-
1
-
-
85016096622
-
Ensembl 2017
-
Aken, B.L., Achuthan, P., Akanni, W., Amode, M.R., Bernsdorff, F., Bhai, J., Billis, K., Carvalho-Silva, D., Cummins, C., Clapham, P., et al. (2017) Ensembl 2017. Nucleic Acids Res., 45, D635-D642.
-
(2017)
Nucleic Acids Res
, vol.45
, pp. D635-D642
-
-
Aken, B.L.1
Achuthan, P.2
Akanni, W.3
Amode, M.R.4
Bernsdorff, F.5
Bhai, J.6
Billis, K.7
Carvalho-Silva, D.8
Cummins, C.9
Clapham, P.10
-
2
-
-
84976878634
-
The UCSC Genome Browser database: 2016 update
-
Speir, M.L., Zweig, A.S., Rosenbloom, K.R., Raney, B.J., Paten, B., Nejad, P., Lee, B.T., Learned, K., Karolchik, D., Hinrichs, A.S., et al. (2016) The UCSC Genome Browser database: 2016 update. Nucleic Acids Res., 44, D717-D725.
-
(2016)
Nucleic Acids Res
, vol.44
, pp. D717-D725
-
-
Speir, M.L.1
Zweig, A.S.2
Rosenbloom, K.R.3
Raney, B.J.4
Paten, B.5
Nejad, P.6
Lee, B.T.7
Learned, K.8
Karolchik, D.9
Hinrichs, A.S.10
-
3
-
-
84890037468
-
Infernal 1.1: 100-fold faster RNA homology searches
-
Nawrocki, E.P., Eddy, S.R. (2013) Infernal 1.1: 100-fold faster RNA homology searches. Bioinformatics, 29, 2933-2935.
-
(2013)
Bioinformatics
, vol.29
, pp. 2933-2935
-
-
Nawrocki, E.P.1
Eddy, S.R.2
-
4
-
-
84946735654
-
Gene Ontology Consortium: Going forward
-
Gene Ontology Consortium
-
Gene Ontology Consortium (2015) Gene Ontology Consortium: Going forward. Nucleic Acids Res., 43, D1049-D1056.
-
(2015)
Nucleic Acids Res
, vol.43
, pp. D1049-D1056
-
-
-
5
-
-
22044443709
-
The Sequence Ontology: A tool for the unification of genome annotations
-
Eilbeck, K., Lewis, S.E., Mungall, C.J., Yandell, M., Stein, L., Durbin, R., Ashburner, M. (2005) The Sequence Ontology: A tool for the unification of genome annotations. Genome Biol., 6, R44.
-
(2005)
Genome Biol
, vol.6
, pp. R44
-
-
Eilbeck, K.1
Lewis, S.E.2
Mungall, C.J.3
Yandell, M.4
Stein, L.5
Durbin, R.6
Ashburner, M.7
-
6
-
-
78651323093
-
Rfam:Wikipedia clans and the 'decimal' release
-
Gardner, P.P., Daub, J., Tate, J., Moore, B.L., Osuch, I.H., Griffiths-Jones, S., Finn, R.D., Nawrocki, E.P., Kolbe, D.L., Eddy, S.R., et al. (2011) Rfam:Wikipedia, clans and the 'decimal' release. Nucleic Acids Res., 39, D141-D145.
-
(2011)
Nucleic Acids Res
, vol.39
, pp. D141-D145
-
-
Gardner, P.P.1
Daub, J.2
Tate, J.3
Moore, B.L.4
Osuch, I.H.5
Griffiths-Jones, S.6
Finn, R.D.7
Nawrocki, E.P.8
Kolbe, D.L.9
Eddy, S.R.10
-
7
-
-
0037252684
-
Rfam: An RNA family database
-
Griffiths-Jones, S., Bateman, A., Marshall, M., Khanna, A., Eddy, S.R. (2003) Rfam: An RNA family database. Nucleic Acids Res., 31, 439-441.
-
(2003)
Nucleic Acids Res
, vol.31
, pp. 439-441
-
-
Griffiths-Jones, S.1
Bateman, A.2
Marshall, M.3
Khanna, A.4
Eddy, S.R.5
-
8
-
-
84946094179
-
Rfam 12.0: Updates to the RNA families database
-
Nawrocki, E.P., Burge, S.W., Bateman, A., Daub, J., Eberhardt, R.Y., Eddy, S.R., Floden, E.W., Gardner, P.P., Jones, T.A., Tate, J., et al. (2015) Rfam 12.0: Updates to the RNA families database. Nucleic Acids Res., 43, D130-D137.
-
(2015)
Nucleic Acids Res
, vol.43
, pp. D130-D137
-
-
Nawrocki, E.P.1
Burge, S.W.2
Bateman, A.3
Daub, J.4
Eberhardt, R.Y.5
Eddy, S.R.6
Floden, E.W.7
Gardner, P.P.8
Jones, T.A.9
Tate, J.10
-
9
-
-
85016152611
-
European Nucleotide Archive in 2016
-
Toribio, A.L., Alako, B., Amid, C., Cerde ño-Tarrága, A., Clarke, L., Cleland, I., Fairley, S., Gibson, R., Goodgame, N., Hoopen ten, 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
Cerdeño-Tarrága, A.4
Clarke, L.5
Cleland, I.6
Fairley, S.7
Gibson, R.8
Goodgame, N.9
Hoopenten, P.10
-
10
-
-
85016097728
-
Minimizing proteome redundancy in the UniProt Knowledgebase
-
Bursteinas, B., Britto, R., Bely, B., Auchincloss, A., Rivoire, C., Redaschi, N., O'Donovan, C., Martin, M.J. (2016) Minimizing proteome redundancy in the UniProt Knowledgebase. Database, 2016, baw139.
-
(2016)
Database
, vol.2016
, pp. baw139
-
-
Bursteinas, B.1
Britto, R.2
Bely, B.3
Auchincloss, A.4
Rivoire, C.5
Redaschi, N.6
O'Donovan, C.7
Martin, M.J.8
-
11
-
-
85014768147
-
Interactive tree of life (iTOL) v3: An online tool for the display and annotation of phylogenetic and other trees
-
Letunic, I., Bork, P. (2016) Interactive tree of life (iTOL) v3: An online tool for the display and annotation of phylogenetic and other trees. Nucleic Acids Res., 44, W242-W245.
-
(2016)
Nucleic Acids Res
, vol.44
, pp. W242-W245
-
-
Letunic, I.1
Bork, P.2
-
12
-
-
84976887033
-
Ensembl Genomes 2016: More genomes, more complexity
-
Kersey, P.J., Allen, J.E., Armean, I., Boddu, S., Bolt, B.J., Carvalho-Silva, D., Christensen, M., Davis, P., Falin, L.J., Grabmueller, C., et al. (2016) Ensembl Genomes 2016: More genomes, more complexity. Nucleic Acids Res., 44, D574-D580.
-
(2016)
Nucleic Acids Res
, vol.44
, pp. D574-D580
-
-
Kersey, P.J.1
Allen, J.E.2
Armean, I.3
Boddu, S.4
Bolt, B.J.5
Carvalho-Silva, D.6
Christensen, M.7
Davis, P.8
Falin, L.J.9
Grabmueller, C.10
-
13
-
-
84976871272
-
Reference sequence (RefSeq) database at NCBI: Current status, taxonomic expansion, functional annotation
-
O'Leary, N.A., Wright, M.W., Brister, J.R., Ciufo, S., Haddad, D., McVeigh, R., Rajput, B., Robbertse, B., Smith-White, B., Ako-Adjei, D., et al. (2016) Reference sequence (RefSeq) database at NCBI: Current status, taxonomic expansion, functional annotation. Nucleic Acids Res., 44, D733-D745.
-
(2016)
Nucleic Acids Res
, vol.44
, pp. D733-D745
-
-
O'Leary, N.A.1
Wright, M.W.2
Brister, J.R.3
Ciufo, S.4
Haddad, D.5
McVeigh, R.6
Rajput, B.7
Robbertse, B.8
Smith-White, B.9
Ako-Adjei, D.10
-
14
-
-
84922371409
-
The Ensembl REST API: Ensembl Data for Any Language
-
Yates, A., Beal, K., Keenan, S., McLaren, W., Pignatelli, M., Ritchie, G.R.S., Ruffier, M., Taylor, K., Vullo, A., Flicek, P. (2015) The Ensembl REST API: Ensembl Data for Any Language. Bioinformatics, 31, 143-145.
-
(2015)
Bioinformatics
, vol.31
, pp. 143-145
-
-
Yates, A.1
Beal, K.2
Keenan, S.3
McLaren, W.4
Pignatelli, M.5
Ritchie, G.R.S.6
Ruffier, M.7
Taylor, K.8
Vullo, A.9
Flicek, P.10
-
15
-
-
84994591228
-
A statistical test for conserved RNA structure shows lack of evidence for structure in lncRNAs
-
Rivas, E., Clements, J., Eddy, S.R. (2017) A statistical test for conserved RNA structure shows lack of evidence for structure in lncRNAs. Nat. Methods, 14, 45-48.
-
(2017)
Nat. Methods
, vol.14
, pp. 45-48
-
-
Rivas, E.1
Clements, J.2
Eddy, S.R.3
-
16
-
-
78650791283
-
R2R-software to speed the depiction of aesthetic consensus RNA secondary structures
-
Weinberg, Z., Breaker, R.R. (2011) R2R-software to speed the depiction of aesthetic consensus RNA secondary structures. BMC Bioinformatics, 12, 3.
-
(2011)
BMC Bioinformatics
, vol.12
, pp. 3
-
-
Weinberg, Z.1
Breaker, R.R.2
-
17
-
-
33745628336
-
Structure of the S-adenosylmethionine riboswitch regulatory mRNA element
-
Montange, R.K., Batey, R.T. (2006) Structure of the S-adenosylmethionine riboswitch regulatory mRNA element. Nature, 441, 1172-1175.
-
(2006)
Nature
, vol.441
, pp. 1172-1175
-
-
Montange, R.K.1
Batey, R.T.2
-
18
-
-
84929279894
-
HrrF is the Fur-regulated small RNA in nontypeable Haemophilus influenzae
-
Santana, E.A., Harrison, A., Zhang, X., Baker, B.D., Kelly, B.J., White, P., Liu, Y., Munson, R.S. Jr (2014) HrrF is the Fur-regulated small RNA in nontypeable Haemophilus influenzae. PLoS One, 9, e105644.
-
(2014)
PLoS One
, vol.9
, pp. e105644
-
-
Santana, E.A.1
Harrison, A.2
Zhang, X.3
Baker, B.D.4
Kelly, B.J.5
White, P.6
Liu, Y.7
Munson, R.S.8
-
19
-
-
84866147799
-
Novel iron-regulated and Fur-regulated small regulatory RNAs in Aggregatibacter actinomycetemcomitans
-
Amarasinghe, J.J., Connell, T.D., Scannapieco, F.A., Haase, E.M. (2012) Novel iron-regulated and Fur-regulated small regulatory RNAs in Aggregatibacter actinomycetemcomitans. Mol. Oral Microbiol., 27, 327-349.
-
(2012)
Mol. Oral Microbiol
, vol.27
, pp. 327-349
-
-
Amarasinghe, J.J.1
Connell, T.D.2
Scannapieco, F.A.3
Haase, E.M.4
-
20
-
-
84925068422
-
Bacterial riboswitches cooperatively bind Ni(2+) or Co(2+) ions and control expression of heavy metal transporters
-
Furukawa, K., Ramesh, A., Zhou, Z., Weinberg, Z., Vallery, T., Winkler, W.C., Breaker, R.R. (2015) Bacterial riboswitches cooperatively bind Ni(2+) or Co(2+) ions and control expression of heavy metal transporters. Mol. Cell, 57, 1088-1098.
-
(2015)
Mol. Cell
, vol.57
, pp. 1088-1098
-
-
Furukawa, K.1
Ramesh, A.2
Zhou, Z.3
Weinberg, Z.4
Vallery, T.5
Winkler, W.C.6
Breaker, R.R.7
-
21
-
-
84937399217
-
New classes of self-cleaving ribozymes revealed by comparative genomics analysis
-
Weinberg, Z., Kim, P.B., Chen, T.H., Li, S., Harris, K.A., Lünse, C.E., Breaker, R.R. (2015) New classes of self-cleaving ribozymes revealed by comparative genomics analysis. Nat. Chem. Biol., 11, 606-610.
-
(2015)
Nat. Chem. Biol
, vol.11
, pp. 606-610
-
-
Weinberg, Z.1
Kim, P.B.2
Chen, T.H.3
Li, S.4
Harris, K.A.5
Lünse, C.E.6
Breaker, R.R.7
-
22
-
-
78149264799
-
Identification of small RNAs in Francisella tularensis
-
Postic, G., Frapy, E., Dupuis, M., Dubail, I., Livny, J., Charbit, A., Meibom, K.L. (2010) Identification of small RNAs in Francisella tularensis. BMC Genomics, 11, 625.
-
(2010)
BMC Genomics
, vol.11
, pp. 625
-
-
Postic, G.1
Frapy, E.2
Dupuis, M.3
Dubail, I.4
Livny, J.5
Charbit, A.6
Meibom, K.L.7
-
23
-
-
0019443182
-
Sequence homologies between eukaryotic 5.8S rRNA and the 5' end of prokaryotic 23S rRNa: Evidences for a common evolutionary origin
-
Jacq, B. (1981) Sequence homologies between eukaryotic 5.8S rRNA and the 5' end of prokaryotic 23S rRNa: Evidences for a common evolutionary origin. Nucleic Acids Res., 9, 2913-2932.
-
(1981)
Nucleic Acids Res
, vol.9
, pp. 2913-2932
-
-
Jacq, B.1
-
24
-
-
84946780151
-
RNAIII of the Staphylococcus aureus agr system activates global regulator MgrA by stabilizing mRNA
-
Gupta, R.K., Luong, T.T., Lee, C.Y. (2015) RNAIII of the Staphylococcus aureus agr system activates global regulator MgrA by stabilizing mRNA. Proc. Natl. Acad. Sci. U.S.A., 112, 14036-14041.
-
(2015)
Proc. Natl. Acad. Sci. U.S.A
, vol.112
, pp. 14036-14041
-
-
Gupta, R.K.1
Luong, T.T.2
Lee, C.Y.3
-
25
-
-
77952368550
-
Mammalian microRNAs: Experimental evaluation of novel and previously annotated genes
-
Chiang, H.R., Schoenfeld, L.W., Ruby, J.G., Auyeung, V.C., Spies, N., Baek, D., Johnston, W.K., Russ, C., Luo, S., Babiarz, J.E., et al. (2010) Mammalian microRNAs: Experimental evaluation of novel and previously annotated genes. Genes Dev., 24, 992-1009.
-
(2010)
Genes Dev
, vol.24
, pp. 992-1009
-
-
Chiang, H.R.1
Schoenfeld, L.W.2
Ruby, J.G.3
Auyeung, V.C.4
Spies, N.5
Baek, D.6
Johnston, W.K.7
Russ, C.8
Luo, S.9
Babiarz, J.E.10
-
26
-
-
85016042529
-
RNAcentral: A comprehensive database of non-coding RNA sequences
-
The RNAcentral Consortium
-
The RNAcentral Consortium (2017) RNAcentral: A comprehensive database of non-coding RNA sequences. Nucleic Acids Res., 45, D128-D134.
-
(2017)
Nucleic Acids Res
, vol.45
, pp. D128-D134
-
-
-
27
-
-
33745634395
-
Cd-hit: A fast program for clustering and comparing large sets of protein or nucleotide sequences
-
Li, W., Godzik, A. (2006) Cd-hit: A fast program for clustering and comparing large sets of protein or nucleotide sequences. Bioinformatics, 22, 1658-1659.
-
(2006)
Bioinformatics
, vol.22
, pp. 1658-1659
-
-
Li, W.1
Godzik, A.2
|