\/wp\/v2\/tags?post=8859"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}