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8861“…These DE-ARGs were subjected to comprehensive analyses, including Gene Ontology, Kyoto Encyclopedia of Genes and Genomes pathway, Gene Set Enrichment Analysis, and protein–protein interaction networks. …”
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8862“…We performed Gene Ontology (GO), Kyoto Encyclopedia of the Genome (KEGG), ClueGO, and Protein-Protein Interaction (PPI) analysis for DEFRGs and DEPRGs and validated them by machine learning. …”
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8863“…We could functionally classify 267 (38%) sequences using the Gene Ontologies (GO) and establish pathway associations for 230 (33%) sequences using the Kyoto Encyclopedia of Genes and Genomes (KEGG). Further examination of this EST dataset revealed a number of signalling molecules, proteases, protease inhibitors, enzymes, ion channels and immune-related genes. …”
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8864por Fu, Shijun, Zhao, Haiguang, Shi, Jiantao, Abzhanov, Arhat, Crawford, Keith, Ohno-Machado, Lucila, Zhou, Jianqin, Du, Yanzhi, Kuo, Winston Patrick, Zhang, Ji, Jiang, Mier, Jin, Jason Gang“…Through literature mining and pathway analysis using different databases such as Gene Ontology (GO), and the Kyoto Encyclopedia of Gene and Genomics (KEGG), genes involved in immune/inflammatory responses were significantly enriched in up-regulated genes at different stages of PAD(p < 0.05), revealing a significant correlation between immune/inflammatory responses and disease progression. …”
Publicado 2008
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8865por Pinós, Tomàs, Barbosa-Desongles, Anna, Hurtado, Antoni, Santamaria-Martínez, Albert, de Torres, Inés, Morote, Joan, Reventós, Jaume, Munell, Francina“…CONCLUSION: The identification of multiple transcription start sites (TSS) upstream of the annotated first exon of human SHBG, and the detection of the alternative transcripts in human prostate, concur with the prediction of the ENCODE (ENCyclopedia of DNA Elements) project, and suggest that the regulation of SHBG is much more complex than previously reported.…”
Publicado 2009
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8866“…According to Gene Ontology (GO) and the Kyoto Encyclopedia of Genes and Genomes (KEGG), the vertical relationships identified from the PPI and metabolic pathways correctly characterized the inclusion (i.e., part-of) relationship, and the horizontal relationships provided a good indication of the functional closeness between modules. …”
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8867por Tang, Qi, Ma, Xiaojun, Mo, Changming, Wilson, Iain W, Song, Cai, Zhao, Huan, Yang, Yanfang, Fu, Wei, Qiu, Deyou“…A total of 26,308 (59.9%) unique sequences were annotated and 11,476 of the unique sequences were assigned to specific metabolic pathways by the Kyoto Encyclopedia of Genes and Genomes. cDNA sequences for all of the known enzymes involved in mogrosides backbone synthesis were identified from our library. …”
Publicado 2011
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8868por Wei, Wenliang, Qi, Xiaoqiong, Wang, Linhai, Zhang, Yanxin, Hua, Wei, Li, Donghua, Lv, Haixia, Zhang, Xiurong“…In total, 22,003 (25.52%) unigenes were mapped onto 119 pathways using the Kyoto Encyclopedia of Genes and Genomes Pathway database (KEGG). …”
Publicado 2011
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8869por Ma, Xuan, Zhu, Yingjie, Li, Chunfang, Shang, Yunlong, Meng, Fanjing, Chen, Shilin, Miao, Long“…RESULTS: Two 454 pyrosequencing runs generated 572,982 and 588,651 reads for germline (TES) and somatic (VAS) tissues of the A. suum gonad, respectively. 86% of the high-quality (HQ) reads were assembled into 9,955 contigs and 69,791 HQ reads remained as singletons. 2.4 million bp of unique sequences were obtained with a coverage that reached 16.1-fold. 4,877 contigs and 14,339 singletons were annotated according to the C. elegans protein and the Kyoto Encyclopedia of Genes and Genomes (KEGG) protein databases. …”
Publicado 2011
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8870por Kumar, Smriti, Kumar, Arooshi, Shah, Parag P, Rai, Shesh N, Panguluri, Siva K, Kakar, Sham S“…Ingenuity Pathway Analysis (IPA) and Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis was performed for the selected miRNAs and their putative targets to identify the potential pathways and networks involved in cis-platin resistance. …”
Publicado 2011
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8871por Mougeot, Jean-Luc C, Li, Zhen, Price, Andrea E, Wright, Fred A, Brooks, Benjamin R“…RESULTS: For the first time, using SAFE in a global gene ontology analysis (gene set size 5-100), we show significant perturbation of the KEGG (Kyoto Encyclopedia of Genes and Genomes) ALS pathway of motor neuron degeneration in PBLs from ALS patients. …”
Publicado 2011
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8872por Sun, Yongzhen, Luo, Hongmei, Li, Ying, Sun, Chao, Song, Jingyuan, Niu, Yunyun, Zhu, Yingjie, Dong, Liang, Lv, Aiping, Tramontano, Enzo, Chen, Shilin“…Through functional annotation, a total of 21,213 unigenes were annotated at least once against the NCBI nucleotide (Nt), non-redundant protein (Nr), Uniprot/SwissProt, Kyoto Encyclopedia of Genes and Genomes (KEGG), and Arabidopsis thaliana proteome (TAIR) databases. …”
Publicado 2011
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8873por Luo, Hongmei, Sun, Chao, Sun, Yongzhen, Wu, Qiong, Li, Ying, Song, Jingyuan, Niu, Yunyun, Cheng, Xianglin, Xu, Hongxi, Li, Chuyuan, Liu, Juyan, Steinmetz, André, Chen, Shilin“…A total of 70.2% of unique sequences were annotated by Basic Local Alignment Search Tool (BLAST) similarity searches against public sequence databases. The Kyoto Encyclopedia of Genes and Genomes (KEGG) assignment discovered 41 unique sequences representing 11 genes involved in triterpene saponin backbone biosynthesis in the 454-EST dataset. …”
Publicado 2011
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8874por Lin, Shumao, Li, Hongmei, Mu, Heping, Luo, Wen, Li, Ying, Jia, Xinzheng, Wang, Sibing, Jia, Xiaolu, Nie, Qinghua, Li, Yugu, Zhang, Xiquan“…Only let-7b was found to be complementary to its target in the 3′ untranslated region of GHR, and was able to inhibit its expression. Kyoto Encyclopedia of Genes and Genomes pathway analysis and quantitative polymerase chain reactions indicated there were three main signaling pathways regulating skeletal muscle growth and fat deposition of chickens. …”
Publicado 2012
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8875“…When 22,756 unigenes searched against the Kyoto Encyclopedia of Genes and Genomes Pathway (KEGG) database, 12,097 unigenes were assigned to 5 main categories including 123 KEGG pathways. …”
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8876por Liu, Yu-Shu, Tsai, Pei-Wen, Wang, Yong, Fan, Tan-chi, Hsieh, Chia-Hung, Chang, Margaret Dah-Tsyr, Pai, Tun-Wen, Huang, Chien-Fu, Lan, Chung-Yu, Chang, Hao-Teng“…We then constructed a functional linkage network by integrating the microarray dataset with the pathway database of Kyoto Encyclopedia of Genes and Genomes (KEGG). Follow-up analysis revealed that STAT1 and STAT2, important transcriptional factors that regulate cytokine expression and release, served as hubs to connect the pathways of cytokine stimulation (TGF-α and EGFR pathways) and inflammatory responses. …”
Publicado 2012
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8877“…Pair-wise comparison analyses (between individual k-mers and CAs) were produced to reveal missing Kyoto Encyclopedia of Genes and Genomes (KEGG) ortholog identifiers (KOIs), and to determine a strategy that maximizes the recovery of biological information in a de novo transcriptome assembly. …”
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8878por Alcina, Antonio, Fedetz, Maria, Fernández, Óscar, Saiz, Albert, Izquierdo, Guillermo, Lucas, Miguel, Leyva, Laura, García-León, Juan-Antonio, Abad-Grau, María del Mar, Alloza, Iraide, Antigüedad, Alfredo, Garcia-Barcina, María J, Vandenbroeck, Koen, Varadé, Jezabel, de la Hera, Belén, Arroyo, Rafael, Comabella, Manuel, Montalban, Xavier, Petit-Marty, Natalia, Navarro, Arcadi, Otaegui, David, Olascoaga, Javier, Blanco, Yolanda, Urcelay, Elena, Matesanz, Fuencisla“…Functional annotations from Encyclopedia of DNA Elements (ENCODE) showed that six out of these rs6581155-tagged-SNPs were located in regions with regulatory potential and only one of them, rs10877013, exhibited allele-dependent (ratio A/G=9.5-fold) and orientation-dependent (forward/reverse=2.7-fold) enhancer activity as determined by luciferase reporter assays. …”
Publicado 2013
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8879por Huang, Hua-Hong, Xu, Li-Li, Tong, Zai-Kang, Lin, Er-Pei, Liu, Qing-Po, Cheng, Long-Jun, Zhu, Mu-Yuan“…A total of 21,689 (29.40%) were mapped to 119 pathways by BLAST comparison against the Kyoto Encyclopedia of Genes and Genomes (KEGG) database. The majority of the genes encoding the enzymes in the biosynthetic pathways of cellulose and lignin were identified in the Unigene dataset by targeted searches of their annotations. …”
Publicado 2012
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8880por Avula, Leela Rani, Knapen, Dries, Buckinx, Roeland, Vergauwen, Lucia, Adriaensen, Dirk, Van Nassauw, Luc, Timmermans, Jean-Pierre“…To this end, we used whole-genome microarrays, followed by bioinformatics analyses to detect over-represented Kyoto Encyclopedia of Genes and Genomes pathways and Gene Ontology categories. …”
Publicado 2012
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