Abstract：
:The European Bioinformatics Institute (EMBL-EBI) supports life-science research throughout the world by providing open data, open-source software and analytical tools, and technical infrastructure (https://www.ebi.ac.uk). We accommodate an increasingly diverse range of data types and integrate them, so that biologists in all disciplines can explore life in ever-increasing detail. We maintain over 40 data resources, many of which are run collaboratively with partners in 16 countries (https://www.ebi.ac.uk/services). Submissions continue to increase exponentially: our data storage has doubled in less than two years to 120 petabytes. Recent advances in cellular imaging and single-cell sequencing techniques are generating a vast amount of high-dimensional data, bringing to light new cell types and new perspectives on anatomy. Accordingly, one of our main focus areas is integrating high-quality information from bioimaging, biobanking and other types of molecular data. This is reflected in our deep involvement in Open Targets, stewarding of plant phenotyping standards (MIAPPE) and partnership in the Human Cell Atlas data coordination platform, as well as the 2017 launch of the Omics Discovery Index. This update gives a birds-eye view of EMBL-EBI's approach to data integration and service development as genomics begins to enter the clinic.
journal_name
Nucleic Acids Resjournal_title
Nucleic acids researchauthors
Cook CE,Bergman MT,Cochrane G,Apweiler R,Birney Edoi
10.1093/nar/gkx1154subject
Has Abstractpub_date
2018-01-04 00:00:00pages
D21-D29issue
D1eissn
0305-1048issn
1362-4962pii
4658830journal_volume
46pub_type
杂志文章abstract：:The S-adenosylmethionine (AdoMet) analog sinefungin is a natural product antibiotic that inhibits nucleic acid methyltransferases and arrests the growth of unicellular eukarya and eukaryal viruses. The basis for the particular sensitivity of fungi and protozoa to sinefungin is not known. Here we report the isolation a...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkm817
更新日期：2007-01-01 00:00:00
abstract：:Assembly factors provide speed and directionality to the maturation process of the 30S subunit in bacteria. To gain a more precise understanding of how these proteins mediate 30S maturation, it is important to expand on studies of 30S assembly intermediates purified from bacterial strains lacking particular maturation...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkz571
更新日期：2019-09-05 00:00:00
abstract：:Optical DNA mapping (ODM) allows visualization of long-range sequence information along single DNA molecules. The data can for example be used for detecting long range structural variations, for aiding DNA sequence assembly of complex genomes and for mapping epigenetic marks and DNA damage across the genome. ODM tradi...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkz489
更新日期：2019-09-05 00:00:00
abstract：:We have previously investigated the role of the N-terminal region of ribosomal protein S4 to participate in 30S ribosome assembly and function (1-3). In this report we extend these studies to the two fragments produced by the chemical cleavage of protein S4 at the tryptophan residue 167. We find that the carboxyl term...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/13.17.6343
更新日期：1985-09-11 00:00:00
abstract：:Signal transducer and activator of transcription 6 (STAT6) is a regulator of transcription for interleukin-4 (IL-4)-induced genes. The ability of STAT6 to activate transcription depends on functional interaction with other transcription factors and coactivators. We have characterized the mechanism of STAT6-mediated tr...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkl539
更新日期：2006-01-01 00:00:00
abstract：:Two DNA hexadecamers containing one central 5'-GC-3' base step have been examined by footprinting methodology in the presence and absence of actinomycin D. The results of these studies, coupled with imino proton NMR measurements indicate that the antitumor drug causes a change in DNA conformation at a distance from th...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/16.23.11125
更新日期：1988-12-09 00:00:00
abstract：:Fifteen years elapsed between the discovery of the double helix (1953) and the first DNA sequencing (1968). Modern DNA sequencing began in 1977, with development of the chemical method of Maxam and Gilbert and the dideoxy method of Sanger, Nicklen and Coulson, and with the first complete DNA sequence (phage X174), whi...
journal_title：Nucleic acids research
pub_type： 历史文章,杂志文章
doi：10.1093/nar/gkm688
更新日期：2007-01-01 00:00:00
abstract：:Recent studies show that the region of DNA brought into close proximity to the fetal gamma-globin genes in deletional forms of hereditary persistence of fetal hemoglobin (HPFH) is selectively hypomethylated (and presumably active) in normal erythroid tissue. This region is normally located approximately 100 kilobases ...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/15.13.5169
更新日期：1987-07-10 00:00:00
abstract：:The sxy (tfoX) gene product is the central regulator of DNA uptake by naturally competent gamma-proteobacteria such as Haemophilus influenzae, Vibrio cholerae and probably Escherichia coli. However, the mechanisms regulating sxy gene expression are not understood despite being key to understanding the physiological ro...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkm915
更新日期：2008-01-01 00:00:00
abstract：:We have developed general methods for joining together, via cleavable disulfide bonds, either two unprotected polynucleotides or a polynucleotide and a peptide or protein. To join two oligonucleotides, each is first converted to an adduct in which cystamine is joined to the 5'-terminal phosphate of the oligonucleotide...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/16.9.3671
更新日期：1988-05-11 00:00:00
abstract：:Analysis of the human VK (ref. 2) gene locus led to the detection of a new sequence family (L sequences). Its copy number is in the range of 10(2). The L sequences, which are about 500 bp long, are found as part of the 3' flanking regions of a clustered set of human VKI genes but they occur also separate from the gene...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/12.13.5265
更新日期：1984-07-11 00:00:00
abstract：:We have developed an information repository named SpliceInfo to collect the occurrences of the four major alternative-splicing (AS) modes in human genome; these include exon skipping, 5'-alternative splicing, 3'-alternative splicing and intron retention. The dataset is derived by comparing the nucleotide and protein s...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gki129
更新日期：2005-01-01 00:00:00
abstract：:The carbon catabolite repressor protein 4 (Ccr4)-Negative on TATA (Not) complex controls gene expression at two levels. In the nucleus, it regulates the basal transcription machinery, nuclear receptor-mediated transcription and histone modifications. In the cytoplasm, the complex is required for messenger RNA (mRNA) t...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkr011
更新日期：2011-05-01 00:00:00
abstract：:The University of Minnesota Biocatalysis/Biodegradation Database (http://www.labmed.umn.edu/umbbd/ ) begins its fifth year having met its initial goals. It contains approximately 100 pathways for microbial catabolic metabolism of primarily xenobiotic organic compounds, including information on approximately 650 reacti...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/28.1.377
更新日期：2000-01-01 00:00:00
abstract：:A theoretical approach for linkage mapping the genome of any higher eukaryote is described. It uses the polymerase chain reaction, oligonucleotides of random sequence and single haploid cells. Markers are defined and then the DNA of a single sperm is broken at random (eg by gamma-rays) and physically split into 3 aliq...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/17.17.6795
更新日期：1989-09-12 00:00:00
abstract：:Human transcription factor IIIC contains a 55 kDa polypeptide which specifically interacts with the Adenovirus 2 VAI gene promoter and which mimics most of the DNA binding properties of the entire factor. The specificity and affinity of this protein:DNA interaction was demonstrated by: (i) Separation of purified fract...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/18.16.4743
更新日期：1990-08-25 00:00:00
abstract：:Small disulfide-bonded proteins (SDPs) are rich sources for therapeutic drugs. Designing drugs from these proteins requires three-dimensional structural information, which is only available for a subset of these proteins. SDPMOD addresses this deficit in structural information by providing a freely available automated...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkh394
更新日期：2004-07-01 00:00:00
abstract：:The effect of several rifamycin derivatives on poly(A) synthesis in vitro was tested using purified rat liver mitochondrial poly(A) polymerase assayed with an exogenous primer. When used at a concentration of 300 mug/ml, derivatives AF/013, PR/19, AF/AETP, M/88 and AF/ABDP completely inhibited activity corresponding t...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/1.11.1549
更新日期：1974-11-01 00:00:00
abstract：:To examine the influence of thyrotropin (TSH) on the thyroglobulin (Tgb) mRNA content, the latter was evaluated in the cytoplasm of hog thyroid cells cultured in the absence (control cells) or presence of TSH. The Tgb mRNA levels were determined by, (i) kinetics of hybridization to sheep Tgb cDNA, (ii) capacity of cod...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/6.10.3353
更新日期：1979-07-25 00:00:00
abstract：:In eukaryotes, the transcription of tRNA genes is initiated by the concerted action of transcription factors IIIC (TFIIIC) and IIIB (TFIIIB) which direct the recruitment of polymerase III. While TFIIIC recognizes highly conserved, intragenic promoter elements, TFIIIB binds to the non-coding 5'-upstream regions of the ...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkq1257
更新日期：2011-04-01 00:00:00
abstract：:A gene encoding a putative DNA helicase from Staphylococcus aureus USA300 was cloned and expressed in Escherichia coli. The protein was purified to over 90% purity by chromatography. The purified enzyme, SauUSI, predominantly cleaves modified DNA containing 5mC and 5-hydroxymethylcytosine. Cleavage of 5mC-modified pla...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkr098
更新日期：2011-07-01 00:00:00
abstract：:Binding of the DnaA protein to oriC leads to DNA melting within the DNA unwinding element (DUE) and initiates replication of the bacterial chromosome. Helicobacter pylori oriC was previously identified as a region localized upstream of dnaA and containing a cluster of DnaA boxes bound by DnaA protein with a high affin...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gks742
更新日期：2012-10-01 00:00:00
abstract：:A method is described which allows selection of sequences which can substitute for the normal AATAAA hexanucleotide involved in polyadenylation of SV40 late mRNAs. Plaques were generated from viral DNA lacking the motif, forcing acquisition of substitute sequences. Four variants were characterized. All displayed wild-...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/13.22.8053
更新日期：1985-11-25 00:00:00
abstract：:The results of differential expression analyses provide scientists with hundreds to thousands of differentially expressed genes that need to be interpreted in light of the biology of the specific system under study. This requires mapping the genes to functional classifications that can be, for example, the KEGG pathwa...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkt516
更新日期：2013-07-01 00:00:00
abstract：:UV-irradiation (lambda = 254 nm) of liquid aqueous solutions of deoxyguanosine in the presence of oxygen at pH less than 7 causes an intensive degradation of nucleoside. The quantum yield estimated from A254 decrease for the reaction mixture was found to be 1.5X10(-4) at doses to 150 E/mole. The rate of A254 decrease ...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/4.4.955
更新日期：1977-04-01 00:00:00
abstract：:Given the inherent limitations of in silico studies relying solely on DNA sequence analysis, the functional characterization of mammalian promoters and associated cis-regulatory elements requires experimental support, which demands cloning and analysis of putative promoter regions. Focusing on human chromosome 21, we ...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkq402
更新日期：2010-10-01 00:00:00
abstract：:As proteomics initiatives mature, the need will arise for the multiple visualization of proteins and supramolecular complexes within their true context, in situ. Single-stranded DNA and RNA aptamers can be used for low resolution imaging of cellular receptors and cytoplasmic proteins by light microscopy (LM). These te...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gnh164
更新日期：2004-11-23 00:00:00
abstract：:Genome editing using clustered regularly interspaced short palindromic repeats (CRISPR)/CRISPR-associated protein 9 (Cas9) predominantly induces non-homologous end joining (NHEJ), which generates random insertions or deletions, whereas homology-directed repair (HDR), which generates precise recombination products, is ...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gky264
更新日期：2018-05-18 00:00:00
abstract：:Eukaryotic topoisomerase II (topo II) is the essential decatenase of newly replicated chromosomes and the main relaxase of nucleosomal DNA. Apart from these general tasks, topo II participates in more specialized functions. In mammals, topo IIα interacts with specific RNA polymerases and chromatin-remodeling complexes...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkt707
更新日期：2013-11-01 00:00:00
abstract：:The yeast retrotransposon Ty encodes proteins that assemble into virus-like particles (Ty-VLPs) which can be readily purified. We have recently shown that expression of the pl protein encoded by the TYA gene of Ty is sufficient for particle formation. In this paper we show that when a heterologous coding sequence, hum...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/15.18.7571
更新日期：1987-09-25 00:00:00
