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Single-cell RNA-sequencing overviews global inflammatory response in in vitro organ cultured testes

ABSTRACT: Single-cell RNA-sequencing overviews global inflammatory response in in vitro organ cultured testes

PROVIDER: PRJNA784562 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR17066553.fastq.gz	Fastqsanger.gz
	SRR17066554.fastq.gz	Fastqsanger.gz
	SRR17066555.fastq.gz	Fastqsanger.gz
	SRR17066556.fastq.gz	Fastqsanger.gz

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Single-cell RNA-sequencing overviews global inflammatory response in in vitro organ cultured testes

Project description:Background: Production of functional sperms from spermatogonial stem cells in vitro is important for understanding of biological mechanisms underlying physiological spermatogenesis and for treatment of male infertility. However, comparing with the in vivo testes, in vitro spermatogenesis is severely lower efficiency. Here we describe abnormalities occurring in early stage of in vitro spermatogenesis at single cell resolution. Results: While spermatogenesis was similarly progressed between in vivo and in vitro-cultured testes, noticeable acute inflammatory response occurred right after in vitro culture of neonatal testes not only in immune cells but also non-immune testicular somatic cells. Inhibitor treatment revealed NLRP3 inflammasome signaling is key to the inflammation occurring in in vitro cultured testes We also found accumulation of damaged/dead germ cells in in vitro cultured testes, which may be due to dysfunction of sertoli cell phagocytosis. Conclusion: Our data revealed tissue-wide sterile inflammation occurring in in vitro cultured testes, in which DAMPs - NLRP3 inflammasome axis may key element. Thus, these abnormal testicular microenvironments may be a cause of low spermatogenesis efficiency of in vitro spermatogenesis.

2022-12-31 | GSE189805 | GEO

RNAseq of organ-cultured human hair follicles exposed to MEKi (Cobimetinib)

Project description:EGFR/MEK inhibitor therapy induces a distinct inflammatory hair follicle response that includes a collapse of hair follicle immune privilege and differential modulation of IL-33 and IL-37 expression. Our findings suggest that successful future management of EGFRi/MEKi-induced folliculitis requires restoration of hair follicle immune privilege. In this RNAseq organ-cultured human hair follicles were directly exposed to MEKi (Cobimetinib) or the control DMSO (n=5 patients (6-8 hair follicles per patient)).

2024-07-19 | E-MTAB-13454 | biostudies-arrayexpress

Short-term in vitro culture of rat fetal testes with all-trans retinoic acid

Project description:Analysis of gene expression and alternate splicing effects of retinoic acid treatment on gestational day 15 rat fetal testes in whole testis culture Retinoic acid exposure in cultured fetal testis has previously been demonstrated to have significant effects on the histology of the fetal testis in multiple species, as well as to alter the meiotic states of germ cells. However, previous experiments have not analyzed the mechanisms by which retinoic acid exposure leads to altered tubulogenesis and loss of seminiferous cord structure. This experiment demonstrated that retinoic acid exposure activated signaling pathways that promote the ovary development program and oppose normal testis development in mid-gestational rat fetal testes.

2017-09-26 | GSE101634 | GEO

Expression data from cultured spermatogonia established from 10 day old mouse testes

Project description:Expression data from cultured spermatogonia established from 10 day old mouse testes

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Expression data from cultured spermatogonia established from Cdkn1c conditional knockout mouse testes

Project description:Expression data from cultured spermatogonia established from Cdkn1c conditional knockout mouse testes

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RNAseq of organ-cultured human hair follicles exposed to MEKi (Cobimetinib)

Project description:RNAseq of organ-cultured human hair follicles exposed to MEKi (Cobimetinib)

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Single cell transcriptional profiling of cultured developing neurons upon inflammatory challenge [in vitro]

Project description:Single cell transcriptional profiling of cultured developing neurons upon inflammatory challenge [in vitro]

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Transcriptomic effects of mono-(2-ethylhexyl) phthalate and all-trans retinoic acid in the cultured mouse fetal testes

Project description:We report the results of an RNA-seq analysis conducted as part of an experiment investigating the effects of the phthalate, mono-(2-ethylhexyl) phthalate (MEHP), and all-trans retinoic acid (ATRA) on cultured fetal mouse testes. The goal of the study was to determine whether fetal testis toxicity of MEHP is partially driven by disruption of retinoic acid signaling.

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Time-course microarray transcriptome data of <i>in vitro</i> cultured testes and age-matched <i>in vivo</i> testes.

Project description:In vitro spermatogenesis, which produces fertile spermatozoa, has been successfully performed using an organ culture method from murine tissue. Here, we provide a dataset of time-course microarray transcriptome data of in vitro cultured neonate murine testes and age-matched in vivo-derived testes. The dataset presented here is related to the article titled "Transcriptome analysis reveals inadequate spermatogenesis and immediate radical immune reactions during organ culture in vitro spermatogenesis" published in Biochemical and Biophysical Research Communications in 2020 [1]. The raw data and pre-processed data are publicly available on the GEO repository (accession number GSE147982). Furthermore, the dataset provided here includes additional metadata, detailed explanations of the experiment, results of pre-processing, analysis scripts, and lists of differentially expressed genes from in vitro culture testes and in vivo testes at each time point.

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Single cell transcriptional profiling of cultured developing neurons upon inflammatory challenge [in vitro]

Project description:The communication between immune and central nervous system represents an emerging field in neuroscience with many potential consequences both in basic and translational medicine. Among the plethora of mechanisms which might be involved, it is now clear that that immune molecules released upon inflammatory state can modulate different physiological aspects of brain development, resulting in long-lasting pathological consequences which may interfere with normal behavior during adulthood. A common aspect of this immune molecule is to promote deep transcriptional changes responsible for long-term effects. Single-cell RNA sequencing is now becoming a cutting-edge technology for studying the genomic rearrangement occurring at single cell level in different experimental models, thus opening a new frontier in medicine. Here, by using primary cultured neurons as a simplified model for studying neuronal development, we study the long-term consequences of the proinflammatory cytokine interleukine-6 (IL-6) on developing neurons through a single-cell sequencing approach. Based on the immuneprofiling of the analyzed cells, we identified different neuronal and non-neuronal cell clusters whose transcriptional profile changed specifically upon the inflammatory stimulation.

2021-05-13 | GSE130803 | GEO

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