ライフサイエンスコーパス: EMBL

1 f the European Molecular Biology Laboratory (EMBL).

2 vailable in public databases (SWISS-PROT and EMBL).

3 xternal data sources (e.g. NCBI taxonomy and EMBL).

4 We report 5805bp of novel sequence (GenBank/EMBL Accession No.

5 A fourth variant reported earlier (GenBank/EMBL accession No.

6 anum tuberosum), designated POTLX-3 (GenBank/EMBL accession no. U60202), in defense responses against

7 ells expressing the rat heart RHE-1 (NCX1.1, EMBL accession number ) or the rat brain RBE-2 (NCX1.5,

8 encing project has identified a gene (orf16, EMBL accession number D38161) which exhibits significant

9 The alignments are stored in the EMBL-Align database and can be queried from the EBI SRS

10 in CLUSTALW format as well as a new standard EMBL-Align flat file format.

11 abase of multiple sequence alignments called EMBL-Align.

12 nce data have been deposited in the GenBank, EMBL and DDBJ databases under BioProject number PRJEB371

13 ration (INSDC), comprising the GenBank, ENA (EMBL) and DDBJ databases.

14 , the European Molecular Biology Laboratory (EMBL) and the Institute for Bioengineering of Catalonia

15 These include extended EMBL-Bank and SRA-data submission services, extended ENA

16 search mainstream sequence databases such as EMBL-Bank and UniProt, and more than 2000 completed geno

17 EMBL-Bank is located and maintained at the European Bioi

18 t patent sequence databases, which cover the EMBL-Bank nucleotides patent class and the patent protei

19 , the European Molecular Biology Laboratory (EMBL-Bank) non-redundant nucleotide database, the Univer

20 s, which store information on DNA sequences (EMBL-Bank), protein sequences (SWISS-PROT and TrEMBL), p

21 , APIs exist for core data resources such as EMBL-Bank, Ensembl, UniProt, InterPro, PDB and ArrayExpr

22 ce Read Archive (SRA), the Trace Archive and EMBL-Bank.

23 t the European Molecular Biology Laboratory (EMBL) between 1997 and 2020.

24 syntax, there is now a demand to distribute EMBL data in an XML format.

25 rom this article can be found in the GenBank/EMBL data libraries under accession numbers BE 640669 to

26 rom this article can be found in the GenBank/EMBL data libraries under accession numbers DU 667459 to

27 Data exchange with the EMBL Data Library and the DNA Data Bank of Japan helps e

28 Data exchange with the EMBL Data Library and the DNA Data Bank of Japan helps e

29 Daily data exchange with the EMBL Data Library in Europe and the DNA Data Bank of Jap

30 Daily data exchange with the EMBL Data Library in the UK and the DNA Data Bank of Jap

31 Daily data exchange with the EMBL Data Library in the UK and the DNA Data Bank of Jap

32 bed in this paper have been submitted to the EMBL data library under accession nos. AJ0223728 and AF0

33 ce tool that employs CORBA servers to access EMBL data, and distributes the data in XML format via a

34 The major contributors to the EMBL database are individual authors and genome project

35 Major contributors to the EMBL database are individual scientists and genome proje

36 Sequence alignment with EMBL database entries revealed identity to the published

37 e-fly using sequences directly retrieved via EMBL database queries, or by entering or uploading user

38 A homology search of the GenBank/EMBL database revealed that the amino acid sequence of t

39 A search of the EMBL database revealed that the sequences of the two sub

40 inst (i) all gene sequences from the GenBank-EMBL database, (ii) six A. actinomycetemcomitans, one B.

41 lones did not match sequences in the GenBank/EMBL database, indicating that they may be novel genes.

42 FASTA and Smith-Waterman) on a subset of the EMBL database.

43 ysed 998 Arabidopsis intron sequences in the EMBL database.

44 ches for homologous sequences in the GenBank/EMBL databases have revealed that: (a) the open-ended OR

45 f this clone and comparison with the GenBank/EMBL databases indicated that it did not match any genes

46 sequence homology search of the GenBank and EMBL databases revealed that the amino terminus of LgtF

47 ced and compared with entries in the GenBank/EMBL databases.

48 distinct alleles of the IRAK-4 gene (GenBank/EMBL/DDBJ accession nos. AF445802 and AY186092).

49 Swiss-Prot, in turn, relies on GenBank/Embl/DDJP for predicted proteins from complete genomes o

50 iative, the Matched Annotation from NCBI and EMBL-EBI (MANE) collaboration, to converge on human gene

51 Select and Matched Annotation from NCBI and EMBL-EBI (MANE).

52 The Cancer Genome Atlas (TCGA) (n = 414) and EMBL-EBI (n = 53), CLEAR score demonstrated both superio

53 have been moved into the IntAct database at EMBL-EBI and are merged with the existing IntAct dataset

54 OLS4 has replaced OLS3 in production at EMBL-EBI and has a backward compatible API supporting us

55 Training is a core mission of EMBL-EBI and in 2018 our training team served more users

56 arch across the databases available from the EMBL-EBI and to explore the network of cross-references

57 or sample metadata storage and connection to EMBL-EBI archives and other resources.

58 Data are deposited in the appropriate EMBL-EBI archives, including the European Nucleotide Arc

59 The Jackson Laboratory and EMBL-EBI are addressing these challenges by co-developin

60 from NCBI Gene Expression Omnibus (GEO) and EMBL-EBI ArrayExpress (AE) repositories were comprehensi

61 The EMBL-EBI Complex Portal is a knowledgebase of macromolec

62 EMBL-EBI data resources also exchange data with hundreds

63 zes the latest developments in services that EMBL-EBI data resources provide to scientific communitie

64 est developments in the services provided by EMBL-EBI data resources to scientific communities global

65 hicken assembly, integrating "NCBI RefSeq", "EMBL-EBI Ensembl/GENCODE" reference annotations and othe

66 The EMBL-EBI Expression Atlas is an added value knowledge ba

67 This year's update for EMBL-EBI focuses on data exchanges among resources, both

68 an is freely available for download from the EMBl-EBI FTP site and the open source code is hosted at

69 is available for download here: and from the EMBL-EBI FTP:.

70 ature review and data collection through the EMBL-EBI GWAS Catalog, PubMed, and metabolomix.com, we e

71 EMBL-EBI has been able to build on its position to contr

72 hermore, we highlight projects through which EMBL-EBI has contributed to the development of community

73 Secondly, EMBL-EBI has strived to continue its support of the life

74 Firstly, EMBL-EBI has used its infrastructure, expertise and netw

75 This year's service update for EMBL-EBI includes new resources, PGS Catalog and AlphaFo

76 EMBL-EBI is in an ideal position to address these challe

77 t the Wellcome Genome Campus in Hinxton, UK, EMBL-EBI is one of six sites of the European Molecular B

78 t the Wellcome Genome Campus in Hinxton, UK, EMBL-EBI is one of six sites of the European Molecular B

79 The BioSamples database at EMBL-EBI is the central institutional repository for sam

80 Since 2009 the EMBL-EBI Job Dispatcher framework has provided free acce

81 The EMBL-EBI Job Dispatcher sequence analysis tools framewor

82 EMBL-EBI maintains over 150 analytical bioinformatics to

83 The BioSamples database at EMBL-EBI provides a central hub for sample metadata stor

84 The EMBL-EBI provides access to various mainstream sequence

85 tivity that exists between data resources at EMBL-EBI provides easy, quick and precise navigation and

86 tivity that exists between data resources at EMBL-EBI provides easy, quick and precise navigation and

87 The EMBL-EBI provides free access to popular bioinformatics

88 Since 2009 the EMBL-EBI provides free and unrestricted access to severa

89 enhance the interconnectivity between public EMBL-EBI resources and ultimately enhance biological dat

90 ata flows and further integration with other EMBL-EBI resources for the representation of multi-omics

91 These developments aim to ensure EMBL-EBI resources meet the current and future needs of

92 These are integrated into popular EMBL-EBI resources such as UniProt, InterPro, ENA and En

93 ature records, collected through a number of EMBL-EBI resources.

94 sample metadata storage and linkage to other EMBL-EBI resources.

95 perimental variables and data resided in the EMBL-EBI resources.

96 ition Database for Biomolecular Data and the EMBL-EBI sample metadata hub.

97 The EMBL-EBI search and sequence analysis tools frameworks p

98 Content is distributed under the EMBL-EBI Terms of Use available at

99 and shared between the Australian cohort and EMBL-EBI to address common challenges in bioinformatics

100 Here, we describe how the EMBL-EBI's biomolecular databases are evolving to cope w

101 Training is one of EMBL-EBI's core missions and a key component of the prov

102 9 pandemic has highlighted the importance of EMBL-EBI's core principles, including international coop

103 ools frameworks provide integrated access to EMBL-EBI's data resources and core bioinformatics analyt

104 public resources and provide an overview of EMBL-EBI's database collection to complement the reviews

105 pyter Notebook coding environments hosted on EMBL-EBI's Embassy Cloud, an academically hosted compute

106 This enabled us to support both EMBL-EBI's Expression Atlas and GEO RNA-seq Experiments

107 nome and pathway browsers interface with the EMBL-EBI's Expression Atlas to enable the projection of

108 d query, EBIMed retrieves the abstracts from EMBL-EBI's installation of Medline and filters for sente

109 part the Single Cell Expression Atlas () are EMBL-EBI's knowledgebases for gene and protein expressio

110 the improvements that have been developed to EMBL-EBI's online training offering.

111 Expression Atlas is EMBL-EBI's resource for gene and protein expression.

112 s resources and data are available under the EMBL-EBI's Terms of Use at and under Apache 2.0 at

113 ge analyses in a virtual environment next to EMBL-EBI's vast public data resources.

114 rom any search and any starting point within EMBL-EBI's websites.

115 aboratory-European Bioinformatics Institute (EMBL-EBI) and 2 Australian organisations, Bioplatforms A

116 CBI), the European Bioinformatics Institute (EMBL-EBI) and Swiss Institute for Bioinformatics (SIB).

117 at EMBL's European Bioinformatics Institute (EMBL-EBI) assigns unique symbols and names to human gene

118 ed at the European Bioinformatics Institute (EMBL-EBI) assigns unique symbols and names to human gene

119 ed by the European Bioinformatics Institute (EMBL-EBI) cover major areas of biological and biomedical

120 ce at the European Bioinformatics Institute (EMBL-EBI) designed to fill this gap.

121 aboratory-European Bioinformatics Institute (EMBL-EBI) formalized their relationship through the adop

122 The European Bioinformatics Institute (EMBL-EBI) has been providing access to mainstream databa

123 2004 the European Bioinformatics Institute (EMBL-EBI) has provided access to a wide range of databas

124 y and the European Bioinformatics Institute (EMBL-EBI) have jointly run bioinformatics training cours

125 oratory's European Bioinformatics Institute (EMBL-EBI) in Hinxton, UK; and GenBank at National Center

126 oratory's European Bioinformatics Institute (EMBL-EBI) is one of the world's leading sources of publi

127 The European Bioinformatics Institute (EMBL-EBI) is one of three organizations worldwide that p

128 The European Bioinformatics Institute (EMBL-EBI) is unique in Europe and is one of only two org

129 The European Bioinformatics Institute (EMBL-EBI) maintains a comprehensive range of freely avai

130 oratory's European Bioinformatics Institute (EMBL-EBI) provides freely accessible services, both for

131 The European Bioinformatics Institute (EMBL-EBI) provides public access to patent data, includi

132 se at the European Bioinformatics Institute (EMBL-EBI) recommended by most journals as a repository f

133 k at EMBL-European Bioinformatics Institute (EMBL-EBI), and we consult extensively with life science

134 oratory's European Bioinformatics Institute (EMBL-EBI), has for almost forty years continued in its m

135 oratory's European Bioinformatics Institute (EMBL-EBI).

136 armonize the archival data infrastructure at EMBL-EBI, and ArrayExpress is being migrated to BioStudi

137 in-the-trainer instructor course, again with EMBL-EBI, and subsequently successfully delivered train-

138 Within EMBL-EBI, data resources exchange data through a rich ne

139 is an archive of functional genomics data at EMBL-EBI, established in 2002, initially as an archive f

140 e), the European Bioinformatics Institute's (EMBL-EBI, Hinxton, UK) IntAct, the Molecular Interaction

141 many popular data resources provided at the EMBL-EBI.

142 the database was redesigned and relocated to EMBL-EBI.

143 lustrate this with examples from our work at EMBL-EBI.

144 earch and access functionalities provided at EMBL-EBI.

145 rogram is available by anonymous ftp at: ftp.embl-ebi.ac.uk under directory /pub/software/unix, file:

146 Axis Mediates Pregnancy Insulin Resistance; EMBL-ENA ID: PRJEB45047.

147 logy Laboratory European Nucleotide Archive (EMBL-ENA) and Kabat as well as structure data from the P

148 Data extracted from HGVbase are mapped to EMBL entries to confirm whether the mutation occurs in a

149 f the European Molecular Biology Laboratory (EMBL), Europe's only intergovernmental life sciences org

150 The EMBL Nucleotide Sequence Database at the EMBL European Bioinformatics Institute, UK, offers a lar

151 At the EMBL European Bioinformatics Institute, we have develope

152 We work at EMBL-European Bioinformatics Institute (EMBL-EBI), and w

153 m the author and has also been placed on the EMBL file server.

154 e 50 000 ESTs in est10.dat (an EST subset of EMBL) finds an error rate of 0.86%, principally due to t

155 ntire expressed sequence tag (EST) subset of EMBL found a contamination rate of 0.27%.

156 o the European Molecular Biology Laboratory (EMBL)/GenBank feature table format for reading and displ

157 notation can be read and written directly in EMBL, GenBank and GFF format.

158 riendly method of loading in sequence files (EMBL, GenBank, GFF) as well as data from relational data

159 other information sources such as PubMed and EMBL/GenBank are provided.

160 or this article have been deposited with the EMBL/GenBank data libraries under accession numbers CB 9

161 d with those of known genes entered into the EMBL/GenBank database.

162 In addition to the DDBJ/EMBL/GenBank feature table format, we share metadata for

163 from over 2700 component sequences from the EMBL/GenBank/DDBJ databases.

164 lated chemokine has been identified from the EMBL/GenBank/DDBJ expressed sequence tag database.

165 ssion of multiple sequence alignment data to EMBL has grown 30-fold in the past 10 years, creating a

166 e first annual BioMalPar meeting was held at EMBL Heidelberg, bringing together researchers from arou

167 Peer Bork, EMBL Heidelberg, is the winner of the Accomplishments by

168 the European Molecular Biology Laboratory's (EMBL) Heidelberg laboratory and the European Bioinformat

169 ieval of Interacting Genes/Proteins (STRING, EMBL, Heidelberg, Germany).

170 From October 12-15th, 2016, EMBOmid R:EMBL held a symposium to bring together those in the sci

171 f the European Molecular Biology Laboratory (EMBL) in Heidelberg, is to ensure that the growing body

172 ry school science teachers within Europe and EMBL member states.

173 BEAUTY searches of the NCBI and EMBL non-redundant protein sequence databases are availa

174 /human gene pairs has been compiled from the EMBL nucleotide database, and their corresponding featur

175 inst the 8400 adult halibut sequences in the EMBL nucleotide database.

176 RNA genes in the taxonomic divisions of the EMBL nucleotide database.

177 own sequences against the latest data in the EMBL Nucleotide Sequence Database and SWISS-PROT.

178 own sequences against the latest data in the EMBL Nucleotide Sequence Database and SWISS-PROT.

179 nst the most currently available data in the EMBL Nucleotide Sequence Database and SWISS-PROT.

180 nst the most currently available data in the EMBL Nucleotide Sequence Database and SWISS-PROT.

181 own sequences against the latest data in the EMBL Nucleotide Sequence Database and SWISS-PROT.

182 ean Nucleotide Archive (ENA), comprising the EMBL Nucleotide Sequence Database and the Ensembl Trace

183 The EMBL Nucleotide Sequence Database at the EMBL European B

184 The EMBL Nucleotide Sequence Database constitutes Europe's p

185 The EMBL Nucleotide Sequence Database incorporates, organise

186 The EMBL Nucleotide Sequence Database incorporates, organize

187 The EMBL Nucleotide Sequence Database is a comprehensive dat

188 The EMBL Nucleotide Sequence Database is maintained at the E

189 records are distributed daily and the whole EMBL Nucleotide Sequence Database is released four times

190 Data in the EMBL Nucleotide Sequence Database is traditionally avail

191 nstitute (EBI) maintains and distributes the EMBL Nucleotide Sequence database, Europe's primary nucl

192 The Ensembl Trace Archive and the EMBL Nucleotide Sequence Database, known together as the

193 The EMBL Nucleotide Sequence Database, maintained at the Eur

194 The EMBL Nucleotide Sequence Database, maintained at the Eur

195 The EMBL Nucleotide Sequence Database, maintained at the Eur

196 their own sequences against the data in the EMBL Nucleotide Sequence Database, the complete genomic

197 ion of data from many sources, including the EMBL Nucleotide Sequence Database, the UniProt Knowledge

198 The European Molecular Biology Laboratory (EMBL) Nucleotide Sequence Database is maintained at the

199 can read a pair of DNA sequences in GenBank, Embl or Fasta formats, with or without a comparison file

200 90413 but did not correspond exactly to any EMBL or GenBank database sequence.

201 Gene Nomenclature Committee (HGNC) based at EMBL's European Bioinformatics Institute (EMBL-EBI) assi

202 The EMBL Sequence Version Archive is a new publicly availabl

203 Using a P1 and a lambda EMBL subclone, the chromosomal site of the human AQP4 ge

204 GENEBANK/EMBL/SWISS PROT database comparison of all sequences rev

205 e flexible and robust parsing and editing of EMBL/SWISS-PROT databases.

206 The EMBO/EMBL Symposium 'Mechanical Forces in Development' was he

207 se group of scientists assembled at the EMBO/EMBL Symposium 'Metabolism in Time and Space' to discuss

208 The EMBO-EMBL Symposium 'Synthetic Morphogenesis: From Gene Circu

209 The second EMBO-EMBL Symposium 'Synthetic Morphogenesis: From Gene Circu

210 is study have been submitted to DDBJ/GenBank/EMBL under accession numbers EU940701-EU977132 (FLI cDNA