Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transcriptomic trajectory of the tendon and fibrocartilage fate switch

ABSTRACT: Transcriptomic trajectory of the tendon and fibrocartilage fate switch

PROVIDER: PRJNA646529 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR12232800.fastq.gz	Fastqsanger.gz
	SRR12232801.fastq.gz	Fastqsanger.gz
	SRR12232802.fastq.gz	Fastqsanger.gz
	SRR12232803.fastq.gz	Fastqsanger.gz
	SRR12232804.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 90

Similar Datasets

Transcriptomic trajectory of the tendon and fibrocartilage fate switch [bulk RNA seq]

Project description:We report the transcriptomic profiling of tendon and fibrocartilage induction by day, examining both the fate dependent and independent modules

2021-06-11 | GSE154397 | GEO

Transcriptomic trajectory of the tendon and fibrocartilage fate switch [bulk RNA seq]

Project description:Transcriptomic trajectory of the tendon and fibrocartilage fate switch [bulk RNA seq]

| PRJNA646184 | ENA

Transcriptional profiling of mESC-derived tendon and fibrocartilage cell fate switch [scRNA-seq]

Project description:We report a high-efficiency differentiation protocol to tendon and fibrocartilage perform molecular profiling of tendon and fibrocartilage fatse in relation to developmetnal in vivo analogues. We also the molecular induction of tendon and fibrocartilage by examining fate dependent and independent gene modules

2021-06-11 | GSE154525 | GEO

Transcriptional profiling of mESC-derived tendon and fibrocartilage cell fate switch [scRNA-seq]

Project description:Transcriptional profiling of mESC-derived tendon and fibrocartilage cell fate switch [scRNA-seq]

| PRJNA646530 | ENA

Transcriptomic trajectory of the tendon and fibrocartilage fate switch

Project description:This SuperSeries is composed of the SubSeries listed below.

2021-06-11 | GSE154526 | GEO

Transcriptional profiling of mESC-derived tendon and fibrocartilage cell fate switch.

Project description:The transcriptional regulators underlying induction and differentiation of dense connective tissues such as tendon and related fibrocartilaginous tissues (meniscus and annulus fibrosus) remain largely unknown. Using an iterative approach informed by developmental cues and single cell RNA sequencing (scRNA-seq), we establish directed differentiation models to generate tendon and fibrocartilage cells from mouse embryonic stem cells (mESCs) by activation of TGFβ and hedgehog pathways, achieving 90% induction efficiency. Transcriptional signatures of the mESC-derived cells recapitulate embryonic tendon and fibrocartilage signatures from the mouse tail. scRNA-seq further identify retinoic acid signaling as a critical regulator of cell fate switch between TGFβ-induced tendon and fibrocartilage lineages. Trajectory analysis by RNA sequencing define transcriptional modules underlying tendon and fibrocartilage fate induction and identify molecules associated with lineage-specific differentiation. Finally, we successfully generate 3-dimensional engineered tissues using these differentiation protocols and show activation of mechanotransduction markers with dynamic tensile loading. These findings provide a serum-free approach to generate tendon and fibrocartilage cells and tissues at high efficiency for modeling development and disease.

| S-EPMC8270956 | biostudies-literature

A Conserved Transcription Factor Regulatory Program Promotes Tendon Fate

Project description:Tendons, which transmit force from muscles to bones, are highly prone to injury. Understanding the mechanisms driving tendon fate would impact efforts to improve tendon healing, yet this knowledge is limited. To find direct regulators of tendon progenitor emergence, we performed a zebrafish high-throughput chemical screen. We established Forskolin as a tenogenic inducer across vertebrates, functioning through Creb1a, which is required and sufficient for tendon fate. Putative enhancers containing cAMP response elements (CRE) in human, mouse and fish, drove specific expression in zebrafish cranial and fin tendons. Analysis of these genomic regions identified motifs for Ebf/EBF transcription factors. Mutation of CRE or Ebf/EBF motifs significantly disrupted enhancer activity and specificity in tendons. Zebrafish ebf1a/ebf3a mutants displayed defects in tendon formation. Notably, Creb1a/CREB1 and Ebf1a/Ebf3a/EBF1 overexpression facilitated tenogenic induction in zebrafish and human pluripotent stem cells. Together, our work reveals functional conservation of two novel transcription factors in promoting tendon fate.

2024-06-13 | GSE252165 | GEO

A Conserved Transcription Factor Regulatory Program Promotes Tendon Fate

Project description:A Conserved Transcription Factor Regulatory Program Promotes Tendon Fate

| PRJNA1057947 | ENA

Tenogenic induction from induced pluripotent stem cells unveils the trajectory towards tenocyte differentiation.

Project description:The musculoskeletal system is integrated by tendons that are characterized by expression of a functionally important transcription factor Scleraxis (Scx). To date, there has been no solid culture system for tenogenic differentiation. Here we developed the tenocyte induction method using induced pluripotent stem cells established from ScxGFP transgenic mice by monitoring fluorescence that reflects a series of dynamic differentiation process. Among several developmentally relevant factors, TGF-2 was the most potent inducer for differentiation of tenocytes expressing Tenomodulin, a mature differentiation marker. Single-cell RNA sequencing (scRNA-seq) revealed 11 distinct clusters including mature tenocyte population and tenogenic differentiation trajectory, which well recapitulates in vivo developmental process. Dataset of scRNA-seq and transcriptome of Scx deficient tendon enabled identification of Scx-related genes in which tendon-related genes are enriched. Collectively, this study leads to a new opportunity for tendon research and provides further insight into mechanistic understanding of the differentiation pathway to a tenogenic fate.

2022-03-09 | GSE168451 | GEO

Divergent cell differentiation trajectory in normal and heterotopic ossified soft connective tissues

Project description:We used single-cell RNA sequencing and a gene knockout mice model to reveal the heterogeneity and differentiation trajectory of tendon derived cells in both physiological and pathoplogical conditons.

2020-07-01 | GSE102929 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data