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Akap11 is a positive regulator of osteogenesis in mouse osteoblastic cell line MC3T3-E1

ABSTRACT: Akap11 is a positive regulator of osteogenesis in mouse osteoblastic cell line MC3T3-E1

PROVIDER: PRJNA562822 | ENA |

REPOSITORIES: ENA

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Akap11 is a positive regulator of osteogenesis in mouse osteoblastic cell line MC3T3-E1

Project description:Purpose: This is a post-GWAS functional study that aims to determine the effect of Akap11 knockout in mouse preosteoblastic cell line MC3T3-E1 during osteogenesis. Methods: mRNA profile of WT (treated with CRISPR and remains unedited) and Akap11 knockout MC3T3-E1 cells were generated by RNAseq from pooled RNA (from 3 biological triplicate at equal quantity) of various timepoint during osteogenesis (Day 0, 7,16, 25).100ng total RNA was used for library construction by KAPA Stranded mRNA-Seq Kit (Roche). Pair-End 101bp sequencing was performed in the Illumin HiSq1500 sequencer using the HiSeq SBS Kit v4 (Illumina). Data was collected with SCS version 1.4.8. Base calling was performed using Illumina’s RTA (Version 1.12.4.2). 7 samples were sequenced per lane and achieved a sequencing depth of ~65 million read per sample. Results: Expression of osteogentic markers in Akap11 knockout MC3T3-E1 cells were suppressed. Genes invovled in IGF-I signaling pathway were signficantly altered.

2019-08-30 | GSE136591 | GEO

Caspase-9 is a positive regulator of osteoblastic cell migration identified by diaPASEF proteomics

Project description:Caspase-9 is traditionally considered as the initiator caspase of the intrinsic apoptotic pathway. In the last decade, however, other functions beyond initiation/execution of cell death have been described including cell type-dependent regulation of proliferation, differentiation/maturation, mitochondrial and endosomal/lysosomal homeostasis. As previous studies revealed non-apoptotic functions of caspases in osteogenesis and bone homeostasis, this study was performed to identify proteins and pathways deregulated by knockout of caspase-9 in mouse MC3T3-E1 osteoblasts. Data-independent acquisition – parallel accumulation serial fragmentation (diaPASEF) proteomics was used to compare protein profiles of control and caspase-9 knockout cells. A total of 7669 protein groups were quantified and 283 upregulated/141 downregulated protein groups were associated with the caspase-9 knockout phenotype. The deregulated proteins were mainly enriched for those associated with cell migration/motility and DNA replication/repair. Altered migration was confirmed in MC3T3-E1 cells with genetic and pharmacological inhibition of caspase-9. ABHD2, an established regulator of cell migration, was identified as a possible substrate of caspase-9. We conclude that caspase-9 acts as a modulator of osteoblastic MC3T3-E1 cell migration and therefore may be involved in bone remodeling and fracture repair.

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Comparison of gene expression profiles between MC3T3-E1 without osteoblastic induction and with 14 days of ostoblastic induction

Project description:Microarray study revealed 1324 genes that were up-regulated and 1550 genes that were down-regulated more than 1.5 fold change (corrected p<0.05) in MC3T3-E1-derived-mature Osteoblasts compared to control MC3T3-E1.

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Genomic characterization of osteoblastic differentiation of MC-3T3E1 cells

Project description:Gene expression analysis of murine MC3T3-E1 cells induced to undergo synchronized osteoblastic differentiation in vitro.

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Expression Data from MC3T3-E1 cells subjected to laminar fluid flow (LFF)

Project description:Osteoblasts are responsive to shear stress. We investigated the effect of of laminar fluid flow (LFF) on osteoblast-like MC3T3-E1 cells at two timepoints. We used microarray analysis to detail the global gene expression of MC3T3-E1 cells in response to 1 hour of laminar fluid flow directly and 4 hours after treatment.

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mice mRNA array for MACF1-knockdown MC3T3-E1 cell line

Project description:MC3T3-E1 cells with stable knockdown of MACF1 by shRNA. Cells were normally cultured and RNA extracted for mRNA microarray.

2022-02-02 | E-MTAB-11425 | biostudies-arrayexpress

mice lncRNA array for MACF1-knockdown MC3T3-E1 cell line

Project description:MC3T3-E1 cells with stable knockdown of MACF1 by shRNA. Cells were normally cultured and RNA extracted for lncRNA microarray.

2022-02-11 | E-MTAB-11426 | biostudies-arrayexpress

Tumor-derived Jagged1- and Notch-dependent transcription changes in MC3T3-E1 osteoblasts

Project description:Transcriptional profiling of MC3T3-E1 osteoblasts that were flow cytometry-separated from cocultures with control or Jagged1-overexpressing tumor cells and treated with either DMSO control or 1μM MRK-003 (gamma-secretase inhibitor). One cell line (MC3T3-E1) cells: four different experimental conditions: cultured with (1) control tumor cells + DMSO; (2) Jagged1-overexpressing tumor cells + DMSO; (3) control tumor cells + MRK-003; (4) Jagged1-overexpressing tumor cells + MRK-003. Each experiment has two biological replicates. Total, 8 samples.

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Genomic characterization of osteoblastic differentiation of MC-3T3E1 cells

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2012-06-27 | E-GEOD-30393 | biostudies-arrayexpress

Tumor-derived Jagged1- and Notch-dependent transcription changes in MC3T3-E1 osteoblasts

2010-08-15 | GSE20517 | GEO

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