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  1. 1361
    “…By applying our method to two human representative diseases, Type 2 Diabetes and Breast Cancer, we demonstrated that our method is able to identify related Gene Ontology terms and Kyoto Encyclopedia of Genes and Genomes pathways. The web server can be used to infer functions and putative phenotypes of a gene along with the candidate genes of a phenotype, and thus aids in disease candidate gene discovery. …”
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    Inference of Gene-Phenotype Associations via Protein-Protein Interaction and Orthology
  2. 1362
    por Goi, Chin Lui, Little, Peter, Xie, Chao
    Publicado 2013
    “…RESULTS: Using TF targeted chromatin immunoprecipitation coupled with massively parallel sequencing (ChIP-seq) data from Encyclopedia of DNA Elements (ENCODE), we report cell type and TF specific TF-cofactor interactions captured in vivo through enrichments of non target cofactor binding site motifs within ChIP-seq peaks. …”
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    Cell-type and transcription factor specific enrichment of transcriptional cofactor motifs in ENCODE ChIP-seq data
  3. 1363
    “…Moreover, we predicted and reconstructed their core/pan metabolic pathways using the KEGG (Kyoto Encyclopedia of Genes and Genomes) orthology system. …”
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    Genomic Evolution of 11 Type Strains within Family Planctomycetaceae
  4. 1364
    “…This data set, one of the deepest surveys to date of gene expression in human cells, is presented in an online, searchable database, the Encyclopedia of Proteome Dynamics (http://www.peptracker.com/epd/). …”
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    A proteomic chronology of gene expression through the cell cycle in human myeloid leukemia cells
  5. 1365
    “…Clusters of orthologous groups, gene ontology and the Kyoto Encyclopedia of Genes and Genomes annotations analyses were performed on the unigenes. …”
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    Transcriptome Expression Profiling in Response to Drought Stress in Paulownia australis
  6. 1366
    por Sarda, Shrutii, Hannenhalli, Sridhar
    Publicado 2014
    “…This realization prompted several large-scale efforts to map the epigenome, most notably the Encyclopedia of DNA Elements (ENCODE) project. While there is essentially a single genome in an individual, there are hundreds of epigenomes, corresponding to various types of epigenomic marks at different developmental times and in multiple tissue types. …”
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    Next-Generation Sequencing and Epigenomics Research: A Hammer in Search of Nails
  7. 1367
    por Koo, Malcolm
    Publicado 2014
    “…Wikipedia, a free and collaborative Internet encyclopedia, has become one of the most popular sources of free information on the Internet. …”
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    Complementary and Alternative Medicine on Wikipedia: Opportunities for Improvement
  8. 1368
    “…Through an analysis of 36 sequences of the Tollip protein from different animal taxa, downloaded from Kyoto Encyclopedia of Genes and Genomes (KEGG) databank, we inferred diverse evolutionary parameters, such as molecular selection and structure conservation, by analyzing residue by residue, beyond the canonical parameters to this type of study, as maximum likelihood trees. …”
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    Tollip or Not Tollip: What Are the Evolving Questions behind It?
  9. 1369
    “…This rhizobial genome is one of 100 sequenced as part of the DOE Joint Genome Institute 2010 Genomic Encyclopedia for Bacteria and Archaea-Root Nodule Bacteria (GEBA-RNB) project.…”
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    Genome sequence of Ensifer medicae strain WSM1369; an effective microsymbiont of the annual legume Medicago sphaerocarpos
  10. 1370
    por Wan, Qian, Pal, Ranadip
    Publicado 2014
    “…We also applied our approach to the Cancer Cell Line Encyclopedia database for sensitivity prediction and the ability to extract the top targets of an anti-cancer drug. …”
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    An Ensemble Based Top Performing Approach for NCI-DREAM Drug Sensitivity Prediction Challenge
  11. 1371
    “…Results: We present fastGapFill, a computationally efficient tractable extension to the COBRA toolbox that permits the identification of candidate missing knowledge from a universal biochemical reaction database (e.g. Kyoto Encyclopedia of Genes and Genomes) for a given (compartmentalized) metabolic reconstruction. …”
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    fastGapFill: efficient gap filling in metabolic networks
  12. 1372
    “…The 8,410,967 bp high-quality-draft genome is arranged into 268 scaffolds of 270 contigs containing 7,800 protein-coding genes and 85 RNA-only encoding genes, and is one of 100 rhizobial genomes sequenced as part of the DOE Joint Genome Institute 2010 Genomic Encyclopedia for Bacteria and Archaea-Root Nodule Bacteria (GEBA-RNB) project.…”
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    Genome sequence of Burkholderia mimosarum strain LMG 23256(T), a Mimosa pigra microsymbiont from Anso, Taiwan
  13. 1373
    “…The genome of W. marina DSM 24838(T) was sequenced as part of the activities of the Genomic Encyclopedia of Type Strains, Phase I: the one thousand microbial genomes (KMG) project funded by the DoE and the Transregional Collaborative Research Centre 51 (TRR51) funded by the German Research Foundation (DFG).…”
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    Genome sequence of the Wenxinia marina type strain (DSM 24838(T)), a representative of the Roseobacter group isolated from oilfield sediments
  14. 1374
    “…Gene function analysis including Gene Ontology (GO), Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analysis, and protein-protein interaction (PPI) networks analysis was conducted to interpret the biological role of those DEGs. …”
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    Identification of Differentially Expressed Genes in Pituitary Adenomas by Integrating Analysis of Microarray Data
  15. 1375
    “…Highlighted by the ENCODE (Encyclopedia of DNA Elements) and FANTOM (Functional Annotation of Mammals) consortia, these elements include tens of thousands of pseudogenes, as well as comparably numerous long non-coding RNA (lncRNA) genes. …”
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    Pseudogene-derived lncRNAs: emerging regulators of gene expression
  16. 1376
    por Ly, Tony, Endo, Aki, Lamond, Angus I
    Publicado 2015
    “…The protein data are available in the Encyclopedia of Proteome Dynamics (http://www.peptracker.com/epd/), an online, searchable resource. …”
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    Proteomic analysis of the response to cell cycle arrests in human myeloid leukemia cells
  17. 1377
    “…About 345,171 gene ontology (GO) term assignments were conducted for the annotation in terms of biological process, cellular component and molecular function categories, and 6413 sequences with 108 enzyme commission numbers were assigned to 134 predicted Kyoto Encyclopedia of Genes and Genomes (KEGG) metabolic pathways. …”
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    RNA-Seq Transcriptome Analysis of Maize Inbred Carrying Nicosulfuron-Tolerant and Nicosulfuron-Susceptible Alleles
  18. 1378
    “…Of all unigenes, 6845 were categorized into three functional groups, namely biological process, cellular components and molecular function and 11,088 were annotated to 108 pathways by searching the Kyoto Encyclopedia of Genes and Genomes pathway database. A total of 1129 SSRs were identified in these unigenes. …”
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    De novo transcriptome analysis of a medicinal fungi Phellinus linteus and identification of SSR markers
  19. 1379
    “…During functional annotation, 40,537 unigenes were annotated in Gene Ontology categories, Kyoto Encyclopedia of Genes and Genomes pathways, Swiss-Prot database, and Nucleotide Collection (NR/NT) database. …”
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    De Novo Assembly and Characterization of Fruit Transcriptome in Black Pepper (Piper nigrum)
  20. 1380
    “…This project, describing the 2.84 Mbp long chromosome and the two plasmids, pCC1 (4.11 kbp) and pCC2 (85.02 kbp), with their 2,647 protein-coding and 82 RNA genes, will aid the Genomic Encyclopedia of Bacteria and Archaea project.…”
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    Genome sequence of the soil bacterium Corynebacterium callunae type strain DSM 20147(T)
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