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Differentially expressed genes in preimplantation human embryos: potential candidate genes for blastocyst formation and implantation.

ABSTRACT: The aim of this study was to determine which genes and gene pathways are differentially expressed when comparing human blastocysts with cleavage-stage embryos.We individually assessed gene expression in preimplantation human embryos at cleavage (n?=?3) and blastocyst (n?=?3) stages. Gene expression patterns were then validated in publically available datasets and then independently validated in vitro with additional human embryos using TaqMan gene expression assays. Immunolocalization studies were conducted to identify protein expression in intact blastocyst-stage embryos.Compared to cleavage-stage embryos, blastocyst-stage embryos differentially expressed 51 genes (p?

SUBMITTER: Munch EM

PROVIDER: S-EPMC4974233 | biostudies-literature | 2016 Aug

REPOSITORIES: biostudies-literature

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Differentially expressed genes in preimplantation human embryos: potential candidate genes for blastocyst formation and implantation.

Munch Erika M EM Sparks Amy E AE Gonzalez Bosquet Jesus J Christenson Lane K LK Devor Eric J EJ Van Voorhis Bradley J BJ

Journal of assisted reproduction and genetics 20160530 8

<h4>Purpose</h4>The aim of this study was to determine which genes and gene pathways are differentially expressed when comparing human blastocysts with cleavage-stage embryos.<h4>Methods</h4>We individually assessed gene expression in preimplantation human embryos at cleavage (n = 3) and blastocyst (n = 3) stages. Gene expression patterns were then validated in publically available datasets and then independently validated in vitro with additional human embryos using TaqMan gene expression assay ...[more]

PMID: 27241529

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Project description:BackgroundExosomes are involved in cell-to-cell communication, neovascularization, cancer metastasis, and drug resistance, which all play an important role in the occurrence and progression of hepatocellular carcinoma (HCC). Because there are few mechanistic studies about the function of exosomes in HCC, the goals of this study were to identify exosome-related genes in HCC, to establish a reliable prognostic model for HCC, and to explore underlying mechanisms.MethodsThe exoRBase and The Cancer Genome Atlas (TCGA) databases were used to analyze differentially expressed genes (DEGs). Cox regression and least absolute shrinkage and selection operator analyses were used to identify DEGs closely related to the overall survival of patients with HCC. An exosome-related prognostic model was then constructed in TCGA and validated in the International Cancer Genome Consortium database. A nomogram was developed to predict survival. CIBERSORT was used to estimate the abundance of different types of immune cells. Immunotherapy-related DEGs were used to predict the effect of immunotherapy.ResultsForty-eight exosome-related DEGs were obtained; of them, five [exportin 1 (XPO1), lysosomal thiol reductase (IFI30), F-box protein 16 (FBXO16), calmodulin 1 (CALM1), MORC family CW-type zinc finger 3 (MORC3)] were selected to construct a predictive model. Patients with HCC were then divided into low- and high-risk groups using the best cut-off value, as determined by the X-tile software. Prognosis was significantly poorer in the high-risk than in the low-risk group (P=0.009; hazard ratio =2.65). Features related to exosomes were found to positively regulate immune response. Further analysis showed a higher risk score was associated with higher expression of immune checkpoint molecules, including programmed death ligand 1 (PD-L1), programmed death ligand 2 (PD-L2), T cell Ig and ITIM domain (TIGIT), and indoleamine-2,3-dioxygenase 1 (IDO1).ConclusionsThis study has identified a novel signature based on exosome-related genes that has potential as a prognostic biomarker for HCC. Our research provides an immunological perspective for the development of precision treatment for HCC.

Dataset Information

Differentially expressed genes in preimplantation human embryos: potential candidate genes for blastocyst formation and implantation.

Publications

Differentially expressed genes in preimplantation human embryos: potential candidate genes for blastocyst formation and implantation.

Similar Datasets

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