• Following this, the differentially expressed genes (DEGs) were included in Gene Ontology enrichment, and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway, protein‑protein interaction network and survival analyses. (cancerindex.org)
  • Two gene expression profiles (GSE12452 and GSE13597) containing 56 nasopharyngeal carcinoma samples and 13 normal control samples were analyzed to identify the differentially expressed genes. (oncotarget.com)
  • In conclusion, this study indicated that the identified differentially expressed genes and hub genes enrich our understanding of the molecular mechanisms of nasopharyngeal carcinoma, which could eventually translate into additional biomarkers to facilitate the early diagnosis and therapeutic approaches. (oncotarget.com)
  • From the transcriptome analysis in PBMCs, this multivariate model was significantly correlated with the gene signatures related to immune responses, such as CD8 T-cell activation/proliferation and proinflammatory immune responses, and 12 amino acid-related genes were differentially expressed between the high-risk and low-risk groups. (bmj.com)
  • 912, 2202, and 1227 genes were significantly differentially expressed between cases with self-reported T2D and controls in neurones, astrocytes, and endothelial cells respectively. (biomedcentral.com)
  • Additionally, we screened 739 differentially expressed genes (DEGs) between the C1 and C2. (biomedcentral.com)
  • Here, we aimed to identify proliferative hepatocytes from HCC and para-carcinoma tissues, detect differentially expressed genes between the two types of proliferative hepatocytes, and investigate their potential roles in aberrant proliferation. (biomedcentral.com)
  • Thus, based on the differentially expressed genes (DEGs) of mitophagy-related tumor classification, we established a 13-gene signature and robust nomogram for predicting BC prognosis, which can be beneficial for the diagnosis and treatment of BC. (aging-us.com)
  • In our analysis, we established a stable signature, including 13 genes, based on differentially expressed genes (DEGs) in mitophagy-related tumor classification. (aging-us.com)
  • In the previous report [1], our clinical research demonstrated the evidence of SARS-CoV-2 virion and virion part in number even 3 months after the first vaccination by Gene Ontology (GO) classification and functional enrichment analysis of differentially expressed genes (DEGs). (fortunejournals.com)
  • It was identified that the nuclear division cycle 80, cyclin B2 and topoisomerase 2‑α may serve important roles in adrenocortical tumor development. (cancerindex.org)
  • Cuproptosis is a newly discovered type of cell death in tumor, which is characterized by accumulation of intracellular copper leading to the aggregation of mitochondrial lipoproteins and destabilization of proteins. (biomedcentral.com)
  • Background Amino acid metabolism is essential for tumor cell proliferation and regulation of immune cell function. (bmj.com)
  • CellPhoneDB algorithm was applied to infer macrophage-tumor interaction networks, whereas pseudotime trajectory for dissecting cell evolution and dynamics. (biomedcentral.com)
  • Further, we uncovered several ligand-receptor pairs lining tumor cells and macrophages. (biomedcentral.com)
  • Together, our work deciphered a comprehensive single-cell atlas of the macrophage compartment of PDAC and provided novel macrophage-tumor interaction features with potential value in developing targeted immunotherapies and molecular diagnostics for predicting patient outcome. (biomedcentral.com)
  • Tumor cells reprogram the metabolic pathway to meet the bioenergetic, biosynthetic, and redox demands of malignant cells [ 2 ]. (biomedcentral.com)
  • Bioinformatic analyzing approaches were used to identified the over-expressed genes in prostate cancer tumor tissues from three GEO datasets. (biomedcentral.com)
  • Cancer cells emit sustained proliferative signals that activate progression of the cell cycle as well as support the formation and growth of tumor tissue. (biomedcentral.com)
  • A common deleted region (CDR) in both myelodysplastic syndromes (MDS) and myeloproliferative neoplasms (MPN) affects the long arm of chromosome 20 and has been predicted to harbor a tumor suppressor gene. (elifesciences.org)
  • have uncovered a key tumor suppressor among those genes frequently lost on chromosome 20. (elifesciences.org)
  • The modified cells are able to expand more robustly than normal cells, and this dominance induced by downregulation of the tumor suppressor increases the risk of malignancy. (elifesciences.org)
  • In addition to revealing a new tumor suppressor gene and its contribution to myeloid malignancies, the study by Heinrichs et al. (elifesciences.org)
  • highlights the importance of gene dosage in mediating the effects of tumor suppressors. (elifesciences.org)
  • TTFields can induce a number of biological responses, including mitotic catastrophe, to kill cancer cells by targeting polarizable intracellular molecules. (conditionmed.org)
  • Functional and pathway enrichment analysis showed that up-regulated genes were significantly involved in cell cycle, oocyte meiosis, DNA replication and p53 signaling pathway, while down-regulated genes were enriched in Huntington's disease,metabolic pathways. (oncotarget.com)
  • Impaired insulin signalling was shared by neurovascular unit cells with, additionally, apoptotic pathway changes in astrocytes and dysregulation of advanced glycation end-product signalling in endothelial cells. (biomedcentral.com)
  • We identified two metabolic phenotypes based on genes of the Trp metabolism pathway, and we established a risk model that could be used for predicting prognosis and guiding immunotherapy in patients with hepatocellular carcinoma. (biomedcentral.com)
  • IDO1 is the most studied and regulates immune cell function through the KYN pathway, and treatment combining immune checkpoint inhibitors (ICIs) with IDO1 blockade tends to inhibit tumour growth. (biomedcentral.com)
  • In this study, we used genes of the Trp metabolism pathway to identify stable metabolic phenotypes by consensus clustering. (biomedcentral.com)
  • Currently, there are 49 genes in SZGR 2.0 (with evidence in schizophrenia) that are present at this pathway. (uth.edu)
  • Interestingly, GSEA enrichment analysis of GO, KEGG, and Hallmark gene sets showed that the biological processes and pathways associated with ECM and collagen binding in the high-risk group were significantly enriched. (biomedcentral.com)
  • WEE1 G2 checkpoint kinase [Source:HGNC Sym. (gsea-msigdb.org)
  • Dacomitinib is an irreversible epidermal growth factor receptor (EGFR) tyrosine kinase inhibitor indicated for the treatment of patients with advanced non-small cell lung cancer (NSCLC) and EGFR-activating mutations. (preprints.org)
  • In this study, we developed a novel prognostic model for hepatocellular carcinoma based on cuproptosis-related genes that can effectively predict the prognosis of LIHC patients. (biomedcentral.com)
  • We identified both gene and protein markers for three temporally distinct ProSG cell subsets, including a migratory cell population with a transcriptome distinct from the previously defined T1- and T2-ProSG stages. (biologists.com)
  • Herein, we developed an insilico computational method incorporating bulk and single-cell transcriptome profiling to characterize macrophage heterogeneity. (biomedcentral.com)
  • First, in this study, metabolism-related differential expressed genes DEGs with prognostic value in BCa were determined. (biomedcentral.com)
  • We downloaded Trp metabolism-related genes' expression data from different public databases, including TCGA, Gene Expression Omnibus (GEO) and Hepatocellular Carcinoma Database (HCCDB). (biomedcentral.com)
  • Expression profiles analysis identifies the values of carcinogenesis and the prognostic prediction of three genes in adrenocortical carcinoma. (cancerindex.org)
  • However, the prognostic model of LIHC based on cuproptosis-related genes has not been reported. (biomedcentral.com)
  • We then extracted the expression of cuproptosis-related genes and established a prognostic model by lasso cox regression analysis. (biomedcentral.com)
  • Then, the prognostic model and the expression levels of the three genes were validated using the dataset from GEO. (biomedcentral.com)
  • Using lasso cox regression analysis, we developed a prognostic risk model based on three cuproptosis-related genes (GCSH, LIPT1 and CDKN2A). (biomedcentral.com)
  • Nevertheless, the prognostic and therapeutic value of metabolic-associated genes in BCa patients has not been fully elucidated. (biomedcentral.com)
  • In the current study, we first analyzed metabolism-associated prognostic DEG genes in bladder cancer, then constructed and validated a new signature across multiple datasets, and finally explored the prognostic value of the model and its relationship with the clinicopathological features, immune microenvironment, and the therapeutic effect of chemotherapy agent and immunotherapy of patients with BCa. (biomedcentral.com)
  • The term "oncotarget" encompasses all molecules, pathways, cellular functions, cell types, and even tissues that can be viewed as targets relevant to cancer as well as other diseases. (oncotarget.com)
  • Furthermore, Module analysis revealed that the ten hub genes except TOP2A were belonged to module 1, indicating the upregulation of these hub genes associated molecular pathways in nasopharyngeal carcinoma might activate nasopharyngeal carcinoma pathogenesis. (oncotarget.com)
  • Changes in cortical neurones included alterations in insulin and other signalling pathways, cell cycle, cellular senescence, inflammatory mediators, and components of the mitochondrial respiratory electron transport chain. (biomedcentral.com)
  • We also molecularly defined the development of Sertoli, Leydig and peritubular myoid cells during the perinatal period, allowing us to identify candidate signaling pathways acting between somatic and germ cells in a stage-specific manner during the perinatal period. (biologists.com)
  • Notably, exposure of cancer cells to TTFields has been shown to result in immunogenic cell death, which is reflected by damage-associated molecular patterns and the formation of micronuclei that further activate DNA sensor-related inflammatory pathways, indicating the immunomodulatory role for TTFields. (conditionmed.org)
  • Mechanistically, lncRNAs have been characterized as sponges with microRNAs (miRNAs) or circular RNAs (circRNAs) and act as competing endogenous RNAs (ceRNAs) to reduce the regulation of their target genes [ 15 ]. (biomedcentral.com)
  • We verified the mRNA expression change of the potential target genes, which showed that andrographolide noticeably suppressed the increase of CASP1, CCL5, JAK2 and STAT1 post RSV infection. (researchsquare.com)
  • Using single-cell RNA sequencing (RNAseq), we studied the development of ProSG, their SG descendants and testicular somatic cells during the perinatal period in mice. (biologists.com)
  • An individual T-cell has a specific complementarity-determining region 3 (CDR3) of T cell receptor (TCR)-α and -β, which is a result of the recombination of somatic TCR V-(D)-J genes and junction diversity. (nature.com)
  • Two distinct subtypes of LIHC were identified based on cuproptosis-related genes, with different prognosis and immune characteristics. (biomedcentral.com)
  • The top 14 hub genes were subsequently confirmed by reverse transcription‑quantitative polymerase chain reaction in ACC and adrenocortical adenoma samples. (cancerindex.org)
  • Subsequently, Kaplan-Meier (K-M) and receiver operating characteristic (ROC) analyses were performed to demonstrate the predictive power of our gene signature. (aging-us.com)
  • Copper plays an important role in cells as a catalytic cofactor for essential enzymes involved in energy conversion, oxygen transport, and regulation of oxidative metabolism in cells [ 7 ]. (biomedcentral.com)
  • The limited changes in gene regulation suggest that individuals have reduced genome plasticity to tolerate thermal fluctuations and consequently may not have enough energy to repair damage and resume cellular homeostasis at extreme temperatures. (frontiersin.org)
  • Mitochondria are important cellular organelles that perform many different functions, from cell death regulation and energy generation to immune responses and fatty acid oxidation [ 10 , 11 ]. (aging-us.com)
  • Notely, the model was also significantly correlated with drug sensitivity, immune cell infiltration, and immunotherapy efficacy prediction by the wilcox rank test and chi-square test. (biomedcentral.com)
  • Additionally, in the IMvigor210, GSE111636, GSE176307, or our Truce01 (registration number NCT04730219) cohorts, the expression levels of multiple model genes were significantly correlated with objective responses to anti-PD-1/anti-PD-L1 immunotherapy. (biomedcentral.com)
  • Notably, as in vitro experiments indicated, TAM-derived HBEGF promoted proliferation and invasion of the pancreatic cancer cell line. (biomedcentral.com)
  • This gene is localized to chromosome 20 and has pseudogenes which reside on chromosomes 1 and 22. (cancerindex.org)
  • The identified DEGs included 20 downregulated genes and 51 upregulated genes, which were highly associated with the cell cycle, organelle fission, chromosome segregation, cell division and spindle stability. (cancerindex.org)
  • Many individuals affected by these disorders possess a shortened form of chromosome 20 that lacks a number of genes. (elifesciences.org)
  • This deletion is only ever seen in one of their two copies of the chromosome-suggesting that at least some of these genes are essential for survival-but the identity of the gene(s) that are associated with the increased risk of myeloid malignancies is unknown. (elifesciences.org)
  • Dimensionality reduction classified seven clusters within the myeloid cells wherein five subsets of macrophages were characterized by diverse cell states and functionality. (biomedcentral.com)
  • Based on the 7 immune infiltration algorithm, we found that Neutrophils, Myeloid dendritic cells, M2 macrophages, Cancer-associated fibroblasts, etc., were more concentrated in the high-risk group. (biomedcentral.com)
  • 2) a subset of macrophages expressing SLC40A1 and genes reacting to various infections is present in para-carcinoma but not in HCC tissue. (biomedcentral.com)
  • In addition, a subset of macrophages expressing SLC40A1 and genes reacting to various infections was absent in HCC tissue. (biomedcentral.com)
  • The analyzed gene datasets were downloaded from the Gene Expression Omnibus and The Cancer Genome Atlas (TCGA) database. (cancerindex.org)
  • Furthermore, these three genes predicted overall survival and recurrence‑free survival in patients with ACC from the TCGA cohort. (cancerindex.org)
  • The Warburg effect shows that a unique metabolic phenotype was identified for cancer cells, featuring that compared to normal tissues, they are characterized by a high rate of glycolytic metabolism. (biomedcentral.com)
  • However, the clinical significance of free amino acids (plasma-free amino acids (PFAAs)) and tryptophan-related metabolites in plasma has not been fully understood in patients with non-small cell lung cancer (NSCLC) who receive immune checkpoint inhibitors. (bmj.com)
  • Peripheral blood samples were collected from 53 patients with NSCLC before treatment with PD-1 (Programmed cell death-1) inhibitors. (bmj.com)
  • This gene encodes a DNA topoisomerase, an enzyme that controls and alters the topologic states of DNA during transcription. (cancerindex.org)
  • Search the gene expression profiles from curated DataSets in the Gene Expression Omnibus (GEO) repository. (cancerindex.org)
  • Gene expression in peripheral blood mononuclear cells (PBMCs) was compared between the high-risk and low-risk patients by this multivariate model. (bmj.com)
  • We found that the more thermally tolerant population had greater plasticity of gene expression and had significantly more downregulated genes, which may provide more energy to repair damage associated with thermal stress and to maintain basic functions at these extreme temperatures. (frontiersin.org)
  • In contrast, the thermally sensitive population exhibited higher basal levels of heat shock proteins and had three times fewer changes in gene expression overall. (frontiersin.org)
  • Hub genes identified from Weighted Gene Co-expression Network Analysis were validated in neurones using the NanoString nCounter platform. (biomedcentral.com)
  • The expression and cellular localisation of proteins encoded by selected candidate genes were confirmed by immunohistochemistry. (biomedcentral.com)
  • Here we show the features of repertoire diversity and the gene expression profile of HLA-A24 cytomegalovirus-specific cytotoxic T-cells in actual recipients according to the cytomegalovirus reactivation pattern. (nature.com)
  • Single-cell RNA-sequence analyses demonstrate the homogenous distribution of the gene expression profile in individual cytomegalovirus-specific cytotoxic T-cells within each recipient. (nature.com)
  • On the other hand, bulk RNA-sequence analyses reveal that gene expression profiles among patients are different according to the cytomegalovirus reactivation pattern, and are associated with cytokine production or cell division. (nature.com)
  • However, little information is available on the gene expression profile (GEP) of CMV-CTL clones according to CMV reactivation patterns (and donor CMV serostatus) after allo-HCT. (nature.com)
  • Finally, the expression of interested model genes were verified in 10 pairs of BCa tissues and para-carcinoma tissues by the HPA and real-time fluorescent quantitative PCR. (biomedcentral.com)
  • We also confirmed the mRNA and protein expression of interested model-related genes from the Human Protein Atlas (HPA) and 10 paired BCa tissues collected by us. (biomedcentral.com)
  • Gene expression profiles of individual cells in HCC and para-carcinoma tissues can be effectively obtained using the single-cell RNA sequencing (scRNA-Seq) technique. (biomedcentral.com)
  • Gene expression profiles between the two types of proliferative hepatocytes were compared. (biomedcentral.com)
  • The ability to distinguish proliferative hepatocytes from hepatocellular carcinoma (HCC) and normal liver tissues and comparison of their gene expression profiles will aid us in understanding the mechanisms underlying aberrant proliferative signaling in malignant cells. (biomedcentral.com)
  • By 6 months post-transplantation, the reconstituted mice had developed a clonal myeloproliferative/myelodysplastic disorder originating from the cells with aberrantly reduced Mybl2 expression. (elifesciences.org)
  • Myeloid malignancy patients lacking one copy of this gene showed levels of MYBL2 expression that were less than 50% of those in healthy individuals. (elifesciences.org)
  • This suggests that additional mechanisms must be acting to reduce expression of their remaining copy of the gene. (elifesciences.org)
  • Hence, this finding reveals a more general role for MYBL2 as it indicates that more patients are likely to be affected by altered expression of this gene. (elifesciences.org)
  • used gene silencing techniques to reduce the expression of MYBL2 in mice and showed that this induced symptoms of myeloid malignancies in the animals. (elifesciences.org)
  • CiErk1/2 also induced expression of matrix metalloproteinase (CiMMP2/9/13) in the oocyte, resulting in collagen degradation in the outer follicular cell layer and liberation of fertile oocytes from the ovary. (elifesciences.org)
  • What does this gene/protein do? (cancerindex.org)
  • LncRNAs are a class of ncRNAs that are more than 200 nucleotides in length, and although lncRNAs do not possess protein-coding capability, they play vital roles in modulating protein-coding genes at the transcriptional or posttranscriptional level [ 10 , 11 ]. (biomedcentral.com)
  • Neurone, astrocyte, and endothelial cell-enriched mRNA, obtained by immuno-laser capture microdissection of temporal cortex (Brodmann area 21/22) from 6 cases with self-reported T2D in the Cognitive Function and Ageing Study neuropathology cohort, and an equal number of age and sex-matched controls, was assessed by microarray analysis. (biomedcentral.com)
  • We identified three undifferentiated SG subsets at postnatal day 7, each of which expresses distinct genes, including transcription factor and signaling genes. (biologists.com)
  • The gene, which is called MYBL2 , encodes a transcription factor that helps to control the cell division cycle. (elifesciences.org)
  • Two respective gene signatures for proliferative cells and hepatocytes were established and used to identify proliferative hepatocytes from HCC and para-carcinoma tissues based on scRNA-Seq data. (biomedcentral.com)
  • Healthy tissues carefully control their cell growth and division cycle and ensure cell number homeostasis, which preserves tissue architecture and function. (biomedcentral.com)
  • Abnormalities in this process lead to a group of diseases known as myeloid malignancies, which include acute myeloid leukaemia-in which the bone marrow produces abnormal white blood cells-and myelodysplastic syndromes, which are caused by too few mature blood cells being produced. (elifesciences.org)
  • A skewed preference for BV7 genes and sequential "G" amino acids motif is observed in complementarity-determining region-3 of T cell receptor-β. (nature.com)
  • We generated a ten-gene risk model based on the DEGs, and the area under the curve (AUC) values of the risk model for predicting overall survival. (biomedcentral.com)
  • Search results: The pahtway p1655 has 87 genes in the original annotation. (uth.edu)
  • Hence, it is of great importance to investigate the mechanisms that induce enzalutamide resistance in prostate cancer cells. (biomedcentral.com)
  • In addition, SNHG4 or RRM2 knockdown significantly induced cell cycle arrest and cell senescence, and inhibited DNA damage repair and cell proliferation, and the effects can be partially reversed by let-7a knockdown or RRM2 reoverexpression. (biomedcentral.com)
  • In a murine competitive reconstitution model, Mybl2 knockdown by RNAi to 20-30% of normal levels in multipotent hematopoietic progenitors resulted in clonal dominance of these 'sub-haploinsufficient' cells, which was reflected in all blood cell lineages. (elifesciences.org)
  • These methods and results can help us to better understand immune reconstitution following hematopoietic cell transplantation, leading to future studies on the clinical application of adoptive T-cell therapies. (nature.com)
  • This study aimed to identify gene signatures of nasopharyngeal carcinoma and uncover potential mechanisms. (oncotarget.com)
  • Senescence-associated β-Gal assay was used to detect the cell senescence level. (biomedcentral.com)
  • epithelial cell transforming 2 [Source:HGN. (gsea-msigdb.org)
  • Then, using online databases, we discovered 25 potential targets of andrographolide in the treatment of RSV-infected airway epithelial cells. (researchsquare.com)
  • These results suggested that andrographolide might attenuate RSV-induced inflammation by suppressing apoptosis and promoting pyroptosis of infected epithelial cells and thus inducing effective viral clearance. (researchsquare.com)
  • Blood cells are produced within bone marrow by specialized stem cells and progenitor cells. (elifesciences.org)
  • We previously established a direct single-cell analysis to simultaneously identify and quantify in vivo CMV-CTL clones after allo-HCT 9 , 10 . (nature.com)
  • Increased binding scores are observed in T-cell clones with complementarity-determining region-3 of T cell receptor-β with a "(G)GG" motif. (nature.com)
  • Based on previous reports, we found that HAMP modulates cell proliferation through interaction with its receptor SLC40A1 . (biomedcentral.com)
  • Mitophagy is critical for cellular homeostasis, and cells can eliminate dysfunctional mitochondria or reduce mitochondrial numbers via the mitophagy mechanism [ 8 , 9 ]. (aging-us.com)
  • The authors investigated the methylation profiles of DNA in peripheral blood cells from 18 patients with first-episode schizophrenia (FESZ) and from 15 normal controls. (uth.edu)
  • Thus, building a novel gene signature and clarifying the potential mechanisms in BC patients are critically needed. (aging-us.com)
  • Meiosis in animal oocytes is arrested at prophase of the first division (ProI). (elifesciences.org)
  • Mature oocytes become fertilizable, and their meiosis is arrested again at a species-specific stage: metaphase of the first division (MetI, many invertebrates), metaphase of the second division (MetII, most vertebrates), or G1-phase (some echinoderms and coelenterates) until fertilization. (elifesciences.org)
  • In this study, we investigated the transcriptomic changes in cortical neurones, and associated astrocytes and endothelial cells of the neurovascular unit, in the ageing brain. (biomedcentral.com)