Interactome comparison of human embryonic stem cell lines with the inner cell mass and trophectoderm
Interactome comparison of human embryonic stem cell lines with the inner cell mass and trophectoderm
Abstract Human embryonic stem cells (hESCs) derived from the pluripotent Inner cell mass (ICM) of the blastocyst are fundamental tools for understanding human development, yet are not identical to their tissue of origin. To investigate this divergence we compared the transcriptomes of genetically paired ICM and trophectoderm (TE) samples with three hESC lines: MAN1, HUES3 and HUES7 at similar passage. We generated inferred interactome networks using transcriptomic data unique to the ICM or TE, and defined a hierarchy of modules (highly connected regions with shared function). We compared network properties and the modular hierarchy and show that the three hESCs had limited overlap with ICM specific transcriptome (6%-12%). However this overlap was enriched for network properties related to transcriptional activity in ICM (p=0.016); greatest in MAN1 compared to HUES3 (p=0.048) or HUES7 (p=0.012). The hierarchy of modules in the ICM interactome contained a greater proportion of MAN1 specific gene expression (46%) compared to HUES3 (28%) and HUES7 (25%) (p=9.0×10?4). These findings show that traditional methods based on transcriptome overlap are not sufficient to identify divergence of hESCs from ICM. Our approach also provides a valuable approach to the quantification of differences between hESC lines. And Manchester Academic Health Sciences Centre
Stevens Adam、Garner Terence、Minogue Ben、Sneddon Sharon、Bates Nicola、Kimber Susan J、Brison Daniel R、Keramari Maria、Oldershaw Rachel、Smith Helen、Shaw Lisa
Maternal and Fetal Health Research Centre, Division of Developmental Biology & Medicine, Faculty of Biology, Medicine and Health, University of ManchesterMaternal and Fetal Health Research Centre, Division of Developmental Biology & Medicine, Faculty of Biology, Medicine and Health, University of ManchesterDivision of Cell Matrix Biology and Regenerative Medicine, Faculty of Biology, Medicine and Health, University of ManchesterDivision of Cell Matrix Biology and Regenerative Medicine, Faculty of Biology, Medicine and Health, University of ManchesterDivision of Cell Matrix Biology and Regenerative Medicine, Faculty of Biology, Medicine and Health, University of ManchesterDivision of Cell Matrix Biology and Regenerative Medicine, Faculty of Biology, Medicine and Health, University of ManchesterMaternal and Fetal Health Research Centre, Division of Developmental Biology & Medicine, Faculty of Biology, Medicine and Health, University of Manchester||Department of Reproductive Medicine, Saint Mary?ˉs Hospital, Manchester University NHS Foundation TrustDivision of Cell Matrix Biology and Regenerative Medicine, Faculty of Biology, Medicine and Health, University of ManchesterDivision of Cell Matrix Biology and Regenerative Medicine, Faculty of Biology, Medicine and Health, University of ManchesterMaternal and Fetal Health Research Centre, Division of Developmental Biology & Medicine, Faculty of Biology, Medicine and Health, University of Manchester||Division of Cell Matrix Biology and Regenerative Medicine, Faculty of Biology, Medicine and Health, University of ManchesterMaternal and Fetal Health Research Centre, Division of Developmental Biology & Medicine, Faculty of Biology, Medicine and Health, University of Manchester
基础医学细胞生物学分子生物学
Stevens Adam,Garner Terence,Minogue Ben,Sneddon Sharon,Bates Nicola,Kimber Susan J,Brison Daniel R,Keramari Maria,Oldershaw Rachel,Smith Helen,Shaw Lisa.Interactome comparison of human embryonic stem cell lines with the inner cell mass and trophectoderm[EB/OL].(2025-03-28)[2025-08-09].https://www.biorxiv.org/content/10.1101/411439.点此复制
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