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X-WR-CALNAME:Biomedical Mathematics Group
X-ORIGINAL-URL:https://www.ibs.re.kr/bimag
X-WR-CALDESC:Events for Biomedical Mathematics Group
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DTSTART:20250101T000000
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DTSTART;TZID=Asia/Seoul:20260710T100000
DTEND;TZID=Asia/Seoul:20260710T120000
DTSTAMP:20260629T080759Z
CREATED:20260629T080759Z
LAST-MODIFIED:20260629T080759Z
UID:12659-1783677600-1783684800@www.ibs.re.kr
SUMMARY:Topological identification and interpretation for single-cell gene regulation elucidation across multiple platforms using scMGCA - Yun Min Song
DESCRIPTION:In this talk\, we discuss the paper “Topological identification and interpretation for single-cell gene regulation elucidation across multiple platforms using scMGCA” by Zhuohan Yu et al.\, nature communications\, 2023. \nAbstract: \n\n\n\nSingle-cell RNA sequencing provides high-throughput gene expression information to explore cellular heterogeneity at the individual cell level. A major challenge in characterizing high-throughput gene expression data arises from challenges related to dimensionality\, and the prevalence of dropout events. To address these concerns\, we develop a deep graph learning method\, scMGCA\, for single-cell data analysis. scMGCA is based on a graph-embedding autoencoder that simultaneously learns cell-cell topology representation and cluster assignments. We show that scMGCA is accurate and effective for cell segregation and batch effect correction\, outperforming other state-of-the-art models across multiple platforms. In addition\, we perform genomic interpretation on the key compressed transcriptomic space of the graph-embedding autoencoder to demonstrate the underlying gene regulation mechanism. We demonstrate that in a pancreatic ductal adenocarcinoma dataset\, scMGCA successfully provides annotations on the specific cell types and reveals differential gene expression levels across multiple tumor-associated and cell signalling pathways.
URL:https://www.ibs.re.kr/bimag/event/topological-identification-and-interpretation-for-single-cell-gene-regulation-elucidation-across-multiple-platforms-using-scmgca-yun-min-song/
LOCATION:B232 Seminar Room\, IBS\, 55 Expo-ro Yuseong-gu\, Daejeon\, Daejeon\, 34126\, Korea\, Republic of
CATEGORIES:Journal Club
ORGANIZER;CN="Jae Kyoung Kim":MAILTO:jaekkim@kaist.ac.kr
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