Hierarchical cell-type identifier accurately distinguishes immune-cell subtypes enabling precise profiling of tissue microenvironment with single-cell RNA-sequencing
DC Field | Value | Language |
---|---|---|
dc.contributor.author | Lee, Joongho | - |
dc.contributor.author | Kim, Minsoo | - |
dc.contributor.author | Kang, Keunsoo | - |
dc.contributor.author | Yang, Chul-Su | - |
dc.contributor.author | Yoon, Seokhyun | - |
dc.date.accessioned | 2023-05-03T09:32:01Z | - |
dc.date.available | 2023-05-03T09:32:01Z | - |
dc.date.issued | 2023-03 | - |
dc.identifier.issn | 1467-5463 | - |
dc.identifier.issn | 1477-4054 | - |
dc.identifier.uri | https://scholarworks.bwise.kr/erica/handle/2021.sw.erica/112516 | - |
dc.description.abstract | Single-cell RNA-seq enabled in-depth study on tissue micro-environment and immune-profiling, where a crucial step is to annotate cell identity. Immune cells play key roles in many diseases, whereas their activities are hard to track due to their diverse and highly variable nature. Existing cell-type identifiers had limited performance for this purpose. We present HiCAT, a hierarchical, marker-based cell-type identifier utilising gene set analysis for statistical scoring for given markers. It features successive identification of major-type, minor-type and subsets utilising subset markers structured in a three-level taxonomy tree. Comparison with manual annotation and pairwise match test showed HiCAT outperforms others in major- and minor-type identification. For subsets, we qualitatively evaluated the marker expression profile demonstrating that HiCAT provide the clearest immune-cell landscape. HiCAT was also used for immune-cell profiling in ulcerative colitis and discovered distinct features of the disease in macrophage and T-cell subsets that could not be identified previously. © The Author(s) 2023. Published by Oxford University Press. | - |
dc.format.extent | 15 | - |
dc.language | 영어 | - |
dc.language.iso | ENG | - |
dc.publisher | NLM (Medline) | - |
dc.title | Hierarchical cell-type identifier accurately distinguishes immune-cell subtypes enabling precise profiling of tissue microenvironment with single-cell RNA-sequencing | - |
dc.type | Article | - |
dc.publisher.location | 영국 | - |
dc.identifier.doi | 10.1093/bib/bbad006 | - |
dc.identifier.scopusid | 2-s2.0-85150665343 | - |
dc.identifier.wosid | 001042120200016 | - |
dc.identifier.bibliographicCitation | Briefings in bioinformatics, v.24, no.2, pp 1 - 15 | - |
dc.citation.title | Briefings in bioinformatics | - |
dc.citation.volume | 24 | - |
dc.citation.number | 2 | - |
dc.citation.startPage | 1 | - |
dc.citation.endPage | 15 | - |
dc.type.docType | Article | - |
dc.description.isOpenAccess | Y | - |
dc.description.journalRegisteredClass | scie | - |
dc.description.journalRegisteredClass | scopus | - |
dc.relation.journalResearchArea | Biochemistry & Molecular Biology | - |
dc.relation.journalResearchArea | Mathematical & Computational Biology | - |
dc.relation.journalWebOfScienceCategory | Biochemical Research Methods | - |
dc.relation.journalWebOfScienceCategory | Mathematical & Computational Biology | - |
dc.subject.keywordAuthor | cell-type identifier | - |
dc.subject.keywordAuthor | cell-type markers | - |
dc.subject.keywordAuthor | hierarchical identification | - |
dc.subject.keywordAuthor | single-cell RNA-seq | - |
dc.identifier.url | https://academic.oup.com/bib/article/24/2/bbad006/6995373?login=true | - |
Items in ScholarWorks are protected by copyright, with all rights reserved, unless otherwise indicated.
55 Hanyangdeahak-ro, Sangnok-gu, Ansan, Gyeonggi-do, 15588, Korea+82-31-400-4269 sweetbrain@hanyang.ac.kr
COPYRIGHT © 2021 HANYANG UNIVERSITY. ALL RIGHTS RESERVED.
Certain data included herein are derived from the © Web of Science of Clarivate Analytics. All rights reserved.
You may not copy or re-distribute this material in whole or in part without the prior written consent of Clarivate Analytics.