Homo sapiens
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ABSTRACT:
PROVIDER: PRJNA412955 | ENA |
REPOSITORIES: ENA
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Project description:Transcriptomes during lentoid body induction of human embryonic stem cells
| PRJNA412954 | ENA
Project description:Transcriptomes dynamics during lentoid body induction
| PRJNA412958 | ENA
Project description:In order to examine the transcriptomes alteration of LN511-based lens epithelial stem cells induction, human embryonic stem cells (hESCs) were induced into lentoid body followed the protocol from Yang et al (FASEB J. 2010), on Matrigel-coated or LN511-coated culture. Each group of cells were collected at day 12 and day 18, during the time when lens epithelial stem cells were generated. The samples were named as Ctrl-d12, Ctrl-d18, LN-511-d12 and LN-511-d18, respectively, (3 replicates, -1/2/3) and sent for RNA-sequence using Illumina HiSeq2500. It turned out that LN511 acted as a robust signaling factor for lens epithelial stem cells induction via enhancing the expression of lens specification related transcription factor, promoting cell proliferation, and suppressing Hippo/Yap signaling. These results provided a valuable resource for studying the mechanisms regulating in vitro lens epithelial stem cells induction.
2023-09-08 | GSE242288 | GEO
Project description:Purpose: To investigate the transcriptomes of H9 human embryonic stem cells (hESCs)- and peripheral blood mononuclear cells (PBMC) originated induced pluripotent stem cells (iPSCs)-derived early stage lentoid bodies at day 24 through RNA-Seq based whole transcriptome sequencing. Methods: The PBMC obtained from a healthy donor were subjected to generate iPSCs using Sendai-virus delivery system Cytotune 2.0 whereas the H9 hESCs were obtained commercially. Both hESCs and iPSCs were differentiated into lentoid bodies using “fried egg” method with feeder-free conditions as described previously. The differentiating lentoid bodies were examined for the expression of lens-specific and pluripotency markers at days 0, 6, 10, 15 and 24 by quantitative real-time PCR (qRT-PCR). Briefly, four biological replicates for each hESCs- and iPSC-derived lentoid bodies at day 24 were used for the RNA-Seq library preparation followed by sequencing on a single lane of HiSeq 2500. The raw reads were processed and analyzed using Lasergene Genomics Suite and the expression profiles were examined for differential expression using Spotfire DecisionSite with Functional Genomics. Results: The differentiating lentoid bodies at day 24 revealed transparent lens like morphological features with an increased expression of lens-specific markers including CRYGC. A total of 193.41, and 170.00 million reads were obtained for hESCs- and iPSCs-derived lentoid bodies, respectively. Of these, >96% reads aligned to the human reference genome resulting in >200x sequence coverage for both hESCs- and iPSCs-derived lentoid bodies. Additional analysis identified expression (≥ 0.659 RPKM) of 13,991 and 14,018 genes in hESCs- and iPSCs-derived lentoid bodies, respectively, representing ~70% of the total human protein-coding transcriptome expressed in lentoid bodies. Finally, a comparative analysis of both hESCs- and iPSCs-derived lentoid bodies transcriptomes identified >96% similarity at the gene level. Conclusion: The transcriptome analysis revealed an overall similar transcriptional profile in both hESCs- and iPSCs-derived lentoid bodies during differentiation at day 24.
2019-12-17 | GSE111071 | GEO
Project description:Transcriptomes during lens differentiation of human embryonic stem cells
| PRJNA348613 | ENA
Project description:mouse embryonic fibroblasts, embryonic stem cells, and induced pluripotent stem cells were compared via metabolomic analysis
2018-08-02 | MSV000082680 | GNPS
Project description:Dynamic transcriptomes during neural differentiation of human embryonic stem cells
| PRJNA125337 | ENA
Project description:Processing bodies (P-bodies) are the membraneless organelles that play a critical role in RNA storage and degradation. P-body abnormalities contribute to diseases and developmental disorders, however, the dynamics of RNA components of P-bodies in human embryonic stem cells during maintenance and differentiation remain elusive. Here, we captured P-bodies during human embryonic stem cells(hESCs) to mesodermal differentiation using flow cytometry, and revealing unique transcriptomic features to other organelles and characterized by lower GC content and reduced M6A modifications. Genes enriched in P-body are cell-specific, mainly associated with translation regulation and the cytoskeleton, long non-coding RNAs in P-body tend to interact with RNAs, whereas cytoplasmic genes are conserved and essential for fundamental processes, and cytoplasmic lncRNAs mostly interact with proteins. During hESC to mesodermal differentiation, both the number of P-bodies and enriched genes were significantly reduced. In addition, P-bodies selectively attracted specific transposable elements in hESCs. Perturbation of P-body gene expression or overexpression of P-body core protein LSM14A could disrupt hESC differentiation but not maintenance. In conclusion, our data elucidate the dynamics of P-body during the differentiation of hESCs to the mesodermal lineage and support the link between P-body and stem cell pluripotency.
2024-10-15 | GSE246537 | GEO
Project description:During in vitro differentiation, pluripotent stem cells undergo extensive remodeling of their gene expression profiles. While studied extensively at the transcriptome level, much less is known about protein dynamics, which might differ significantly from their mRNA counterparts. Here, we present deep proteome-wide measurements of protein levels during the differentiation of embryonic stem cells.
2017-01-10 | MSV000080461 | MassIVE