SPECS: A non-parameteric method to identify tissue-specific molecular features for unbalanced sample groups
SPECS: A non-parameteric method to identify tissue-specific molecular features for unbalanced sample groups
Abstract To understand biology and differences among various tissues or cell types, one typically searches for molecular features that display characteristic abundance patterns. Several specificity metrics have been introduced to identify tissue-specific molecular features, but these either require an equal number of replicates per tissue or they can’t handle replicates at all. We describe a non-parametric specificity score that is compatible with unequal sample group sizes. To demonstrate its usefulness, the specificity score was calculated on all GTEx samples, detecting known and novel tissue-specific genes. A webtool was developed to browse these results for genes or tissues of interest. An example python implementation of SPECS is available at https://github.ugent.be/ceeverae/SPECs. The precalculated SPECS results on the GTEx data are available through a user-friendly browser at specs.cmgg.be.
Morlion Annelien、Volders Pieter-Jan、Mestdagh Pieter、Everaert Celine、Thas Olivier
Center for Medical Genetics, Department of Biomolecular Medicine, Ghent University||Cancer Research Institute GhentCenter for Medical Genetics, Department of Biomolecular Medicine, Ghent University||Cancer Research Institute Ghent||Flemish Institute for BiotechnologyCenter for Medical Genetics, Department of Biomolecular Medicine, Ghent University||Cancer Research Institute GhentCenter for Medical Genetics, Department of Biomolecular Medicine, Ghent University||Cancer Research Institute GhentI-Biostat, Hasselt University||National Institute for Applied Statistics Australia (NIASRA), University of Wollongong
分子生物学生物科学现状、生物科学发展生物科学研究方法、生物科学研究技术
Morlion Annelien,Volders Pieter-Jan,Mestdagh Pieter,Everaert Celine,Thas Olivier.SPECS: A non-parameteric method to identify tissue-specific molecular features for unbalanced sample groups[EB/OL].(2025-03-28)[2025-05-19].https://www.biorxiv.org/content/10.1101/656397.点此复制
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