essHi-C: Essential component analysis of Hi-C matrices
| Autor: | Franzini, Stefano, Di Stefano, Marco, Micheletti, Cristian |
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| Rok vydání: | 2021 |
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| Druh dokumentu: | Working Paper |
| Popis: | Motivation: Hi-C matrices are cornerstones for qualitative and quantitative studies of genome folding, from its territorial organization to compartments and topological domains. The high dynamic range of genomic distances probed in Hi-C assays reflects in an inherent stochastic background of the interactions matrices, which inevitably convolve the features of interest with largely aspecific ones. Results: Here we introduce a discuss essHi-C, a method to isolate the specific, or essential component of Hi-C matrices from the aspecific portion of the spectrum that is compatible with random matrices. Systematic comparisons show that essHi-C improves the clarity of the interaction patterns, enhances the robustness against sequencing depth, allows the unsupervised clustering of experiments in different cell lines and recovers the cell-cycle phasing of single-cells based on Hi-C data. Thus, essHi-C provides means for isolating significant biological and physical features from Hi-C matrices. Comment: 14 pages, 4 figures. This is the Authors' Original Version of the article, which has been accepted for publication in Bioinformatics published by Oxford University Press |
| Databáze: | arXiv |
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