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20081por Ferrari, Nicoletta, Granata, Ilaria, Capaia, Matteo, Piccirillo, Marina, Guarracino, Mario Rosario, Venè, Roberta, Brizzolara, Antonella, Petretto, Andrea, Inglese, Elvira, Morini, Martina, Astigiano, Simonetta, Amaro, Adriana Agnese, Boccardo, Francesco, Balbi, Cecilia, Barboro, Paola“…RNA microarray, mass spectrometry, integrative transcriptomic and proteomic differential analysis coupled with GeneOntology and multivariate analyses were applied to identify deregulated genes and proteins involved in CRPC evolution. …”
Publicado 2017
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20082por Lyu, Qiang, Zhang, Zi-Bin, Fu, Song-Jun, Xiong, Liu-Lin, Liu, Jing, Wang, Ting-Hua“…Moreover, we took an intersection of the differentially expressed lncRNAs or mRNAs and scanned 10 kb upstream and downstream of the common lncRNAs. Meanwhile, Gene Ontology (GO) and pathway analysis on mRNAs was performed in the A2B5+ iPSC group. …”
Publicado 2017
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20083“…We showed that increased expression was significantly associated with poor survival in 4 independent HNSCC datasets, including the TCGA-HNSCC dataset. Furthermore, Gene Ontology, Kyoto Encyclopedia of Genes and Genomes, and PPI analysis revealed that most of the genes in this signature are associated with drug metabolism and glutathione metabolic pathways. …”
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20084por Liu, Chang-Ming, Chen, Jing, Yang, Su, Jiang, Ting-Ting, Chen, Zhong-Liang, Tu, Hui-Hui, Mao, Lian-Gen, Hu, Yu-Ting, Gan, Lin, Li, Zhong-Jie, Li, Ji-Cheng“…In the proteomic analyses, seventy-one proteins were differentially expressed in the YDH syndrome group and the ZDG treated group, including 10 up-regulated and 61 down-regulated proteins. Gene ontology analysis revealed that the differentially expressed proteins were mostly related to immune response, and pathway enrichment analysis showed that these proteins were enriched in coagulation and complement cascades. …”
Publicado 2018
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20085“…The binding loci were distributed among the promoter regions of 391 target genes that were directly up-regulated by one of the OsNAC proteins in four RCc3:6MYC-OsNAC transgenic lines. Based on gene ontology (GO) analysis, the direct target genes were related to transmembrane/transporter activity, vesicle, plant hormones, carbohydrate metabolism, and TFs. …”
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20086por Magwanga, Richard Odongo, Lu, Pu, Kirungu, Joy Nyangasi, Lu, Hejun, Wang, Xingxing, Cai, Xiaoyan, Zhou, Zhongli, Zhang, Zhenmei, Salih, Haron, Wang, Kunbo, Liu, Fang“…Sixty three miRNAs were found to target 89 genes, such as miR164, ghr-miR394 among others. Gene ontology analysis revealed that LEA genes are involved in desiccation and defense responses. …”
Publicado 2018
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20087“…Each module is represented by individual color in the dendrogram. Gene Ontology and KEGG pathway based analysis are then performed to identify biological functionalities of the identified modules. …”
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20088por Huang, Wen-Ting, Cen, Wei-Luan, He, Rong-Quan, Xie, You, Zhang, Yu, Li, Ping, Gan, Ting-Qing, Chen, Gang, Hu, Xiao-Hua“…The target genes of miR-146a-5p were predicted by 12 online software programs; these genes were then subjected to Gene Ontology enrichment analysis and Kyoto Encyclopedia of Genes and Genomes pathway annotations using the Database for Annotation, Visualization and Integrated Discovery 6.7 as well as constructed into a protein interaction network using protein-protein interaction from Search Tool for the Retrieval of Interacting Genes/Proteins. …”
Publicado 2017
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20089“…For the differentially expressed lncRNAs that were identified as intergenic lncRNAs (lincRNA), we analysed the gene ontology enrichment of cis targets and found that cis target protein-coding genes were mainly enriched in stress-related categories. …”
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20090por Wang, Jingfeng, Zhang, Jingjing, Ding, Xuefeng, Wang, Yanyan, Li, Zhiming, Zhao, Weipeng, Jia, Jianguo, Zhou, Jingmin, Ge, Junbo“…Functional annotation analysis of the predicted targets was performed using Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) databases. …”
Publicado 2018
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20091por Zhang, Ke, Kong, Xiangjun, Feng, Guangde, Xiang, Wei, Chen, Long, Yang, Fang, Cao, Chunyu, Ding, Yifei, Chen, Hang, Chu, Mingxing, Wang, Pingqing, Zhang, Baoyun“…Subsequently, cluster analysis was performed followed by the construction of the protein-protein interaction (PPI) network of the overlapping DEGs between the cycling hypoxia and chronic hypoxia using ClusterONE. In addition, gene ontology (GO) functional and pathway enrichment analyses of the DEGs in the most remarkable module were performed using Database for Annotation, Visualization and Integrated Discovery (DAVID) software. …”
Publicado 2018
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20092por Tiys, Evgeny S., Ivanisenko, Timofey V., Demenkov, Pavel S., Ivanisenko, Vladimir A.“…To study the FunGeneNet applicability, the functional connectivity analysis of networks constructed for gene sets involved in the Gene Ontology biological processes was conducted. We showed that the method sensitivity exceeds 0.8 at a specificity of 0.95. …”
Publicado 2018
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20093por Reddy, Kondreddy Eswar, Jeong, Jin young, Lee, Yookyung, Lee, Hyun-Jeong, Kim, Min Seok, Kim, Dong-Wook, Jung, Hyun Jung, Choe, Changyong, Oh, Young Kyoon, Lee, Sung Dae“…After biological pathway analysis, the DEGs were determined to be significantly enriched in gene ontology terms associated with many biological pathways, including immune response and cellular and metabolic processes. …”
Publicado 2018
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20094por Föll, Melanie Christine, Fahrner, Matthias, Oria, Victor Oginga, Kühs, Markus, Biniossek, Martin Lothar, Werner, Martin, Bronsert, Peter, Schilling, Oliver“…We compared the different protocols in terms of proteome coverage, relative label-free quantitation, missed cleavages, physicochemical properties and gene ontology term annotations of the proteins. Additionally, we probed compatibility of the DTR protocol for the analysis of common used histological stainings, namely hematoxylin & eosin (H&E), hematoxylin and hemalaun. …”
Publicado 2018
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20095“…Relevant signaling pathways were assessed with protein-protein interaction (PPI) networks, Gene Ontology (GO) enrichment analysis, Kyoto Encyclopedia of Genes and Genomes (KEGG) and Protein Annotation Through Evolutionary Relationships (PANTHER) pathway enrichment analysis. miR-124-3p expression was significantly reduced in HCC tissues compared with expression in adjacent non-cancerous liver tissues. …”
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20096por He, Rong-Quan, Wu, Pei-Rong, Xiang, Xue-Lian, Yang, Xia, Liang, Hai-Wei, Qiu, Xiao-Hui, Yang, Li-Hua, Peng, Zhi-Gang, Chen, Gang“…According to the Gene Ontology (GO) analysis, all targets were classified into biological processes, cellular components and molecular functions. …”
Publicado 2018
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20097por He, Wei-Di, Gao, Jie, Dou, Tong-Xin, Shao, Xiu-Hong, Bi, Fang-Cheng, Sheng, Ou, Deng, Gui-Ming, Li, Chun-Yu, Hu, Chun-Hua, Liu, Ji-Hong, Zhang, Sheng, Yang, Qiao-Song, Yi, Gan-Jun“…Interestingly, the number of DAMPs with increased abundance following 3 h of cold treatment in Dajiao (80) was seven times more than that in Cavendish (11). Gene ontology molecular function analysis of DAMPs for Cavendish and Dajiao indicated that they belong to eight categories including hydrolase activity, binding, transporter activity, antioxidant activity, etc., but the number in Dajiao is twice that in Cavendish. …”
Publicado 2018
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20098“…In addition, a total of 49 Gene Ontology (GO) biological processes and were enriched, and the target genes of downregulated miRNAs were enriched in 12 Kyoto Encyclopedia of Genes and Genomes (KEGG) pathways. …”
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20099por He, Wenguang, Chen, Yicun, Gao, Ming, Zhao, Yunxiao, Xu, Zilong, Cao, Pei, Zhang, Qiyan, Jiao, Yulian, Li, Hongsheng, Wu, Liwen, Wang, Yangdong“…A total of 12,559 differentially expressed genes (DEGs) were detected from the female (F) and male (M) floral bud comparisons. The gene ontology (GO) databases revealed that these DEGs were primarily contained in “metabolic processes”, “cellular processes”, and “single-organism processes”. …”
Publicado 2018
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20100por Shi, Qianqian, Mao, Zhenchuan, Zhang, Xiaoping, Ling, Jian, Lin, Runmao, Zhang, Xi, Liu, Rui, Wang, Yunsheng, Yang, Yuhong, Cheng, Xinyue, Xie, Bingyan“…Based on transcriptome analysis of the MiISE6 transgenic Arabidopsis samples and the wild-type samples, we obtained 852 differentially expressed genes (DEGs). Integrating Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analyses, we found that expression of MiISE6 in Arabidopsis can suppress jasmonate signaling pathway. …”
Publicado 2018
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