Base de dados : MEDLINE
Pesquisa : L01.313.500.750.300.188.400.300.500 [Categoria DeCS]
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  1 / 5305 MEDLINE  
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[PMID]:29220444
[Au] Autor:Chen X; Sun YZ; Zhang DH; Li JQ; Yan GY; An JY; You ZH
[Ad] Endereço:School of Information and Control Engineering, China University of Mining and Technology, Xuzhou 221116, China.
[Ti] Título:NRDTD: a database for clinically or experimentally supported non-coding RNAs and drug targets associations.
[So] Source:Database (Oxford);2017, 2017 Jan 01.
[Is] ISSN:1758-0463
[Cp] País de publicação:England
[La] Idioma:eng
[Ab] Resumo:Database URL: http://chengroup.cumt.edu.cn/NRDTD.
[Mh] Termos MeSH primário: Bases de Dados de Ácidos Nucleicos
Descoberta de Drogas
RNA Longo não Codificante/genética
[Mh] Termos MeSH secundário: Seres Humanos
[Pt] Tipo de publicação:JOURNAL ARTICLE
[Nm] Nome de substância:
0 (RNA, Long Noncoding)
[Em] Mês de entrada:1801
[Cu] Atualização por classe:180308
[Lr] Data última revisão:
180308
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:171209
[St] Status:MEDLINE
[do] DOI:10.1093/database/bax057


  2 / 5305 MEDLINE  
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[PMID]:29220434
[Au] Autor:Lefever S; Anckaert J; Volders PJ; Luypaert M; Vandesompele J; Mestdagh P
[Ad] Endereço:Center for Medical Genetics Ghent (CMGG), Ghent University, Ghent, Belgium.
[Ti] Título:decodeRNA- predicting non-coding RNA functions using guilt-by-association.
[So] Source:Database (Oxford);2017, 2017 Jan 01.
[Is] ISSN:1758-0463
[Cp] País de publicação:England
[La] Idioma:eng
[Ab] Resumo:Database URL: http://www.decoderna.org.
[Mh] Termos MeSH primário: Biologia Computacional/métodos
Bases de Dados de Ácidos Nucleicos
Anotação de Sequência Molecular/métodos
RNA Longo não Codificante
Análise de Sequência de RNA/métodos
[Mh] Termos MeSH secundário: Seres Humanos
Neoplasias/genética
Neoplasias/metabolismo
RNA Longo não Codificante/genética
RNA Longo não Codificante/fisiologia
[Pt] Tipo de publicação:JOURNAL ARTICLE
[Nm] Nome de substância:
0 (RNA, Long Noncoding)
[Em] Mês de entrada:1801
[Cu] Atualização por classe:180308
[Lr] Data última revisão:
180308
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:171209
[St] Status:MEDLINE
[do] DOI:10.1093/database/bax042


  3 / 5305 MEDLINE  
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[PMID]:28460482
[Au] Autor:Kim HY; Choi JW; Lee JY; Kong G
[Ad] Endereço:Department of Pathology, College of Medicine, Hanyang University, Seoul, Republic of Korea.
[Ti] Título:Gene-based comparative analysis of tools for estimating copy number alterations using whole-exome sequencing data.
[So] Source:Oncotarget;8(16):27277-27285, 2017 Apr 18.
[Is] ISSN:1949-2553
[Cp] País de publicação:United States
[La] Idioma:eng
[Ab] Resumo:Accurate detection of copy number alterations (CNAs) using next-generation sequencing technology is essential for the development and application of more precise medical treatments for human cancer. Here, we evaluated seven CNA estimation tools (ExomeCNV, CoNIFER, VarScan2, CODEX, ngCGH, saasCNV, and falcon) using whole-exome sequencing data from 419 breast cancer tumor-normal sample pairs from The Cancer Genome Atlas. Estimations generated using each tool were converted into gene-based copy numbers; concordance for gains and losses and the sensitivity and specificity of each tool were compared to validated copy numbers from a single nucleotide polymorphism reference array. The concordance and sensitivity of the tumor-normal pair methods for estimating CNAs (saasCNV, ExomeCNV, and VarScan2) were better than those of the tumor batch methods (CoNIFER and CODEX). SaasCNV had the highest gain and loss concordances (65.0%), sensitivity (69.4%), and specificity (89.1%) for estimating copy number gains or losses. These findings indicate that improved CNA detection algorithms are needed to more accurately interpret whole-exome sequencing results in human cancer.
[Mh] Termos MeSH primário: Biologia Computacional
Variações do Número de Cópias de DNA
Estudo de Associação Genômica Ampla
Neoplasias/genética
[Mh] Termos MeSH secundário: Algoritmos
Biologia Computacional/métodos
Bases de Dados de Ácidos Nucleicos
Estudo de Associação Genômica Ampla/métodos
Seres Humanos
Sensibilidade e Especificidade
Análise de Sequência de DNA
Software
Sequenciamento Completo do Exoma
[Pt] Tipo de publicação:JOURNAL ARTICLE
[Em] Mês de entrada:1803
[Cu] Atualização por classe:180305
[Lr] Data última revisão:
180305
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:170503
[St] Status:MEDLINE
[do] DOI:10.18632/oncotarget.15932


  4 / 5305 MEDLINE  
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[PMID]:29342219
[Au] Autor:Hassan MK; Kumar D; Naik M; Dixit M
[Ad] Endereço:School of Biological Sciences, National Institute of Science Education and Research, HBNI, Bhimpur- Padanpur, Jatni, Khurda, Odisha, India.
[Ti] Título:The expression profile and prognostic significance of eukaryotic translation elongation factors in different cancers.
[So] Source:PLoS One;13(1):e0191377, 2018.
[Is] ISSN:1932-6203
[Cp] País de publicação:United States
[La] Idioma:eng
[Ab] Resumo:Eukaryotic translation factors, especially initiation factors have garnered much attention with regards to their role in the onset and progression of different cancers. However, the expression levels and prognostic significance of translation elongation factors remain poorly explored in different cancers. In this study, we have investigated the mRNA transcript levels of seven translation elongation factors in different cancer types using Oncomine and TCGA databases. Furthermore, we have identified the prognostic significance of these factors using Kaplan-Meier Plotter and SurvExpress databases. We observed altered expression levels of all the elongation factors in different cancers. Higher expression of EEF1A2, EEF1B2, EEF1G, EEF1D, EEF1E1 and EEF2 was observed in most of the cancer types, whereas reverse trend was observed for EEF1A1. Overexpression of many factors predicted poor prognosis in breast (EEF1D, EEF1E1, EEF2) and lung cancer (EEF1A2, EEF1B2, EEF1G, EEF1E1). However, we didn't see any common correlation of expression levels of elongation factors with survival outcomes across cancer types. Cancer subtype stratification showed association of survival outcomes and expression levels of elongation factors in specific sub-types of breast, lung and gastric cancer. Most interestingly, we observed a reciprocal relationship between the expression levels of the two EEF1A isoforms viz. EEF1A1 and EEF1A2, in most of the cancer types. Our results suggest that translation elongation factors can have a role in tumorigenesis and affect survival in cancer specific manner. Elongation factors have potential to serve as biomarkers and therapeutic drug targets, yet further study is required. Reciprocal relationship of differential expression between EEF1A isoforms observed in multiple cancer types indicates opposing roles in cancer and needs further investigation.
[Mh] Termos MeSH primário: Neoplasias/genética
Elongação Traducional da Cadeia Peptídica/genética
Transcriptoma/genética
[Mh] Termos MeSH secundário: Transformação Celular Neoplásica
Bases de Dados de Ácidos Nucleicos
Seres Humanos
Estimativa de Kaplan-Meier
Elongação Traducional da Cadeia Peptídica/fisiologia
Fator 1 de Elongação de Peptídeos/genética
Fator 1 de Elongação de Peptídeos/metabolismo
Prognóstico
Biossíntese de Proteínas
Isoformas de Proteínas/metabolismo
[Pt] Tipo de publicação:JOURNAL ARTICLE
[Nm] Nome de substância:
0 (EEF1A1 protein, human); 0 (EEF1A2 protein, human); 0 (EEF1D protein, human); 0 (Peptide Elongation Factor 1); 0 (Protein Isoforms)
[Em] Mês de entrada:1802
[Cu] Atualização por classe:180226
[Lr] Data última revisão:
180226
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:180118
[St] Status:MEDLINE
[do] DOI:10.1371/journal.pone.0191377


  5 / 5305 MEDLINE  
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[PMID]:29372974
[Au] Autor:Tsybovskii IS; Veremeichik VM; Kotova SA; Kritskaya SV; Evmenenko SA; Udina IG
[Ti] Título:[Developing forensic reference database by 18 autosomal STR for DNA identification in Republic of Belarus].
[So] Source:Genetika;53(2):249-58, 2017 Feb.
[Is] ISSN:0016-6758
[Cp] País de publicação:Russia (Federation)
[La] Idioma:rus
[Ab] Resumo:For the Republic of Belarus, development of a forensic reference database on the basis of 18 autosomal microsatellites (STR) using a population dataset (N = 1040), "familial" genotypic dataset (N = 2550) obtained from expertise performance of paternity testing, and a dataset of genotypes from a criminal registration database (N = 8756) is described. Population samples studied consist of 80% ethnic Belarusians and 20% individuals of other nationality or of mixed origin (by questionnaire data). Genotypes of 12346 inhabitants of the Republic of Belarus from 118 regional samples studied by 18 autosomal microsatellites are included in the sample: 16 tetranucleotide STR (D2S1338, TPOX, D3S1358, CSF1PO, D5S818, D8S1179, D7S820, THO1, vWA, D13S317, D16S539, D18S51, D19S433, D21S11, F13B, and FGA) and two pentanucleotide STR (Penta D and Penta E). The samples studied are in Hardy­Weinberg equilibrium according to distribution of genotypes by 18 STR. Significant differences were not detected between discrete populations or between samples from various historical ethnographic regions of the Republic of Belarus (Western and Eastern Polesie, Podneprovye, Ponemanye, Poozerye, and Center), which indicates the absence of prominent genetic differentiation. Statistically significant differences between the studied genotypic datasets also were not detected, which made it possible to combine the datasets and consider the total sample as a unified forensic reference database for 18 "criminalistic" STR loci. Differences between reference database of the Republic of Belarus and Russians and Ukrainians by the distribution of the range of autosomal STR also were not detected, corresponding to a close genetic relationship of the three Eastern Slavic nations mediated by common origin and intense mutual migrations. Significant differences by separate STR loci between the reference database of Republic of Belarus and populations of Southern and Western Slavs were observed. The necessity of using original reference database for support of forensic expertise practice in the Republic of Belarus was demonstrated.
[Mh] Termos MeSH primário: Bases de Dados de Ácidos Nucleicos
Genética Forense/métodos
Loci Gênicos
Repetições de Microssatélites
[Mh] Termos MeSH secundário: Feminino
Seres Humanos
Masculino
República da Bielorrússia
[Pt] Tipo de publicação:JOURNAL ARTICLE
[Em] Mês de entrada:1802
[Cu] Atualização por classe:180216
[Lr] Data última revisão:
180216
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:180127
[St] Status:MEDLINE


  6 / 5305 MEDLINE  
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[PMID]:28460028
[Au] Autor:Eyun SI; Soh HY; Posavi M; Munro JB; Hughes DST; Murali SC; Qu J; Dugan S; Lee SL; Chao H; Dinh H; Han Y; Doddapaneni H; Worley KC; Muzny DM; Park EO; Silva JC; Gibbs RA; Richards S; Lee CE
[Ad] Endereço:Center for Biotechnology, University of Nebraska-Lincoln, Lincoln, NE.
[Ti] Título:Evolutionary History of Chemosensory-Related Gene Families across the Arthropoda.
[So] Source:Mol Biol Evol;34(8):1838-1862, 2017 Aug 01.
[Is] ISSN:1537-1719
[Cp] País de publicação:United States
[La] Idioma:eng
[Ab] Resumo:Chemosensory-related gene (CRG) families have been studied extensively in insects, but their evolutionary history across the Arthropoda had remained relatively unexplored. Here, we address current hypotheses and prior conclusions on CRG family evolution using a more comprehensive data set. In particular, odorant receptors were hypothesized to have proliferated during terrestrial colonization by insects (hexapods), but their association with other pancrustacean clades and with independent terrestrial colonizations in other arthropod subphyla have been unclear. We also examine hypotheses on which arthropod CRG family is most ancient. Thus, we reconstructed phylogenies of CRGs, including those from new arthropod genomes and transcriptomes, and mapped CRG gains and losses across arthropod lineages. Our analysis was strengthened by including crustaceans, especially copepods, which reside outside the hexapod/branchiopod clade within the subphylum Pancrustacea. We generated the first high-resolution genome sequence of the copepod Eurytemora affinis and annotated its CRGs. We found odorant receptors and odorant binding proteins present only in hexapods (insects) and absent from all other arthropod lineages, indicating that they are not universal adaptations to land. Gustatory receptors likely represent the oldest chemosensory receptors among CRGs, dating back to the Placozoa. We also clarified and confirmed the evolutionary history of antennal ionotropic receptors across the Arthropoda. All antennal ionotropic receptors in E. affinis were expressed more highly in males than in females, suggestive of an association with male mate-recognition behavior. This study is the most comprehensive comparative analysis to date of CRG family evolution across the largest and most speciose metazoan phylum Arthropoda.
[Mh] Termos MeSH primário: Artrópodes/genética
Receptores Odorantes/genética
[Mh] Termos MeSH secundário: Animais
Células Quimiorreceptoras/fisiologia
Copépodes/genética
Crustáceos/genética
Bases de Dados de Ácidos Nucleicos
Evolução Molecular
Genoma/genética
Insetos/genética
Família Multigênica/genética
Filogenia
[Pt] Tipo de publicação:JOURNAL ARTICLE
[Nm] Nome de substância:
0 (Receptors, Odorant); 0 (odorant-binding protein)
[Em] Mês de entrada:1802
[Cu] Atualização por classe:180201
[Lr] Data última revisão:
180201
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:170502
[St] Status:MEDLINE
[do] DOI:10.1093/molbev/msx147


  7 / 5305 MEDLINE  
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[PMID]:28460114
[Au] Autor:Reynolds HT; Slot JC; Divon HH; Lysøe E; Proctor RH; Brown DW
[Ad] Endereço:Department of Plant Pathology, The Ohio State University, Columbus, OH.
[Ti] Título:Differential Retention of Gene Functions in a Secondary Metabolite Cluster.
[So] Source:Mol Biol Evol;34(8):2002-2015, 2017 Aug 01.
[Is] ISSN:1537-1719
[Cp] País de publicação:United States
[La] Idioma:eng
[Ab] Resumo:In fungi, distribution of secondary metabolite (SM) gene clusters is often associated with host- or environment-specific benefits provided by SMs. In the plant pathogen Alternaria brassicicola (Dothideomycetes), the DEP cluster confers an ability to synthesize the SM depudecin, a histone deacetylase inhibitor that contributes weakly to virulence. The DEP cluster includes genes encoding enzymes, a transporter, and a transcription regulator. We investigated the distribution and evolution of the DEP cluster in 585 fungal genomes and found a wide but sporadic distribution among Dothideomycetes, Sordariomycetes, and Eurotiomycetes. We confirmed DEP gene expression and depudecin production in one fungus, Fusarium langsethiae. Phylogenetic analyses suggested 6-10 horizontal gene transfers (HGTs) of the cluster, including a transfer that led to the presence of closely related cluster homologs in Alternaria and Fusarium. The analyses also indicated that HGTs were frequently followed by loss/pseudogenization of one or more DEP genes. Independent cluster inactivation was inferred in at least four fungal classes. Analyses of transitions among functional, pseudogenized, and absent states of DEP genes among Fusarium species suggest enzyme-encoding genes are lost at higher rates than the transporter (DEP3) and regulatory (DEP6) genes. The phenotype of an experimentally-induced DEP3 mutant of Fusarium did not support the hypothesis that selective retention of DEP3 and DEP6 protects fungi from exogenous depudecin. Together, the results suggest that HGT and gene loss have contributed significantly to DEP cluster distribution, and that some DEP genes provide a greater fitness benefit possibly due to a differential tendency to form network connections.
[Mh] Termos MeSH primário: Alcadienos/metabolismo
Compostos de Epóxi/metabolismo
Álcoois Graxos/metabolismo
Genoma Fúngico/genética
Família Multigênica/genética
[Mh] Termos MeSH secundário: Ascomicetos/genética
Bases de Dados de Ácidos Nucleicos
Evolução Molecular
Proteínas Fúngicas/genética
Fusarium/genética
Perfilação da Expressão Gênica/métodos
Regulação Fúngica da Expressão Gênica/genética
Transferência Genética Horizontal/genética
Filogenia
Metabolismo Secundário/genética
Virulência/genética
[Pt] Tipo de publicação:JOURNAL ARTICLE
[Nm] Nome de substância:
0 (Alkadienes); 0 (Epoxy Compounds); 0 (Fatty Alcohols); 0 (Fungal Proteins); 139508-73-9 (depudecin)
[Em] Mês de entrada:1802
[Cu] Atualização por classe:180201
[Lr] Data última revisão:
180201
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:170502
[St] Status:MEDLINE
[do] DOI:10.1093/molbev/msx145


  8 / 5305 MEDLINE  
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[PMID]:28460059
[Au] Autor:Nevers Y; Prasad MK; Poidevin L; Chennen K; Allot A; Kress A; Ripp R; Thompson JD; Dollfus H; Poch O; Lecompte O
[Ad] Endereço:Complex Systems and Translational Bioinformatics, ICube UMR 7357, Université de Strasbourg, Fédération de Médecine Translationnelle, Strasbourg, France.
[Ti] Título:Insights into Ciliary Genes and Evolution from Multi-Level Phylogenetic Profiling.
[So] Source:Mol Biol Evol;34(8):2016-2034, 2017 Aug 01.
[Is] ISSN:1537-1719
[Cp] País de publicação:United States
[La] Idioma:eng
[Ab] Resumo:Cilia (flagella) are important eukaryotic organelles, present in the Last Eukaryotic Common Ancestor, and are involved in cell motility and integration of extracellular signals. Ciliary dysfunction causes a class of genetic diseases, known as ciliopathies, however current knowledge of the underlying mechanisms is still limited and a better characterization of genes is needed. As cilia have been lost independently several times during evolution and they are subject to important functional variation between species, ciliary genes can be investigated through comparative genomics. We performed phylogenetic profiling by predicting orthologs of human protein-coding genes in 100 eukaryotic species. The analysis integrated three independent methods to predict a consensus set of 274 ciliary genes, including 87 new promising candidates. A fine-grained analysis of the phylogenetic profiles allowed a partitioning of ciliary genes into modules with distinct evolutionary histories and ciliary functions (assembly, movement, centriole, etc.) and thus propagation of potential annotations to previously undocumented genes. The cilia/basal body localization was experimentally confirmed for five of these previously unannotated proteins (LRRC23, LRRC34, TEX9, WDR27, and BIVM), validating the relevance of our approach. Furthermore, our multi-level analysis sheds light on the core gene sets retained in gamete-only flagellates or Ecdysozoa for instance. By combining gene-centric and species-oriented analyses, this work reveals new ciliary and ciliopathy gene candidates and provides clues about the evolution of ciliary processes in the eukaryotic domain. Additionally, the positive and negative reference gene sets and the phylogenetic profile of human genes constructed during this study can be exploited in future work.
[Mh] Termos MeSH primário: Cílios/genética
Ciliopatias/genética
[Mh] Termos MeSH secundário: Animais
Movimento Celular/genética
Cílios/metabolismo
Ciliopatias/metabolismo
Bases de Dados de Ácidos Nucleicos
Eucariotos
Células Eucarióticas
Evolução Molecular
Flagelos/genética
Flagelos/metabolismo
Genômica
Seres Humanos
Filogenia
Análise de Sequência de DNA/métodos
[Pt] Tipo de publicação:JOURNAL ARTICLE
[Em] Mês de entrada:1802
[Cu] Atualização por classe:180201
[Lr] Data última revisão:
180201
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:170502
[St] Status:MEDLINE
[do] DOI:10.1093/molbev/msx146


  9 / 5305 MEDLINE  
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[PMID]:29253885
[Au] Autor:Chen X; Huang L
[Ad] Endereço:School of Information and Control Engineering, China University of Mining and Technology, Xuzhou, China.
[Ti] Título:LRSSLMDA: Laplacian Regularized Sparse Subspace Learning for MiRNA-Disease Association prediction.
[So] Source:PLoS Comput Biol;13(12):e1005912, 2017 12.
[Is] ISSN:1553-7358
[Cp] País de publicação:United States
[La] Idioma:eng
[Ab] Resumo:Predicting novel microRNA (miRNA)-disease associations is clinically significant due to miRNAs' potential roles of diagnostic biomarkers and therapeutic targets for various human diseases. Previous studies have demonstrated the viability of utilizing different types of biological data to computationally infer new disease-related miRNAs. Yet researchers face the challenge of how to effectively integrate diverse datasets and make reliable predictions. In this study, we presented a computational model named Laplacian Regularized Sparse Subspace Learning for MiRNA-Disease Association prediction (LRSSLMDA), which projected miRNAs/diseases' statistical feature profile and graph theoretical feature profile to a common subspace. It used Laplacian regularization to preserve the local structures of the training data and a L1-norm constraint to select important miRNA/disease features for prediction. The strength of dimensionality reduction enabled the model to be easily extended to much higher dimensional datasets than those exploited in this study. Experimental results showed that LRSSLMDA outperformed ten previous models: the AUC of 0.9178 in global leave-one-out cross validation (LOOCV) and the AUC of 0.8418 in local LOOCV indicated the model's superior prediction accuracy; and the average AUC of 0.9181+/-0.0004 in 5-fold cross validation justified its accuracy and stability. In addition, three types of case studies further demonstrated its predictive power. Potential miRNAs related to Colon Neoplasms, Lymphoma, Kidney Neoplasms, Esophageal Neoplasms and Breast Neoplasms were predicted by LRSSLMDA. Respectively, 98%, 88%, 96%, 98% and 98% out of the top 50 predictions were validated by experimental evidences. Therefore, we conclude that LRSSLMDA would be a valuable computational tool for miRNA-disease association prediction.
[Mh] Termos MeSH primário: Estudos de Associação Genética/estatística & dados numéricos
MicroRNAs/genética
[Mh] Termos MeSH secundário: Biomarcadores Tumorais/genética
Biologia Computacional
Simulação por Computador
Bases de Dados de Ácidos Nucleicos
Feminino
Marcadores Genéticos
Predisposição Genética para Doença
Seres Humanos
Aprendizado de Máquina
Masculino
Modelos Genéticos
Modelos Estatísticos
Neoplasias/genética
[Pt] Tipo de publicação:EVALUATION STUDIES; JOURNAL ARTICLE; RESEARCH SUPPORT, NON-U.S. GOV'T; VALIDATION STUDIES
[Nm] Nome de substância:
0 (Biomarkers, Tumor); 0 (Genetic Markers); 0 (MicroRNAs)
[Em] Mês de entrada:1801
[Cu] Atualização por classe:180123
[Lr] Data última revisão:
180123
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:171219
[St] Status:MEDLINE
[do] DOI:10.1371/journal.pcbi.1005912


  10 / 5305 MEDLINE  
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[PMID]:29199037
[Au] Autor:Gao JR; Qin XJ; Jiang H; Gao YC; Guo MF; Jiang NN
[Ad] Endereço:Department of Pharmacy, The first affiliated hospital of Anhui university of Chinese medicine, 117 Meishan Road, Hefei, China. Electronic address: 1036951872@qq.com.
[Ti] Título:Potential role of lncRNAs in contributing to pathogenesis of chronic glomerulonephritis based on microarray data.
[So] Source:Gene;643:46-54, 2018 Feb 15.
[Is] ISSN:1879-0038
[Cp] País de publicação:Netherlands
[La] Idioma:eng
[Ab] Resumo:BACKGROUND: Chronic glomerulonephritis (CGN) is the most common form of primary glomerular disease with unclear molecular mechanisms, which related to immune-mediated inflammatory diseases. Our study intended to identify potential long non-coding RNAs (lncRNAs) and genes, and to determine the potential molecular mechanisms of CGN pathogenesis. METHODS: The microarray of GSE64265 and GSE46295 were downloaded from the Gene Expression Omnibus database, GSE64265 including 3 rats control kidney tissues and 5 rats model kidney tissues, GSE46295 including 3 rats control kidney tissues and 3 rats model kidney tissues, which was on the basis of GPL1355 platform. Identification of differentially expressed lncRNAs and mRNAs were performed between the 2 groups. Gene ontology (GO) and pathway enrichment analyses were performed to analyze the biological functions and pathways for the differentially expressed mRNAs. LncRNA-mRNA weighted co-expression network was constructed using the WGCNA package to analyses for the genes in the modules. The protein-protein interaction (PPI) network was visualized. RESULTS: A total of 40 significantly up-regulated and 24 down-regulated lncRNAs, 653 up-regulated and 128 down-regulated mRNAs were identified. Additionally, Cdk1, with the highest connectivity degree in PPI network, was noteworthy enriched in cell cycle. Seven lncRNAs: NONRATT026650, LOC102547664, NONRATT77021989, NONRATT012453, LOC102551856, LOC102553536 and NONRATT7047175 were observed in the modules of lncRNA-mRNA weighted co-expression network. CONCLUSIONS: LncRNAs NONRATT026650, LOC102547664, NONRATT77021989, NONRATT012453, LOC102551856, LOC102553536 and NONRATT7047175 were differentially expressed and might play important roles in the development of CGN. Key genes, such as Cd44, Rftn1, Runx1, may be crucial biomarkers for CGN.
[Mh] Termos MeSH primário: Glomerulonefrite/genética
RNA Longo não Codificante/metabolismo
[Mh] Termos MeSH secundário: Animais
Biomarcadores
Bases de Dados de Ácidos Nucleicos
Perfilação da Expressão Gênica/métodos
Regulação Neoplásica da Expressão Gênica/genética
Ontologia Genética
Redes Reguladoras de Genes/genética
Glomerulonefrite/metabolismo
Glomerulonefrite/veterinária
Análise de Sequência com Séries de Oligonucleotídeos/métodos
RNA Longo não Codificante/genética
RNA Mensageiro/genética
Ratos
Transdução de Sinais
[Pt] Tipo de publicação:JOURNAL ARTICLE
[Nm] Nome de substância:
0 (Biomarkers); 0 (RNA, Long Noncoding); 0 (RNA, Messenger)
[Em] Mês de entrada:1801
[Cu] Atualização por classe:180123
[Lr] Data última revisão:
180123
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:171205
[St] Status:MEDLINE



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