Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transcriptomic profiling of the developing rabbit's lung

ABSTRACT: Preterm infants are delivered during vulnerable stages of lung development at late canalicular, saccular, or early alveolar phases according to their degree of prematurity. Consequently, they often require medical interventions, especially to support their respiratory system. Preterm birth and post-natal oxygen and mechanical ventilation support can alter programmed patterns of fetal lung development, leading to the instauration of chronic lung diseases. The most significant pulmonary complication of preterm birth is bronchopulmonary dysplasia (BPD). The aim of this study is to delve into the translational power of rabbits as a suitable model of neonatal chronic lung diseases, characterizing the physiological rabbit lung development through the application of histological, transcriptomic, and proteomic analyses on perinatal rabbit lung samples, investigating the impact of preterm birth and its relevance on BPD modeling.

ORGANISM(S): Oryctolagus cuniculus

PROVIDER: GSE220843 | GEO | 2023/07/04

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

miRNA expression in tracheal aspirates

Project description:Extreme preterm infants are a growing population in neonatal intensive care units who carry a high mortality and morbidity. Multiple factors play a role in preterm birth, resulting in major impact on organogenesis leading to complications including bronchopulmonary dysplasia (BPD). The goal of this study was to identify biomarker signatures associated with prematurity and BPD. We analyzed miRNA and mRNA profiles in tracheal aspirates (TAs) from 51 infants receiving invasive mechanical ventilation. 25 infants were extremely preterm and diagnosed with BPD, and 26 were term babies receiving invasive mechanical ventilation for elective procedures. We found specific mRNA-miRNA signatures in TAs that may serve as biomarkers for BPD pathogenesis, a consequence of extreme prematurity.

2020-08-12 | GSE156055 | GEO

Tracheal aspirate transcriptomic and miRNA signatures of extreme premature birth with bronchopulmonary dysplasia

Project description:We analyzed mRNA profiles in tracheal aspirates from 53 newborns receiving invasive mechanical ventilation. Twenty-six infants were extremely preterm diagnosed with BPD and twenty-seven were term babies receiving invasive mechanical ventilation for elective procedure. Specific mRNA signatures in TAs may serve as potential biomarkers for extreme prematurity and BPD pathogenesis.

2020-11-08 | GSE156028 | GEO

Cord blood methylation profiles of bronchopulmonary dysplasia in preterm infants

Project description:Bronchopulmonary dysplasia (BPD) is a lung disease in premature infants characterized by impaired pulmonary development which persists into later life. While advances in neonatal care have improved survival rates of premature infants, cases of BPD haves been increased. Therapeutic options are limited for prevention and treatment. This study was designed to explore the relationship between gestational age (GA), birth weight and estímate blood cell-type composition in premature infants and to elucidate early epigenetic biomarkers associated with BPD. Cord blood DNA from preterm neonates that went on to develop BPD (n = 14) or not (nonBPD, n = 93) was applied to Illumina 450K methylation arrays. Using DNA methylation analysis of cord blood DNA, we investigated association of GA and birth weight with the estimated distribution of cord blood cell types, particularly the nucleated red blood cell (NRBC) in a pilot-size cohort of preterm infants with or without BPD. We describe changes in methylation-based estimates of blood cell-type composition in relation to GA and birth weight. After adjusting for covariates (GA, birth weight, cell type proportions, etc.) we identify differentially methylated CpGs and genes associated with BPD.

2022-05-05 | GSE188949 | GEO

Epigenome-wide association study on peripheral blood DNA of bronchopulmonary dysplasia in preterm infants

Project description:Bronchopulmonary dysplasia (BPD) is a lung disease in premature infants characterized by impaired pulmonary development which persists into later life. While advances in neonatal care have improved survival rates of premature infants, cases of BPD haves been increased. Therapeutic options are limited for prevention and treatment. This study was designed to explore the relationship between gestational age (GA), birth weight and estímate blood cell-type composition in premature infants and to elucidate early epigenetic biomarkers associated with BPD. Peripheral blood DNA (at days 14 and 28) from preterm neonates that went on to develop BPD (n = 14) or not (nonBPD, n = 93) was applied to Illumina EPIC methylation arrays. Using DNA methylation analysis of cord blood DNA, we investigated association of GA and birth weight with the estimated distribution of cord blood cell types, particularly the nucleated red blood cell (NRBC) in a pilot-size cohort of preterm infants with or without BPD. We describe changes in methylation-based estimates of blood cell-type composition in relation to GA and birth weight. After adjusting for covariates (GA, birth weight, cell type proportions, etc.) we identify differentially methylated CpGs and genes associated with BPD at different time points.

2023-07-05 | GSE225313 | GEO

Genome wide gene expression during lung development in three inbred mouse strains

Project description:To better understand the temporal dynamics of gene expression during normal murine lung development we characterized global gene expression at 26 time points in three common inbred strains of mice (A/J, C57BL/6J, and C3H/HeJ). The data set provides a unique resource for identifying patterns of gene expression changes during normal lung development and for investigating the developmental origins of respiratory disease. The transcriptional profiles generated for lung development in three inbred strains of the laboratory mouse revealed concordance with pre-natal stages of lung development defined by anatomy and morphology. The genomic data support the view that the postnatal alveolar development is composed of 4 distinct molecular stages. The data revealed strain specific differences in the expression of genes related to respiratory cell differentiation, pulmonary innervation, metabolic pathway interactions, and immune system function. Mouse lungs or whole embryos (e09.5 only) were surgically dissected at 26 time points across all six canonical stages of lung development (embryonic-EMB, pseudoglandular-PSG, canalicular-CAN, saccular-SAC, alveolar-ALV, homeostatic-HOM) to identify transcriptional profiles associated with 9 molecular divisions of lung development (embryonic-EMB, pseudoglandular-PSG, canalicular-CAN, saccular-SAC, alveolar1-ALV1, alveolar2-ALV2, alveolar3-ALV3, alveolar4-ALV4, homeostatic-HOM). Lung tissue from three or four embryos collected at e11.5 or e12.5, respectively, was pooled for each sample to obtain sufficient RNA for array analysis. Tissue from at least three animals was collected for each time point (biological replicates). Only male mice were used in the study.

2016-07-01 | E-GEOD-74243 | biostudies-arrayexpress

Proteome analysis of a human donor cohort to study bronchopulmonary dysplasia

Project description:Bronchopulmonary Dysplasia (BPD) is a disease of prematurity related to the arrest of normal lung development. The objective of this study was to perform whole lung proteomics to identify proteins and pathways differentially regulated in BPD in early childhood. The proteomes of biopsies from pediatric human donors aged 1.3 to 3 years were classified based on history of prematurity and histopathologic severity of "Healed" BPD [hBPD] (N=3) and "Established" BPD [eBPD] (N=3) with respective full term age-matched controls (N=6). Samples were analyzed using aTMT16plex labelling strategy. Code employed to perform the statistics is available at https://github.com/GeremyClair/Proteome_analysis_of_a_human_donor_cohort_to_study_bronchiopulmonary_displasia

2023-03-15 | MSV000091493 | MassIVE

miRNA expression in tracheal aspirates in mild/moderate and severe BPD

Project description:Extreme preterm infants are a growing population in neonatal intensive care units who carry a high mortality and morbidity. Multiple factors play a role in preterm birth, resulting in major impact on organogenesis leading to complications including bronchopulmonary dysplasia (BPD). The goal of this study was to identify biomarker signatures associated with BPD severity. We analyzed profiles in tracheal aspirates (TAs) from 25 extremely preterm infants receiving invasive mechanical ventilation. Eight infants were diagnosed with mild/moderate BPD, and 17 were diagnosed with severe BPD, according to the NHLBI consensus conference classification . We found specific miRNA signatures in TAs that may serve as biomarkers for BPD severity.

2021-01-30 | GSE165828 | GEO

miRNA expression in tracheal aspirates [sBPD, BPD-PH]

Project description:Extreme preterm infants are a growing population in the neonatal intensive care unit. Multiple factors play a role in preterm birth, resulting in complications including severe bronchopulmonary dysplasia (sBPD) without or with and pulmonary hypertension (BPD-PH). The goal of this study was to identify biomarker signatures associated with sBPD and BPD-PH. We analyzed profiles in tracheal aspirates (TAs) from 46 extremely preterm infants receiving invasive mechanical ventilation (25 sBPD, 21 BPD-PH) . We found specific miRNA signatures in TAs that may serve as biomarkers for the two disease phenotypes.

2022-06-01 | GSE205138 | GEO

Effect of hyperoxic exposure on neonatal lung cDCs expression

Project description:Bronchopulmonary dysplasia (BPD), a chronic pulmonary sequela of preterm birth, increases susceptibility to respiratory viral infection. Exposure to hyperoxia of neontal mice (a model of BPD) increases the number of activated, IL-12 producing lung CD103+ dendritic cells (DCs) and augments the inflammatory response to rhinovirus infection. We used microarray analysis to detail the effect of hyperoxia on the gene expression of the two main subsets of lung cDC, including CD103+ DCs and CD11bhi DC. We identified distinct up- and down-regulated genes in response to hyperoxia in both cDC subclasses.

2023-02-02 | GSE223701 | GEO

Monocyte signature as a predictor of chronic lung disease in the preterm infant

Project description:The early changes in innate immunity associated with BPD (bronchopulmonary dysplasia) development are incompletely understood. Transcriptome analyses from cord blood of preterm infants indicate a monocyte-centered, profibrotic signature at birth confirming TNFalpha as a critical upstream regulator for the development of BPD.

2023-02-22 | GSE225881 | 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