Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Orthogonally induced differentiation of stem cells for the pattering of vascularized organoids and bioprinted tissues [bulkRNA-seq]

ABSTRACT: Orthogonally induced differentiation of stem cells for the pattering of vascularized organoids and bioprinted tissues [bulkRNA-seq]

PROVIDER: PRJNA795143 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR17465700_1.fastq.gz	Fastqsanger.gz
	SRR17465700_2.fastq.gz	Fastqsanger.gz
	SRR17465701_1.fastq.gz	Fastqsanger.gz
	SRR17465701_2.fastq.gz	Fastqsanger.gz
	SRR17465702_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 48

Similar Datasets

Orthogonally induced differentiation of stem cells for the pattering of vascularized organoids and bioprinted tissues [bulkRNA-seq]

Project description:Simultaneous differentiation of human induced pluripotent stem cells (hiPSCs) into divergent cell types offers a pathway to achieving tailorable cellular complexity, patterned architecture, and function in engineered human organoids and tissues. Recent transcription factor (TF) overexpression protocols typically produce a single cell type of interest rather than the multitude of cell types and structural organization found in native human tissues. Here, we report an orthogonal induced differentiation platform, wherein pluripotent cells are simultaneously co-differentiated into distinct cell types to generate organoids and bioprinted tissues with controlled composition and organization. To demonstrate this platform, we differentiated endothelial cells and neurons from hiPSCs in a one-pot system containing either neural or endothelial stem cell-specifying media. By aggregating inducible-TF and wild type hiPSCs into pooled and multicore-shell embryoid bodies, we produced vascularized and patterned cortical organoids within days. Using multimaterial 3D bioprinting, we patterned 3D neural tissues from densely cellular, matrix-free stem cell inks that underwent orthogonal induced differentiation to generate distinct layered regions composed of neural stem cells, endothelium, and neurons, respectively. Given the high proliferative capacity and patient-specificity of hiPSCs, our platform provides a facile route for programming cells and multicellular tissues for drug screening and therapeutic applications.

2022-01-11 | GSE193148 | GEO

Orthogonally induced differentiation of stem cells for the pattering of vascularized organoids and bioprinted tissues [scRNA-seq]

2022-01-11 | GSE193102 | GEO

Orthogonally induced differentiation of stem cells for the pattering of vascularized organoids and bioprinted tissues

Project description:Orthogonally induced differentiation of stem cells for the pattering of vascularized organoids and bioprinted tissues

| PRJNA795138 | ENA

Orthogonally induced differentiation of stem cells for the pattering of vascularized organoids and bioprinted tissues [scRNA-seq]

Project description:Orthogonally induced differentiation of stem cells for the pattering of vascularized organoids and bioprinted tissues [scRNA-seq]

| PRJNA794832 | ENA

High-speed live cell interferometry for screening bioprinted organoids

Project description:We developed bioprinted tumor organoids linked to real-time growth pattern quantitation via high-speed live cell interferometry (HSLCI). We demonstrate that bioprinting gives rise to 3D organoid structures that preserve histology and gene expression.

2022-11-26 | GSE218693 | GEO

Matrix directs trophoblast differentiation in a bioprinted organoid model of early placental development

Project description:Trophoblast organoids offer a unique opportunity to study mechanisms orchestrating placental growth and development during pregnancy. However, many organoid cultures rely on extracellular matrix reagents that are highly variable and unable to be tuned to reflect in vivo tissues. Here we describe the first bioprinted placental organoid model, generated using first trimester trophoblast cell line, ACH-3P, and a synthetic polyethylene glycol matrix. Bioprinted organoids were compared comprehensively to classic Matrigel-embedding using functional assays, immunofluorescence microscopy, transcriptomic and proteomic analyses. Organoids differentiated spontaneously from cytotrophoblasts into two major subtypes: extravillous trophoblasts (EVTs) and syncytiotrophoblasts (STBs), with bioprinted organoids driven towards EVT differentiation. Bioprinted organoids were exposed to inflammation and treated with aspirin or metformin to assess their effects on trophoblast organoid formation and viability. Further, we reversed the inside-out architecture of ACH-3P organoids by suspension culture. Organoid suspension caused STBs to form a syndecan-1+ outer layer on the periphery of organoids, reflecting placental tissue. Here, we present an alternative trophoblast organoid model with further tuning potential to reflect the placental microenvironment in physiological and pathological pregnancies.

2025-07-28 | PXD056796 | Pride

Comparison of bioprinted kidney organoids in different conformations

Project description:Bulk RNA-seq comparison of kidney organoids bioprinted in 3 different conformations with varying starting cell densities. Density is dictated by the ratio of bioprinter tip movement to the amount of extrusion, where higher ratios spread cells over a larger surface area. We compare organoids printed with no movement ('blob', ratio 0) to those with moderate ('line 3', ratio 20) or high movement ('line 1', ratio 40).

2020-09-01 | GSE138733 | GEO

Matrix directs trophoblast differentiation in a bioprinted organoid model of early placental development

Project description:Trophoblast organoids can provide crucial insights into mechanisms of placentation, however their potential is limited by highly variable extracellular matrices unable to reflect in vivo tissues. Here, we present a bioprinted placental organoid model, generated using the first trimester trophoblast cell line, ACH-3P, and a synthetic polyethylene glycol (PEG) matrix. Bioprinted or Matrigel-embedded organoids differentiate spontaneously from cytotrophoblasts into two major subtypes: extravillous trophoblasts (EVTs) and syncytiotrophoblasts (STBs). Bioprinted organoids are driven towards EVT differentiation and show close similarity with early human placenta or primary trophoblast organoids. Inflammation inhibits proliferation and STBs within bioprinted organoids, which aspirin or metformin (0.5 mM) cannot rescue. We reverse the inside-out architecture of ACH-3P organoids by suspension culture with STBs forming on the outer layer of organoids, reflecting placental tissue. Our bioprinted methodology is applicable to trophoblast stem cells. We present a high-throughput, automated, and tuneable trophoblast organoid model that reproducibly mimics the placental microenvironment in health and disease.

2025-07-28 | GSE279994 | GEO

Spatial transcriptomic analysis of transplanted vascularized lung organoids

Project description:To investigate the cell-cell interactions among the transplanted vascularized organoids, we utilized a Slide-seq-based spatial transcriptomics platform to unbiasedly map the spatial distribution of ligand-receptor pairs.

2025-06-29 | GSE296429 | GEO

Comparison manual and two types of bioprinted kidney organoids by single cell RNA-seq

Project description:We compared kidney organoids generated manually ('Man') to those generated by bioprinting single cell deposition ('R0') and thin bioprinted lines ('R40').

2020-09-01 | GSE152014 | 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