DC Field | Value | Language |
---|---|---|
dc.contributor.author | Han, Seungbeom | ko |
dc.contributor.author | Kim, Kyukwang | ko |
dc.contributor.author | Park, Seongwan | ko |
dc.contributor.author | Lee, Andrew J. | ko |
dc.contributor.author | Chun, Hyonho | ko |
dc.contributor.author | Jung, Inkyung | ko |
dc.date.accessioned | 2023-01-28T02:00:20Z | - |
dc.date.available | 2023-01-28T02:00:20Z | - |
dc.date.created | 2023-01-28 | - |
dc.date.created | 2023-01-28 | - |
dc.date.created | 2023-01-28 | - |
dc.date.created | 2023-01-28 | - |
dc.date.created | 2023-01-28 | - |
dc.date.issued | 2022-10 | - |
dc.identifier.citation | NAR GENOMICS AND BIOINFORMATICS, v.4, no.4 | - |
dc.identifier.issn | 2631-9268 | - |
dc.identifier.uri | http://hdl.handle.net/10203/304733 | - |
dc.description.abstract | Genetic differences inferred from sequencing reads can be used for demultiplexing of pooled single-cell RNA-seq (scRNA-seq) data across multiple donors without WGS-based reference genotypes. However, such methods could not be directly applied to single-cell ATAC-seq (scATAC-seq) data owing to the lower read coverage for each variant compared to scRNA-seq. We propose a new software, scATAC-seq Variant-based EstimatioN for GEnotype ReSolving (scAVENGERS), which resolves this issue by calling more individual-specific germline variants and using an optimized mixture model for the scATAC-seq. The benchmark conducted with three synthetic multiplexed scATAC-seq datasets of peripheral blood mononuclear cells and prefrontal cortex tissues showed outstanding performance compared to existing methods in terms of accuracy, doublet detection, and a portion of donor-assigned cells. Furthermore, analyzing the effect of the improved sections provided insight into handling pooled single-cell data in the future. | - |
dc.language | English | - |
dc.publisher | OXFORD UNIV PRESS | - |
dc.title | scAVENGERS: a genotype-based deconvolution of individuals in multiplexed single-cell ATAC-seq data without reference genotypes | - |
dc.type | Article | - |
dc.identifier.scopusid | 2-s2.0-85160418708 | - |
dc.type.rims | ART | - |
dc.citation.volume | 4 | - |
dc.citation.issue | 4 | - |
dc.citation.publicationname | NAR GENOMICS AND BIOINFORMATICS | - |
dc.identifier.doi | 10.1093/nargab/lqac095 | - |
dc.contributor.localauthor | Chun, Hyonho | - |
dc.contributor.localauthor | Jung, Inkyung | - |
dc.contributor.nonIdAuthor | Han, Seungbeom | - |
dc.description.isOpenAccess | N | - |
dc.type.journalArticle | Article | - |
dc.subject.keywordPlus | CHROMATIN ACCESSIBILITY | - |
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