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Transcriptomic analysis of the interaction of choriocarcinoma spheroids with receptive vs. non-receptive endometrial epithelium cell lines: an in vitro model for human implantation

ABSTRACT: The aim of this study was to establish an in vitro model to investigate the initial stages of human implantation based on co-culture of a) immortalized cells representing the receptive (Ishikawa) or non-receptive (HEC-1-A) endometrial epithelium with b) spheroids of a trophoblastic cell line (JEG-3) modified to express green fluorescent protein. After co-culturing Ishikawa cells with trophoblast spheroids, 310 and 298 genes increased or decreased their expression compared to non-co-cultured Ishikawa control cells, respectively; only 9 genes (5 increased and 4 decreased) were differentially expressed in HEC-1-A upon co-culture with trophoblast spheroids. Compared to HEC-1-A, the trophoblast challenge to Ishikawa cells differentially regulated the expression of 495 genes. In summary, upon co-culture with the trophoblast spheroids, non-receptive epithelium is characterized by a muted transcriptional response which in turn fails to activate the full transcriptional response that trophoblast spheroids undergo when co-cultured with receptive epithelium.

ORGANISM(S): Homo sapiens

PROVIDER: GSE121790 | GEO | 2019/03/14

REPOSITORIES: GEO

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Transcriptomic analysis of the interaction of choriocarcinoma spheroids with receptive vs. non-receptive endometrial epithelium cell lines: an in vitro model for human implantation

Project description:Transcriptomic analysis of the interaction of choriocarcinoma spheroids with receptive vs. non-receptive endometrial epithelium cell lines: an in vitro model for human implantation

| PRJNA498451 | ENA

Analyses of circRNA profiling during the development from pre-receptive to receptive phases in goat endometrium

Project description:In the present study, RNA-seq technique was used to compare the expression profiles of circRNAs from goat endometrium samples at gestational day 5 (pre-receptive endometrium, PE) and day 15 (receptive endometrium, RE). A total of 21,813 circRNAs were identified in goat endometrium, of which only 31.22% (6,810) circRNAs were co-expressed at both stages, and 5,925 circRNAs were identified specifically in RE and 9,078 in PE, suggesting high stage specificity in the circRNAs in dairy goats. Further analysis found that there were 334 DECs (differentially expressed circRNAs) in RE compared to PE (P< 0.05), and circRNA8077 was up-regulated with the highest FPKM value in RE. It was noteworthy that half of the up-regulated circRNAs with top 10 highest FPKM value in RE were come from CRIM1. Moreover, GO and KEGG analysis of the hgDEGs (hosting genes of DECs) revealed some circRNAs, genes and pathways that may involve in the formation of the receptive endometrium in dairy goats. In a word, our data provided an endometrium circRNA expression atlas related to the biology of the goat receptive endometrium during embryo implantation, and the results suggested that a subset of circRNAs might involve in the processes of the formation and development of endometrial receptivity.

2019-05-09 | GSE85384 | GEO

FOXA1 in HER2+ endometrial cancer patients predicts good outcome

Project description:ChIP-seq of endometrial cancer cell lines Ishikawa (Ish) and Hec1a (Hec) cells

2019-12-01 | GSE100789 | GEO

Epigenetic regulation of receptive human endometrium through microRNAs

Project description:MicroRNAs (miRNAs) act as important epigenetic post-transcriptional regulators of gene expression. We aimed to gain more understanding to the complex gene expression regulation of endometrial receptivity by analysing miRNA signature of fertile human endometrium. We used Agilent miRNA arrays to define the miRNA expression pattern in receptive (LH+7, n = 3) vs. pre-receptive (LH<7, n = 4) endometrium from healthy fertile women.

2012-06-22 | E-GEOD-34435 | biostudies-arrayexpress

Endometrial methylome of healthy women during the transition from pre-receptive to receptive phase

Project description:The inner uterine lining (endometrium) has been shown to have a distinct methylation pattern that changes throughout the menstrual cycle. However, not much is known about how the endometrial methylome affects endometrial receptivity to implanting embryo in the second half of the menstrual cycle. The aim of the present study was to use genome-wide technologies and a paired study design to characterize the endometrial methylome in pre-receptive and receptive endometrium sampled from 17 healthy women within the same menstrual cycle.

2017-06-20 | GSE90060 | GEO

Gene expression data from human endometrial cancer cells treated with siRNA targeting Efp

Project description:To examine the role of Efp in endometrial cancer cells, Ishikawa and HEC-1A cells were treated with siRNA targeting Efp (siEfp) or control siRNA (siControl). Microarray analysis showed that Efp knockdown represses NF-κB-signaling pathway-associated genes.

2018-11-20 | GSE118228 | GEO

Macrophages in Human Colorectal Cancer are Pro-inflammatory and Prime T Cells towards the Anti-Tumor Type-1 Inflammatory Response

Project description:Analysis of interaction between tumor cells and macrophages at the gene expression level. Total RNA obtained from tumor cells cultured as (1) spheroids alone, (2) tumour cells sorted out from co-culture spheroids with macrophages, and (3) co-culture spheroids of tumor cells and macrophages

2011-05-12 | E-GEOD-29214 | biostudies-arrayexpress

Identification of Lgr5-independent spheroid-generating progenitors of the mouse fetal intestinal epithelium

Project description:Immortal spheroids were generated from fetal mouse intestine using the culture system developed to culture organoids from adult intestinal epithelium. Spheroids are made of a monostratified polarized epithelium displaying a poorly differentiated intestinal phenotype. The proportion of spheroids generated from intestinal explants progressively decreases from fetal to postnatal period, with a corresponding increase in production of organoids. Spheroid cells show indefinite self-renewing properties but exhibit a transcriptome strikingly different from that of adult intestinal stem cells reminiscent of incompletely caudalized progenitors. The receptor Lgr4, but not Lgr5, is essential for their growth. Trop2/Tacstd2 and Cnx43/Gja1, two markers highly enriched in spheroids, are expressed throughout the E14 intestinal epithelium. Comparison of in utero and neonatal lineage tracing using Cnx43-CreER and Lgr5-CreERT2 mice identified spheroid-generating cells as developmental progenitors involved in generation of the prenatal intestinal epithelium. Ex vivo, spheroid cells have the potential to differentiate into organoids, thus qualifying them as a new type of intestinal stem-like cells.

2014-01-21 | GSE49803 | GEO

Transcriptomics of receptive endometrium in women with sonographic features of adenomyosis

Project description:Purpose: We compared endometrial transcriptome profiles during the window of implantation (WOI) between women with and without uterine adenomyosis. Methods: We obtained endometrial biopsies luteinizing hormone (LH)-timed to the WOI from women with sonographic features of adenomyosis (n=10) and controls (n=10). Isolated RNA samples were subjected to RNA sequencing (RNA-seq) and endometrial receptivity classification with a molecular tool for menstrual cycle phase dating (beREADY®, CCHT). RNA-seq data were analysed in the setting of the result of accurate endometrial dating. Results: Out of 20 endometrial samples, 2 were dated to the early receptive phase, 13 to the receptive phase and 5 to the late receptive phase. Comparison of the transcriptomics data from all 20 samples provided 909 DEGs (p<0.05; nonsignificant after adjusted p value) in the adenomyosis group but only 4 enriched pathways (Bonferroni p value < 0.05). The analysis of 13 samples only dated to the receptive phase provided suggestive 382 DEGs (p<0.05; nonsignificant after adjusted p value) in the adenomyosis group, leading to 33 enriched pathways (Bonferroni p value < 0.05). These included pathways were already associated with endometrial biology, such as “Expression of interferon (IFN)-induced genes” and “Response to IFN-alpha”. Conclusion: Accurate endometrial dating and RNA-seq analysis resulted in the identification of altered response to IFN signalling as the most promising candidate of impaired uterine receptivity in adenomyosis.

2022-01-03 | GSE185392 | GEO

Analyses of lncRNA profiling during the development from pre-receptive to receptive phases in goat endometrium

Project description:In the present study, RNA-seq technique was used to compare the expression profiles of lncRNAs from goat endometrium samples at gestational day 5 (pre-receptive endometrium, PE) and day 15 (receptive endometrium, RE). This yielded 18 gigabases (Gb) of sequence, representing approximately seven times the size of the genome (2.66 Gb). A total of 120 million raw reads were produced from the Illumina HiSeq 2500 platform. After discarding adaptor sequences and low-quality sequences, 90 to 97 million clear reads per sample were obtained, and the percentage of clean reads among raw tags in each library ranged from 75.79–81.03 %. A total of 668 lncRNAs were found to differ significantly in terms of expressional levels (P< 0.05) between the PE and RE libraries,98.35% of the DELs were mapped to “u” (Unknown, intergenic transcript).Our results included 76,844 lncRNAs that corresponded to 42,933 protein-coding genes within a range of 1-100 kb. It deserved to note that 783 target genes of the 200 DELs that were annotated to 153 GO terms meeting our designated criteria of P-values< 0.05, KEGG pathway annotation showed 242 target genes of the DELs were annotated for 146 KEGG pathways.

2019-09-10 | GSE86816 | GEO

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