Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Cardiopulmonary bypass with deep hypothermic circulatory arrest results in organ-specific transcriptomic responses in pediatric swine

ABSTRACT: The organ-level molecular response to cardiac surgery with cardiopulmonary bypass (CPB) remains inadequately understood and may be heterogeneous. Here, we measured organ-specific gene expression in a piglet model of CPB with deep hypothermic circulatory arrest (DHCA). Infant piglets underwent peripheral CPB with 75 min of DHCA and 6 h of critical care after separation from CPB. Mechanically ventilated animals served as controls. Tissue was obtained from the lung, kidney, liver, heart, and ileum. RNA sequencing was performed using NovaSeq 6000 and evaluated via differentially expressed gene (DEG) and pathway/network analyses. CPB/DHCA induced significant transcriptomic alterations, with greater changes seen in liver (2,166 DEGs), heart (775 DEGs), and kidney (1,759 DEGs) compared to lung (401 DEGs) and ileum (11 DEGs), and little overlap across organs (<20 % differentially expressed in >1 organ). Key upregulated systems included ribosomal proliferation and mitochondrial assembly in the liver, oxidative stress response and proximal tubular repair in the kidney, myofilament structural genes and pro-hypertrophy pathways in the heart, and solute channels and arginine metabolism in the lung. Downregulation of adaptive immunity genes occurred in multiple organs. Transcriptomics could inform the investigation of targeted therapies and adverse event screening after cardiac surgery.

ORGANISM(S): Sus scrofa

PROVIDER: GSE294547 | GEO | 2025/04/15

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

E-MTAB-4644

Project description:Transcription profiling by high throughput sequencing of mouse brain, heart, kidney, liver, lung, skeletal muscle organ, spleen and testis

2016-05-13 | E-MTAB-4644 | ExpressionAtlas

Survey of organ-specific protein markers in small extracellular vesicles and particles (sEVPs) in mouse serum

Project description:Extracellular vesicles and particles (EVPs) are secreted by organs for proteome analysis. sEVPs produced by six major organs (brain, liver, lung, heart, kidney, fat). We found that each organ contained distinctive sEVP proteins: 68 proteins were specifically found in brain sEVPs, 194 in liver, 39 in lung, 15 in heart, 29 in kidney, and 33 in fat.

2023-05-02 | MSV000091839 | MassIVE

The mouse multi-organ proteome from infancy to adulthood

Project description:The early-life organ development and maturation process shapes the fundamental blueprint for later-life phenotype. However, the proteome atlas of self-multi-organs from infancy to adulthood is currently not available. Herein, we present a comprehensive proteomic analysis of ten mice organs (brain, heart, lung, liver, kidney, spleen, stomach, intestine, muscle and skin) acquired from the same individuals at three essential developmental stages (1-week, 4-week and 8-week after birth) by data-independent acquisition mass spectrometry.

2024-05-02 | PXD041400 | Pride

RBPs proteome in HEK293 cells, mESCs and mouse organs

Project description:Identification of RBPs proteome in HEK293 cells, mouse embryonic stem cells (mESCs) and adult mouse primary organs (brain, heart, lung, kidney, liver)

2024-08-26 | PXD037105 | Pride

Multi-organ single cell analysis of a mouse model of collagen-induced arthritis [subseries2]

Project description:Prioratization of disease associated mechanisms in immune-mediated inflammatory diseases (IMIDs) is complicated by altered interactions across multiple organs and cell types. We have adressed these challenges by analyzing a multi-organ multicellular disease model (MO-MCDM) of a mouse IMID model, namely collagen-induced arthritis (CIA). In this pilot study, we sequenced at least one healthy and one CIA sample from each of the ten organs, joint, lung, muscle, skin, spleen, blood, draining lymph nodes, thymus, liver, and kidney. Sequencing data from liver and kidney never reached our defined quality cut-off, and were thus excluded from further comparisions. Of the remaining organs, we found that joint, lung, muscle, skin, and spleen had the highest number of DEGs between CIA and healthy mice. We thus reason that these five organs shoult be most relevant to study disease associated changes on a systemic level, and prioritized those for further analyses.

2023-01-31 | GSE206654 | GEO

Transcriptome analysis defines ToF and ASD myocardial gene signatures and reveals disease-specific gene reprogramming upon surgery with cardiopulmonary bypass

Project description:Tetralogy of Fallot (ToF) and Atrial Septal Defects (ASD) are the most common types of congenital heart disease and a major cause of childhood morbidity and mortality. Cardiopulmonary bypass (CPB) is used during corrective cardiac surgery to support circulation and heart stabilization. However, this technique triggers systemic inflammatory and stress response and consequent increased risk of postoperative complications. The aim of this study was to define the molecular bases of ToF and ASD pathogenesis and response to CPB and identify new specific biomarkers. We conducted comparative transcriptome analysis of right atrial biopsies from 10 ToF and 10 ASD patients before (Pre-CPB) and after (Post-CPB) surgery. Pre-CPB samples showed significant differential expression of 72 genes (DEGs), 28 of which were overexpressed in ToF and 44 in ASD. According to Gene Ontology annotation, the mostly enriched biological processes were represented by matrix organization and cell adhesion in ToF and by muscle development and contractility in ASD specimens. GSEA highlighted the specific enrichment of known hypoxia gene sets in ToF samples, pointing to a role for hypoxia in disease pathogenesis. The post-CPB myocardium exhibited significant alterations in the expression profile of genes related to transcription regulation, growth/apoptosis, inflammation, cell adhesion/matrix organization, and oxidative stress. Among DEGs, only 70 were common to the two disease groups, whereas 110 and 24 were unique in ToF and ASD, respectively. Interestingly, gene expression changes in ASD samples followed a consensus hypoxia profile. These data define ToF- and ASD-specific myocardial transcriptional signatures and demonstrate differential gene reprogramming in response to CPB in the two pathologies, with potential prognostic and therapeutic implications.

2020-01-21 | GSE132176 | GEO

Transcription profiling of human blood from patients with acute kidney injury following open-heart surgery with cardiopulmonary bypass

Project description:Acute kidney Injury (AKI) following open-heart surgery with cardiopulmonary bypass (CPB) is associated with an increased morbidity and mortality. The goal of this study is to explore patterns of gene expression in human AKI following CPB. This prospective observational study was approved by the Institutional Review Board Human Subjects Committee. Design and methods: Peripheral blood RNA samples were collected prospectively from a cohort of 30 patients at Caritas St. Elizabeths Medical Center in Boston, MA, undergoing CPB at time points immediately prior, and two and 24 hours following CPB. Gene expression patterns of four patients who developed AKI (cases) following CPB will be compared with six patients matched for clinical characteristics, who did not develop AKI (controls). AKI was defined by an incremental increase in serum creatinine of 30% within 72 hours following CPB. For peripheral blood RNA sampling, 2.5 ml of venous whole blood was collected into PAXgene Blood RNA Tube collection tubes (PreAnalytiX GmbH, Hombrechtikon, CH). Whole blood RNA was extracted with the PAXgene Blood RNA extraction Kit according to the manufacturers instructions (PAXgene RNA Kit Handbook, 06/2005). All biological samples are stored at 80° C.

2009-12-12 | E-TABM-595 | biostudies-arrayexpress

Systematic identification of cell fate regulatory programs using a single-cell atlas of mouse development

Project description:We performed single-cell RNA sequencing (scRNA-seq) analysis to 10 mouse tissues belonging to seven age groups, ranging from early organ occurrence to mature adult stage (E10.5, E12.5, E14.5, neonatal, day 10, day 21 and adult), all together profiling in more than 500,000 cells. The profiled organs span diverse systems, including brain, heart, intestine, kidney, liver, lung, pancreas, stomach, testis and uterus.These data represent, to our knowledge, the first single-cell atlas of detailed mouse differentiation throughout development.

2022-04-10 | GSE176063 | GEO

E-MEXP-1504

Project description:Transcription profiling by array of liver, lung, spleen and kidney from young and old mice.

2014-08-16 | E-MEXP-1504 | ExpressionAtlas

Investigating ischemia and reperfusion-induced organ damage in severe cardiac arrest: A comprehensive proteomics perspective

Project description:Cardiac arrest (CA) is a life-threatening condition with complex pathophysiology and limited treatment options. To gain deeper insights into the pathological state of vital organs, we utilize cutting-edge proteomics analysis in rodents to evaluate the proteome dynamics of the brain, heart, kidney, and liver at the organ, organelle, and molecular levels following CA and resuscitation.

2023-06-28 | MSV000092303 | MassIVE

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