-
1
-
-
85016121450
-
DNA Data Bank of Japan
-
Mashima, J., Kodama, Y., Fujisawa, T., Katayama, T., Okuda, Y., Kaminuma, E., Ogasawara, O., Okubo, K., Nakamura, Y. andTakagi, T. (2017) DNA Data Bank of Japan. Nucleic Acids Res., 45, D25-D31.
-
(2017)
Nucleic Acids Res
, vol.45
, pp. D25-D31
-
-
Mashima, J.1
Kodama, Y.2
Fujisawa, T.3
Katayama, T.4
Okuda, Y.5
Kaminuma, E.6
Ogasawara, O.7
Okubo, K.8
Nakamura, Y.9
Takagi, T.10
-
2
-
-
85016156003
-
-
Benson, D.A., Cavanaugh, M., Clark, K., Karsch-Mizrachi, I., Lipman, D.J., Ostell, J., Sayers, E.W. (2017) GenBank. NucleicAcids Res., 45, D37-D42.
-
(2017)
GenBank. NucleicAcids Res
, vol.45
, pp. D37-D42
-
-
Benson, D.A.1
Cavanaugh, M.2
Clark, K.3
Karsch-Mizrachi, I.4
Lipman, D.J.5
Ostell, J.6
Sayers, E.W.7
-
3
-
-
85016152611
-
European Nucleotide Archive in 2016
-
Toribio, A.L., Alako, B., Amid, C., Cerde no-Tarrága, A., Clarke, L., Cleland, I., Fairley, S., Gibson, R., Goodgame, N., Ten Hoopen, P., et al.(2017) European Nucleotide Archive in 2016. Nucleic Acids Res., 45, D32-D36.
-
(2017)
Nucleic Acids Res
, vol.45
, pp. D32-D36
-
-
Toribio, A.L.1
Alako, B.2
Amid, C.3
Cerdeno-Tarrága, A.4
Clarke, L.5
Cleland, I.6
Fairley, S.7
Gibson, R.8
Goodgame, N.9
Ten Hoopen, P.10
-
4
-
-
84976870063
-
TheInternational Nucleotide Sequence Database Collaboration
-
Cochrane, G., Karsch-Mizrachi, I., Takagi, T. (2016) TheInternational Nucleotide Sequence Database Collaboration. NucleicAcids Res., 44, D48-D50.
-
(2016)
NucleicAcids Res
, vol.44
, pp. D48-D50
-
-
Cochrane, G.1
Karsch-Mizrachi, I.2
Takagi, T.3
-
5
-
-
84862198590
-
The sequence readarchive: Explosive growth of sequencing data
-
Kodama, Y., Shumway, M., Leinonen, R. (2012) The sequence readarchive: Explosive growth of sequencing data. Nucleic Acids Res., 40, D54-D56.
-
(2012)
Nucleic Acids Res
, vol.40
, pp. D54-D56
-
-
Kodama, Y.1
Shumway, M.2
Leinonen, R.3
-
6
-
-
84954097597
-
Toward richer metadata for microbialsequences: Replacing strain-level NCBI taxonomy taxids withBioProject, BioSample and Assembly records
-
Federhen, S., Clark, K., Barrett, T., Parkinson, H., Ostell, J., Kodama, Y., Mashima, J., Nakamura, Y., Cochrane, G. andKarsch-Mizrachi, I. (2014) Toward richer metadata for microbialsequences: Replacing strain-level NCBI taxonomy taxids withBioProject, BioSample and Assembly records. Stand. Genomic Sci., 9, 1275-1277.
-
(2014)
Stand. Genomic Sci
, vol.9
, pp. 1275-1277
-
-
Federhen, S.1
Clark, K.2
Barrett, T.3
Parkinson, H.4
Ostell, J.5
Kodama, Y.6
Mashima, J.7
Nakamura, Y.8
Cochrane, G.9
Karsch-Mizrachi, I.10
-
7
-
-
0037112032
-
Nucleotide sequence databasepolicies
-
Brunak, S., Danchin, A., Hattori, M., Nakamura, H., Shinozaki, K., Matise, T., Preuss, D. (2002) Nucleotide sequence databasepolicies. Science, 298, 1333.
-
(2002)
Science
, vol.298
, pp. 1333
-
-
Brunak, S.1
Danchin, A.2
Hattori, M.3
Nakamura, H.4
Shinozaki, K.5
Matise, T.6
Preuss, D.7
-
8
-
-
84941037696
-
The DDBJ Japanese Genotype-phenotypeArchive for genetic and phenotypic human data
-
Kodama, Y., Mashima, J., Kosuge, T., Katayama, T., Fujisawa, T., Kaminuma, E., Ogasawara, O., Okubo, K., Takagi, T. andNakamura, Y. (2014) The DDBJ Japanese Genotype-phenotypeArchive for genetic and phenotypic human data. Nucleic Acids Res., 43, D18-D22.
-
(2014)
Nucleic Acids Res
, vol.43
, pp. D18-D22
-
-
Kodama, Y.1
Mashima, J.2
Kosuge, T.3
Katayama, T.4
Fujisawa, T.5
Kaminuma, E.6
Ogasawara, O.7
Okubo, K.8
Takagi, T.9
Nakamura, Y.10
-
9
-
-
84891750628
-
NCBI'sDatabase of genotypes and phenotypes: DbGaP
-
Tryka, K.A., Hao, L., Sturcke, A., Jin, Y., Wang, Z.Y., Ziyabari, L., Lee, M., Popova, N., Sharopova, N., Kimura, M., et al. (2014) NCBI'sDatabase of genotypes and phenotypes: DbGaP. Nucleic Acids Res., 42, D975-D979.
-
(2014)
Nucleic Acids Res
, vol.42
, pp. D975-D979
-
-
Tryka, K.A.1
Hao, L.2
Sturcke, A.3
Jin, Y.4
Wang, Z.Y.5
Ziyabari, L.6
Lee, M.7
Popova, N.8
Sharopova, N.9
Kimura, M.10
-
10
-
-
85016105949
-
The dbGaP data browser: Anew tool for browsing dbGaP controlled-access genomic data
-
Wong, K.M., Langlais, K., Tobias, G.S., Fletcher-Hoppe, C., Krasnewich, D., Leeds, H.S., Rodriguez, L.L., Godynskiy, G., Schneider, V.A., Ramos, E.M., et al. (2017) The dbGaP data browser: Anew tool for browsing dbGaP controlled-access genomic data.Nucleic Acids Res., 45, D819-D826.
-
(2017)
Nucleic Acids Res
, vol.45
, pp. D819-D826
-
-
Wong, K.M.1
Langlais, K.2
Tobias, G.S.3
Fletcher-Hoppe, C.4
Krasnewich, D.5
Leeds, H.S.6
Rodriguez, L.L.7
Godynskiy, G.8
Schneider, V.A.9
Ramos, E.M.10
-
11
-
-
84933036123
-
The Europeangenome-phenome archive of human data consented for biomedicalresearch
-
Lappalainen, I., Almeida-King, J., Kumanduri, V., Senf, A., Spalding, J.D., Ur-Rehman, S., Saunders, G., Kandasamy, J., Caccamo, M., Leinonen, R., et al. (2015) The Europeangenome-phenome archive of human data consented for biomedicalresearch. Nat. Genet., 47, 692-695.
-
(2015)
Nat. Genet.
, vol.47
, pp. 692-695
-
-
Lappalainen, I.1
Almeida-King, J.2
Kumanduri, V.3
Senf, A.4
Spalding, J.D.5
Ur-Rehman, S.6
Saunders, G.7
Kandasamy, J.8
Caccamo, M.9
Leinonen, R.10
-
12
-
-
84876581860
-
DDBJ new systemand service refactoring
-
Ogasawara, O., Mashima, J., Kodama, Y., Kaminuma, E., Nakamura, Y., Okubo, K., Takagi, T. (2013) DDBJ new systemand service refactoring. Nucleic Acids Res., 41, D25-D29.
-
(2013)
Nucleic Acids Res
, vol.41
, pp. D25-D29
-
-
Ogasawara, O.1
Mashima, J.2
Kodama, Y.3
Kaminuma, E.4
Nakamura, Y.5
Okubo, K.6
Takagi, T.7
-
13
-
-
33748066310
-
Evidence standards in experimental and inferential INSDC ThirdParty Annotation data
-
Cochrane, G., Bates, K., Apweiler, R., Tateno, Y., Mashima, J., Kosuge, T., Mizrachi, I.K., Schafer, S., Fetchko, M. (2006)Evidence standards in experimental and inferential INSDC ThirdParty Annotation data. OMICS, 10, 105-113.
-
(2006)
OMICS
, vol.10
, pp. 105-113
-
-
Cochrane, G.1
Bates, K.2
Apweiler, R.3
Tateno, Y.4
Mashima, J.5
Kosuge, T.6
Mizrachi, I.K.7
Schafer, S.8
Fetchko, M.9
-
14
-
-
85015225394
-
An atlas of human long non-coding RNAswith accurate 5-ends
-
Hon, C.-C., Ramilowski, J.A., Harshbarger, J., Bertin, N., Rackham, O.J.L., Gough, J., Denisenko, E., Schmeier, S., Poulsen, T.M., Severin, J., et al. (2017) An atlas of human long non-coding RNAswith accurate 5-ends. Nature, 543, 199-204.
-
(2017)
Nature
, vol.543
, pp. 199-204
-
-
Hon, C.-C.1
Ramilowski, J.A.2
Harshbarger, J.3
Bertin, N.4
Rackham, O.J.L.5
Gough, J.6
Denisenko, E.7
Schmeier, S.8
Poulsen, T.M.9
Severin, J.10
-
15
-
-
85016438418
-
Overview of the BioBank Japan Project:study design and profile
-
Nagai, A., Hirata, M., Kamatani, Y., Muto, K., Matsuda, K., Kiyohara, Y., Ninomiya, T., Tamakoshi, A., Yamagata, Z., Mushiroda, T., et al. (2017) Overview of the BioBank Japan Project:study design and profile. J. Epidemiol., 27, S2-S8.
-
(2017)
J. Epidemiol
, vol.27
, pp. S2-S8
-
-
Nagai, A.1
Hirata, M.2
Kamatani, Y.3
Muto, K.4
Matsuda, K.5
Kiyohara, Y.6
Ninomiya, T.7
Tamakoshi, A.8
Yamagata, Z.9
Mushiroda, T.10
-
16
-
-
84891798026
-
DDBJprogress report: A new submission system for leading to a correctannotation
-
Kosuge, T., Mashima, J., Kodama, Y., Fujisawa, T., Kaminuma, E., Ogasawara, O., Okubo, K., Takagi, T., Nakamura, Y. (2014) DDBJprogress report: A new submission system for leading to a correctannotation. Nucleic Acids Res., 42, D44-D49.
-
(2014)
Nucleic Acids Res
, vol.42
, pp. D44-D49
-
-
Kosuge, T.1
Mashima, J.2
Kodama, Y.3
Fujisawa, T.4
Kaminuma, E.5
Ogasawara, O.6
Okubo, K.7
Takagi, T.8
Nakamura, Y.9
-
17
-
-
0032943757
-
DNAData Bank of Japan dealing with large-scale data submission
-
Sugawara, H., Miyazaki, S., Gojobori, T., Tateno, Y. (1999) DNAData Bank of Japan dealing with large-scale data submission. NucleicAcids Res., 27, 25-28.
-
(1999)
NucleicAcids Res
, vol.27
, pp. 25-28
-
-
Sugawara, H.1
Miyazaki, S.2
Gojobori, T.3
Tateno, Y.4
-
18
-
-
0030801002
-
Gapped BLAST and PSI-BLAST:a new generation of protein database search programs
-
Altschul, S.F., Madden, T.L., Schäffer, A.A., Zhang, J., Zhang, Z., Miller, W., Lipman, D.J. (1997) Gapped BLAST and PSI-BLAST:a new generation of protein database search programs. Nucleic AcidsRes., 25, 3389-3402.
-
(1997)
Nucleic AcidsRes
, vol.25
, pp. 3389-3402
-
-
Altschul, S.F.1
Madden, T.L.2
Schäffer, A.A.3
Zhang, J.4
Zhang, Z.5
Miller, W.6
Lipman, D.J.7
-
19
-
-
0027968068
-
CLUSTAL W:improving the sensitivity of progressive multiple sequence alignmentthrough sequence weighting, position-specific gap penalties andweight matrix choice
-
Thompson, J.D., Higgins, D.G., Gibson, T.J. (1994) CLUSTAL W:improving the sensitivity of progressive multiple sequence alignmentthrough sequence weighting, position-specific gap penalties andweight matrix choice. Nucleic Acids Res., 22, 4673-4680.
-
(1994)
Nucleic Acids Res
, vol.22
, pp. 4673-4680
-
-
Thompson, J.D.1
Higgins, D.G.2
Gibson, T.J.3
-
20
-
-
36448991500
-
Clustal W and Clustal X version 2.0
-
Larkin, M.A., Blackshields, G., Brown, N.P., Chenna, R., McGettigan, P.A., McWilliam, H., Valentin, F., Wallace, I.M., Wilm, A., Lopez, R., et al. (2007) Clustal W and Clustal X version 2.0.Bioinformatics, 23, 2947-2948.
-
(2007)
Bioinformatics
, vol.23
, pp. 2947-2948
-
-
Larkin, M.A.1
Blackshields, G.2
Brown, N.P.3
Chenna, R.4
McGettigan, P.A.5
McWilliam, H.6
Valentin, F.7
Wallace, I.M.8
Wilm, A.9
Lopez, R.10
-
21
-
-
0041589545
-
Biological SOAP servers andweb services provided by the public sequence data bank
-
Sugawara, H., Miyazaki, S. (2003) Biological SOAP servers andweb services provided by the public sequence data bank. NucleicAcids Res., 31, 3836-3839.
-
(2003)
NucleicAcids Res
, vol.31
, pp. 3836-3839
-
-
Sugawara, H.1
Miyazaki, S.2
-
22
-
-
0347756649
-
DDBJ in the stream of various biological data
-
Miyazaki, S., Sugawara, H., Ikeo, K., Gojobori, T., Tateno, Y.(2004) DDBJ in the stream of various biological data. Nucleic AcidsRes., 32, D31-D34.
-
(2004)
Nucleic AcidsRes
, vol.32
, pp. D31-D34
-
-
Miyazaki, S.1
Sugawara, H.2
Ikeo, K.3
Gojobori, T.4
Tateno, Y.5
-
23
-
-
67849128708
-
WebAPI for biology with a workflow navigation system
-
Kwon, Y., Shigemoto, Y., Kuwana, Y., Sugawara, H. (2009) WebAPI for biology with a workflow navigation system. Nucleic AcidsRes., 37, W11-W16.
-
(2009)
Nucleic AcidsRes
, vol.37
, pp. W11-W16
-
-
Kwon, Y.1
Shigemoto, Y.2
Kuwana, Y.3
Sugawara, H.4
-
24
-
-
0037100671
-
MAFFT: Anovel method for rapid multiple sequence alignment based on fastFourier transform
-
Katoh, K., Misawa, K., Kuma, K., Miyata, T. (2002) MAFFT: Anovel method for rapid multiple sequence alignment based on fastFourier transform. Nucleic Acids Res., 30, 3059-3066.
-
(2002)
Nucleic Acids Res
, vol.30
, pp. 3059-3066
-
-
Katoh, K.1
Misawa, K.2
Kuma, K.3
Miyata, T.4
-
25
-
-
84875619226
-
MAFFT multiple sequencealignment software version 7: Improvements in performance andusability
-
Katoh, K., Standley, D.M. (2013) MAFFT multiple sequencealignment software version 7: Improvements in performance andusability. Mol. Biol. Evol., 30, 772-780.
-
(2013)
Mol. Biol. Evol
, vol.30
, pp. 772-780
-
-
Katoh, K.1
Standley, D.M.2
-
26
-
-
84988878542
-
BioHackathon series in 2011 and 2012:penetration of ontology and linked data in life science domains
-
Katayama, T., Wilkinson, M.D., Aoki-Kinoshita, K.F., Kawashima, S., Yamamoto, Y., Yamaguchi, A., Okamoto, S., Kawano, S., Kim, J.-D., Wang, Y., et al. (2014) BioHackathon series in 2011 and 2012:penetration of ontology and linked data in life science domains. J.Biomed. Semantics, 5, 5.
-
(2014)
J.Biomed. Semantics
, vol.5
, pp. 5
-
-
Katayama, T.1
Wilkinson, M.D.2
Aoki-Kinoshita, K.F.3
Kawashima, S.4
Yamamoto, Y.5
Yamaguchi, A.6
Okamoto, S.7
Kawano, S.8
Kim, J.-D.9
Wang, Y.10
-
27
-
-
84938792052
-
Implementation of linked data in the lifesciences at BioHackathon 2011
-
Aoki-Kinoshita, K.F., Kinjo, A.R., Morita, M., Igarashi, Y., Chen, Y.-A., Shigemoto, Y., Fujisawa, T., Akune, Y., Katoda, T., Kokubu, A., et al. (2015) Implementation of linked data in the lifesciences at BioHackathon 2011. J. Biomed. Semantics, 6, 3.
-
(2015)
J. Biomed. Semantics
, vol.6
, pp. 3
-
-
Aoki-Kinoshita, K.F.1
Kinjo, A.R.2
Morita, M.3
Igarashi, Y.4
Chen, Y.-A.5
Shigemoto, Y.6
Fujisawa, T.7
Akune, Y.8
Katoda, T.9
Kokubu, A.10
-
28
-
-
84941103248
-
ArrayExpress update-simplifying data submissions
-
Kolesnikov, N., Hastings, E., Keays, M., Melnichuk, O., Tang, Y.A., Williams, E., Dylag, M., Kurbatova, N., Brandizi, M., Burdett, T., et al.(2015) ArrayExpress update-simplifying data submissions. NucleicAcids Res., 43, D1113-D1116.
-
(2015)
NucleicAcids Res
, vol.43
, pp. D1113-D1116
-
-
Kolesnikov, N.1
Hastings, E.2
Keays, M.3
Melnichuk, O.4
Tang, Y.A.5
Williams, E.6
Dylag, M.7
Kurbatova, N.8
Brandizi, M.9
Burdett, T.10
-
29
-
-
84882267735
-
DDBJ read annotation pipeline: A cloud computing-basedpipeline for high-throughput analysis of next-generation sequencingdata
-
Nagasaki, H., Mochizuki, T., Kodama, Y., Saruhashi, S., Morizaki, S., Sugawara, H., Ohyanagi, H., Kurata, N., Okubo, K., Takagi, T., et al.(2013) DDBJ read annotation pipeline: A cloud computing-basedpipeline for high-throughput analysis of next-generation sequencingdata. DNA Res., 20, 383-390.
-
(2013)
DNA Res
, vol.20
, pp. 383-390
-
-
Nagasaki, H.1
Mochizuki, T.2
Kodama, Y.3
Saruhashi, S.4
Morizaki, S.5
Sugawara, H.6
Ohyanagi, H.7
Kurata, N.8
Okubo, K.9
Takagi, T.10
-
30
-
-
85019066712
-
Canu: Scalable and accurate long-readassembly via adaptive k-mer weighting and repeat separation
-
Koren, S., Walenz, B.P., Berlin, K., Miller, J.R., Bergman, N.H. andPhillippy, A.M. (2017) Canu: Scalable and accurate long-readassembly via adaptive k-mer weighting and repeat separation.Genome Res., 27, 722-736.
-
(2017)
Genome Res
, vol.27
, pp. 722-736
-
-
Koren, S.1
Walenz, B.P.2
Berlin, K.3
Miller, J.R.4
Bergman, N.H.5
Phillippy, A.M.6
|