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RKIP regulates differentiation-related features in melanocytic cells

ABSTRACT: RKIP regulates differentiation-related features in melanocytic cells

PROVIDER: PRJNA636405 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR11903417.fastq.gz	Fastqsanger.gz
	SRR11903418.fastq.gz	Fastqsanger.gz
	SRR11903419.fastq.gz	Fastqsanger.gz
	SRR11903420.fastq.gz	Fastqsanger.gz

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RKIP regulates differentiation-related features in melanocytic cells

Project description:Raf Kinase Inhibitor Protein (RKIP) has been extensively reported as an inhibitor of key signaling pathways involved in the aggressive tumor phenotype and shows decreased expression in several types of cancers. However, little is known about RKIP in melanoma or regarding its function in normal cells. We examined the role of RKIP in both primary melanocytes and malignant melanoma cells and evaluated its diagnostic and prognostic value. IHC analysis revealed a significantly higher expression of RKIP in nevi compared with early-stage (stage I-II, AJCC 8th) melanoma biopsies. Proliferation, wound healing, and collagen-coated transwell assays uncovered the implication of RKIP on the motility but not on the proliferative capacity of melanoma cells as RKIP protein levels were inversely correlated with the migration capacity of both primary and metastatic melanoma cells but did not alter other parameters. As shown by RNA sequencing, endogenous RKIP knockdown in primary melanocytes triggered the deregulation of cellular differentiation-related processes, including genes (i.e., ZEB1, THY-1) closely related to the EMT. Interestingly, NANOG was identified as a putative transcriptional regulator of many of the deregulated genes, and RKIP was able to decrease the activation of the NANOG promoter. As a whole, our data support the utility of RKIP as a diagnostic marker for early-stage melanomas. In addition, these findings indicate its participation in the maintenance of a differentiated state of melanocytic cells by modulating genes intimately linked to the cellular motility and explain the progressive decrease of RKIP often described in tumors.

2020-07-01 | GSE151585 | GEO

RKIP Regulates Differentiation-Related Features in Melanocytic Cells.

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RKIP regulates bone homeostasis by mediating the differentiation fate of bone niche macrophages.

Project description:As central cells involved in osteoimmunology, bone niche macrophages possess diverse functions, and their differentiation fate regulates bone homeostasis. Elucidation of the underlying mechanism involved in macrophage differentiation is important for developing new therapeutic targets for osteoporosis. Our RNA-seq data showed that the differentially expressed genes in BMMs after RKIP knockout were involved in the pathways of cell adhesion and osteoclast differentiation.

2024-05-01 | GSE264092 | GEO

MicroRNA expression array for 1833 cells expressing RKIP vs. control

Project description:RKIP has been implicated in suppression of breast tumor metastasis. Identification of microRNAs regulated by RKIP helps us to understand how RKIP suppresses tumor metastasis via its downstream target mircoRNAs and genes. Total RNA was extracted from 1833 cells expressing RKIP or control, respectively. Exiqon miRCURY LNA array v.11.0. was performed to identify the microRNAs regulated by RKIP.

2014-07-01 | E-GEOD-47366 | biostudies-arrayexpress

Gene expression data from 1833 cells expressing RKIP vs control

Project description:RKIP regulates human breast tumor metastasis. We use gene expression array analysis to identify genes regulated by RKIP in human breast cancer cells. Total RNAs were extracted from 1833 cells expressing mutant RKIP (S153E-RKIP, a more potent Raf-1 inhibitor) and vector control. Affymetrix GeneChip hgu133plus2.0 Arrays were performed to detail the gene expression and identify the genes regulated by RKIP in human breast cancer cells.

2014-07-01 | E-GEOD-47378 | biostudies-arrayexpress

Deconvoluted methylation profiles discriminate between closely related melanocytic nevi

Project description:Deconvoluted methylation profiles discriminate between closely related melanocytic nevi

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MicroRNA expression array for 1833 cells expressing RKIP vs. control

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Deconvoluted methylation profiles discriminate between closely related melanocytic nevi

Project description:Congenital melanocytic nevi (CMN) and common acquired melanocytic nevi (AMN) are skin conditions that result from an excess of melanocytes arising during fetal development or detected postnatally. Appropriately weighted whole-genome methylation analysis can be used as a basis for further research in dermatopathology and, in this application, provides new insights into nevus biology.

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Gene expression data from 1833 cells expressing RKIP vs control

Project description:RKIP regulates human breast tumor metastasis. We use gene expression array analysis to identify genes regulated by RKIP in human breast cancer cells.

2014-07-01 | GSE47378 | GEO

Effect of knockdown of RKIP(=PEBP1) on gene expression in mouse breast cancer cells

Project description:Raf-1 kinase inhibitor protein (RKIP = PEBP1) has been shown to negatively regulate signaling pathways including the MAPK and NFkappaB pathways involved in cancer progression and metastasis. RKIP acts as a suppressor of metastasis, but the exact mechanisms are unclear. In this study, knockdown of RKIP expression was used to identify the targets of RKIP expression. GSEA analysis identified interferon response genes as downregulated in the RKIP knockdown cells.

2022-07-21 | GSE206259 | GEO