Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

RNA-sequencing with micro-dissected boundary organoid into anterior, posterior, and boundary regions

ABSTRACT: RNA-sequencing with micro-dissected boundary organoid into anterior, posterior, and boundary regions

PROVIDER: PRJNA498598 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR8113450_1.fastq.gz	Fastqsanger.gz
	SRR8113450_2.fastq.gz	Fastqsanger.gz
	SRR8113451_1.fastq.gz	Fastqsanger.gz
	SRR8113451_2.fastq.gz	Fastqsanger.gz
	SRR8113452_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 30

Similar Datasets

RNA-sequencing with micro-dissected boundary organoid into anterior, posterior, and boundary regions

Project description:We report the continuous patterning and dynamic morphogenesis of hepatic, biliary and pancreatic structures, invaginating from a three-dimensional culture of human pluripotent stem cell (PSC). The boundary interactions between anterior and posterior gut spheroids differentiated from human PSCs enables autonomous emergence of hepato-biliary-pancreatic (HBP) organ domains specified at the foregut-midgut boundary organoids in the absence of extrinsic factor supply. The regional identity of the boundary region of anterior-posteior spheroids was analyzed by RNA-sequencing with micro-dissected boundary organoid into anterior, posterior, and boundary regions. Each region expressed the corresponding gut lineage markers. The early HBP specification markers including HHEX1 and PDX1 at the boundary were highly upregulated compared with the other two regions, indicating that the anterior-posterior boundary interactions autonomously generate HHEX and PDX1 positive cells in the absence of exogenous inductive factors. To delineate the HBP progenitor self-inductive mechanism, we evaluated the boundary specific expression profiles of known inductive signaling pathways that includes FGF, BMP, Hedgehog, NOTCH and retinoic acid (RA) signals, and found that the signal downstream of RA were activated prominently at the boundary region but not in the anterior or posterior regions.

2019-10-04 | GSE121830 | GEO

Early limb bud transcriptome analysis between anterior and posterior domain

Project description:Shh signal mediated by Gli family of transcription factors regulates digit growth and patterning in early limb development. Shh expression in the posterior margin of the limb bud defines the zone of polarizing activity. However, much less is know about downstream targets that mediate Shh signal functions. In this dataset, we include the expression data obtained from dissected anterior and posterior halves of mouse limb bud respectively. These data are used to obtain 889 transcripts that were upregulated 1.3 fold or more in the posterior limb bud, and 1189 transcripts that were enriched in the anterior limb bud at 1.3 fold or more. Two samples were analyzed. We generate pairwise comparisons between anterior and posterior limb tissues. Genes with a fold-change ≥1.3 were selected.

2013-01-06 | E-GEOD-41691 | biostudies-arrayexpress

Early limb bud transcriptome analysis between anterior and posterior domain

2013-01-06 | GSE41691 | GEO

Mass Spectrometry analysis of human matched Anterior and Posterior lobes of Pituitary

Project description:This study provides a comprehensive proteomic analysis of five matched pairs of the anterior and posterior lobe of the pituitary, which was used to study the proteomic signature specific to both anterior and posterior lobes. Anterior Lobe n=5 Posterior Lobe n=5 A441 PT441 A442 PT442 A457 PT457 A459 PT459 A460 PT460

2022-12-07 | PXD030235 | Pride

RNA-seq of anterior and posterior amygdala of two mouse strains

Project description:19 female mice of the C57BL/6J and B6D2F1N strains were housed in either standard (control) or enriched (including access to playgrounds) conditions. The animals were trained to perform a cognitive judgement bias test. Upon completion of training, the animals underwent the test paradigm and were sacrificed. Anterior and posterior portions of the amygdala were finally dissected for RNA-sequencing.

2022-10-24 | GSE209999 | GEO

Transcription profiling of Theiler stage 17 wild type mouse anterior vs posterior mouse sclerotome

Project description:This experiment was performed in order to identify transcriptional differences between the anterior- and posterior-halves of mouse sclerotome. Cells-derived from the anterior- and posterior-sclerotome-halves from maturing mouse somites were compared to identify transcripts that are differentially expressed between these two halves of the somite. c57b6-/- female mice were time-mated, and at 9.5-dpc embryos were harvested. Theiler stage 17 embryos were selected for dissection. A stripe of segmented paraxial mesoderm corresponding to somites SX-SXVIII (standard somite nomenclature) was dissected from one-side of an embryo. The most anterior-third of up to 7 sclerotomes within each sample were dissected and pooled in RNALater. RNA was isolated using RNeasy Micro RNA extraction spin columns (Qiagen). Reverse transcription and initial cDNA amplification was performed using 18 PCR cycles with the SMART cDNA system (Clontech). Amplified cDNA was then re-amplified and labeled using the GeneChip® IVT Labeling Kit (Affymetrix).

2006-11-16 | E-MEXP-913 | biostudies-arrayexpress

Transcription profiling of mouse postnatal neuroblasts from posterior and anterior rostral migratory streams

Project description:Postnatal neuroblasts were microdissected by laser micro dissection from posterior and anterior rostral migratory stream (RMS). Neuroblasts in the posterior RMS are just started their migration. Neuroblasts in the anterior RMS are already migrated for several days in the stream

2008-09-01 | E-MEXP-1430 | biostudies-arrayexpress

Whole-genome expression analysis of immortalized murine E10.5 anterior and posterior limb cell lines

Project description:The transcriptomes of immortalized anterior and posterior limb cell lines derived from E10.5 embryos were compared. Total RNA extracted from three E10.5 anterior and posterior limb cell line samples were compared.

2012-09-18 | E-GEOD-38370 | biostudies-arrayexpress

Mus musculus anterior and posterior ovary transcriptome at E12.5 and E13.5

Project description:Identification of genes expressed in the anterior and posterior thirds of mouse fetal ovary

2015-08-13 | GSE70357 | GEO

Molecular characterization of chick anterior and posterior half-scleorotomes by RNA-sequencing.

Project description:During amniote peripheral nervous system development, segmentation ensures the correct patterning of the spinal nerves relative to vertebral column. Along the antero-posterior (rostro-caudal) axis, each somite-derived half-sclerotome has intrinsic molecular properties that govern this segmentation process. Posterior half-sclerotomes express repellent molecules to restrict axon growth and neural crest migration to anterior half-sclerotomes. Here, we report an RNA-sequencing-based molecular characterization of anterior and posterior half-sclerotomes, using the chick embryo as a model organism.

2020-09-12 | GSE103748 | 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