Integrative analysis of lncRNA and mRNA and profiles in postoperative delirium patients
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ABSTRACT:
PROVIDER: PRJNA688295 | ENA |
REPOSITORIES: ENA
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Project description:Delirium is a common serious complication that often occurs after major surgery. However, there is little known about the function of long non-coding RNAs (lncRNAs) in postoperative delirium (POD). The goals of this study were to explore the expression profiles and functional networks of lncRNAs and mRNAs in patients of POD.
2021-06-09 | GSE163943 | GEO
Project description:Delirium is a common postoperative complication among older patients with many adverse outcomes. Due to lack of validated biomarkers, prediction and monitoring of delirium by biological testing is not currently feasible. Circulating proteins in cerebrospinal fluid (CSF) may reflect biological processes causing delirium. Our goal was to discover and investigate candidate protein biomarkers in preoperative CSF that were associated with development of postoperative delirium in older surgical patients. We employed a nested case–control study design coupled with high multiplex affinity proteomics analysis to measure 1305 proteins in preoperative CSF. Twenty-four matched delirium cases and non-delirium controls were selected from the Healthier Postoperative Recovery (HiPOR) cohort and the associations between preoperative protein levels and postoperative delirium were assessed using t-test statistics with further analysis by systems biology to elucidate delirium pathophysiology. Proteomics analysis identified 32 proteins in preoperative CSF that significantly associate with delirium (t-test p<0.05). Due to the limited sample size these proteins did not remain significant by multiple hypothesis testing using the Benjamini-Hochberg correction and q-value method. Three algorithms were applied to separate delirium cases from non-delirium controls. Hierarchical clustering classified 40/48 case-control samples correctly, principal components analysis separated 43/48. The receiver operating characteristic curve yielded an area under the curve [95% confidence interval] of 0.91 [0.80-0.97]. Systems biology analysis identified several key pathways associated with risk of delirium: inflammation, immune cell migration, apoptosis, angiogenesis, synaptic depression and neuronal cell death. Proteomics analysis of preoperative CSF identifies 32 proteins that might discriminate individuals who subsequently develop postoperative delirium from matched control samples. These proteins are potential candidate biomarkers for delirium and may play a role in its pathophysiology.
2023-09-09 | GSE242736 | GEO
Project description:Postoperative delirium (POD) is a common postoperative complication in elderly patients. The exact mechanism of POD is still unclear. In order to reveal the effect of CircRNA on POD, We analyzed the differential expression profile of circRNAs by microarray technique in hippocampus of 12-month-old mice between tibial fracture and control group.
2021-12-16 | GSE190880 | GEO
Project description:Delirium is a common serious complication that often occurs after major surgery. The goals of this study were to explore the expression profiles and functional networks of long non-coding RNAs (lncRNAs) and mRNAs in patients of postoperative delirium (POD). Microarray analysis was performed on the peripheral blood samples to identify differentially expressed (DE) lncRNAs and mRNAs in 4 POD patients and 4 non-POD volunteers. DE lncRNAs and mRNAs were validated by quantitative reverse transcription PCR (RT-qPCR). Bioinformatic analyses were performed to identify the critical biological functions and signaling pathways involved in POD. A total of 1195 DE lncRNAs and 735 DE mRNAs were identified between the POD and non-POD groups. Verified by the RT-qPCR, we identified 14 DE lncRNAs that may relate to the pathogenesis of POD. These 14 DE lncRNAs play important regulatory roles in "glutamate and 5-hydroxytryptamine," "synaptotagmin 7," "transient receptor potential channel," "interleukin-2 production." There was a regulatory relationship between lncRNA ENST00000530057 and synaptotagmin (Syt) 7 mRNA. The mRNA level of PCLO was up-regulated in POD group. This study showed abundant DE lncRNAs and mRNAs in POD that might help in deciphering the disease pathogenesis.
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Project description:The role of genomics in postoperative delirium and sedation
| PRJNA671358 | ENA
Project description:Identification of the Potential Key circRNAs in Aged Mice With Postoperative Delirium
| PRJNA788868 | ENA
Project description:Aptamer-Based Proteomics Measuring Preoperative Cerebrospinal Fluid Protein Alterations Associated with Postoperative Delirium
| PRJNA1014433 | ENA
Project description:Characteristics of immunity system in postoperative delirium patients by single-cell transcriptomic analysis
| PRJNA1061208 | ENA
Project description:Background: Postoperative delirium (POD) is the most complication after cardiac surgery, and associated with increased mortality and decreased long term cognition ability. Our study aimed to explore the characteristics of immunity system in POD patients. Methods: This prospective study included patients scheduled for selective on-pump cardiac surgeries, who were divided into Non-POD and POD group according to whether POD occurred within 30 days after surgery. Multi-channel spectral flow cytometry, single-cell sequencing and plasma cytokines measurement were performed to describe the characteristics of immunity system in POD patients before surgery and at 24 hours after surgery. Results: A total of 120 patients were included, and 12 were diagnosed as POD within 30 days after surgery. T cells and B cells were activated in POD patients before and after surgery, and the upregulation of related genes contributed to the activation of chemotaxis in GZMK+ CD8+ T cells and memory B cells, which was confirmed by the elevation of CCL3 and CXCL8 concentration in plasma and the increased expression of chemotaxis related ligands-receptors pairs (CCL16_CCR1 and CXCL13_CXCR5). The inflammation response was enhanced in CD4+ T cells, which was confirmed by the activation of many cytokines related pathways and increased plasma level of IL-17 and IL-4 in POD patients before and after surgery. In monocytes, antigen presentation process and complement response were enhanced in POD patients before and after surgery, which was confirmed by the increased relative abundance of antigen presentation related surface markers (CD80, HLA-DR), activation of gene sets related to antigen binding and complement activation, and increased expression of related ligands-receptors pair (HLA-A_KIR3DL1 and C3_C3AR1).
2025-12-04 | GSE252572 | GEO
Project description:Systems biology approaches can help understand pathogenesis of complex human diseases like cancers for identification of potential new therapeutic targets. Here in this study, we performed genome-wide screening for mRNA and lncRNA profiles in esophageal cancer to identify the novel cancer-related mRNA and lncRNA in esophageal squamous cell carcinoma (ESCC). We identified 3000 up-regulated/2517 down-regulated mRNAs and 402 up-regulated/741 down-regulated lncRNAs. Further functional analysis revealed differentially expressed genes (DEGs) of mRNA and lncRNA are related to different pathways. mRNA pathways are mainly involved in cell cycles while lncRNA pathways are for regulation and metabolic procession. Differentially expressed mRNAs/lncRNAs were validated with qPCR. At last, mRNA and lncRNA co-expression network were built and highly-connected networks were identified, which may provide a mechanism of mRNA expression regulation by lncRNA. To our knowledge, this is the first study to explore the co-expression networks and the lncRNA-mRNA networks could be therapeutic targets for ESCC treatments.
2019-02-23 | GSE111011 | GEO