-
1
-
-
0025183708
-
Basic local alignment search tool
-
Altschul, S. F., Gish, W., Miller, W., Myers, E. W. & Lipman, D. J. (1990). Basic local alignment search tool. J Mol Biol 215, 403-410.
-
(1990)
J Mol Biol
, vol.215
, pp. 403-410
-
-
Altschul, S.F.1
Gish, W.2
Miller, W.3
Myers, E.W.4
Lipman, D.J.5
-
2
-
-
67650741685
-
From a consortium sequence to a unified sequence: The Bacillus subtilis 168 reference genome a decade later
-
Authors other
-
Barbe, V., Cruveiller, S., Kunst, F., Lenoble, P., Meurice, G., Sekowska, A., Vallenet, D., Wang, T., Moszer, I. & other authors (2009). From a consortium sequence to a unified sequence: the Bacillus subtilis 168 reference genome a decade later. Microbiology 155, 1758-1775.
-
(2009)
Microbiology
, vol.155
, pp. 1758-1775
-
-
Barbe, V.1
Cruveiller, S.2
Kunst, F.3
Lenoble, P.4
Meurice, G.5
Sekowska, A.6
Vallenet, D.7
Wang, T.8
Moszer, I.9
-
3
-
-
3042521098
-
Improved prediction of signal peptides: SignalP 3.0
-
Bendtsen, J. D., Nielsen, H., Von Heijne, G. & Brunak, S. (2004). Improved prediction of signal peptides: SignalP 3.0. J Mol Biol 340, 783-795.
-
(2004)
J Mol Biol
, vol.340
, pp. 783-795
-
-
Bendtsen, J.D.1
Nielsen, H.2
von Heijne, G.3
Brunak, S.4
-
4
-
-
0043123003
-
AMIGene: Annotation of MIcrobial Genes
-
Bocs, S., Cruveiller, S., Vallenet, D., Nuel, G. & Me ́ digue, C. (2003). AMIGene: annotation of MIcrobial Genes. Nucleic Acids Res 31, 3723-3726.
-
(2003)
Nucleic Acids Res
, vol.31
, pp. 3723-3726
-
-
Bocs, S.1
Cruveiller, S.2
Vallenet, D.3
Nuel, G.4
Diguemé, C.5
-
5
-
-
0037255072
-
The SWISS-PROT protein knowledgebase and its supplement TrEMBL in 2003
-
Authors other
-
Boeckmann, B., Bairoch, A., Apweiler, R., Blatter, M. C., Estreicher, A., Gasteiger, E., Martin, M. J., Michoud, K., O'Donovan, C. & other authors (2003). The SWISS-PROT protein knowledgebase and its supplement TrEMBL in 2003. Nucleic Acids Res 31, 365-370.
-
(2003)
Nucleic Acids Res
, vol.31
, pp. 365-370
-
-
Boeckmann, B.1
Bairoch, A.2
Apweiler, R.3
Blatter, M.C.4
Estreicher, A.5
Gasteiger, E.6
Martin, M.J.7
Michoud, K.8
O'Donovan, C.9
-
6
-
-
35048868078
-
Binary toxin production in Clostridium difficile is regulated by CdtR, a LytTR family response regulator
-
Carter, G. P., Lyras, D., Allen, D. L., Mackin, K. E., Howarth, P. M., O'Connor, J. R. & Rood, J. I. (2007). Binary toxin production in Clostridium difficile is regulated by CdtR, a LytTR family response regulator. J Bacteriol 189, 7290-7301.
-
(2007)
J Bacteriol
, vol.189
, pp. 7290-7301
-
-
Carter, G.P.1
Lyras, D.2
Allen, D.L.3
Mackin, K.E.4
Howarth, P.M.5
O'Connor, J.R.6
Rood, J.I.7
-
7
-
-
76649121515
-
A mariner-based transposon system for in vivo random mutagenesis of Clostridium difficile
-
Cartman, S. T. & Minton, N. P. (2010). A mariner-based transposon system for in vivo random mutagenesis of Clostridium difficile. Appl Environ Microbiol 76, 1103-1109.
-
(2010)
Appl Environ Microbiol
, vol.76
, pp. 1103-1109
-
-
Cartman, S.T.1
Minton, N.P.2
-
8
-
-
38549170427
-
Priorities for nucleotide trace, sequence and annotation data capture at the Ensembl Trace Archive and the EMBL nucleotide sequence database
-
Authors other (database issue)
-
Cochrane, G., Akhtar, R., Aldebert, P., Althorpe, N., Baldwin, A., Bates, K., Bhattacharyya, S., Bonfield, J., Bower, L. & other authors (2008). Priorities for nucleotide trace, sequence and annotation data capture at the Ensembl Trace Archive and the EMBL nucleotide sequence database. Nucleic Acids Res 36 (database issue), D5-D12.
-
(2008)
Nucleic Acids Res
, vol.36
-
-
Cochrane, G.1
Akhtar, R.2
Aldebert, P.3
Althorpe, N.4
Baldwin, A.5
Bates, K.6
Bhattacharyya, S.7
Bonfield, J.8
Bower, L.9
-
9
-
-
23144444587
-
MICheck: A web tool for fast checking of syntactic annotations of bacterial genomes
-
web server issue
-
Cruveiller, S., Le Saux, J., Vallenet, D., Lajus, A., Bocs, S. & Médigue, C. (2005). MICheck: a web tool for fast checking of syntactic annotations of bacterial genomes. Nucleic Acids Res 33 (web server issue), W471-W479.
-
(2005)
Nucleic Acids Res
, vol.33
-
-
Cruveiller, S.1
le Saux, J.2
Vallenet, D.3
Lajus, A.4
Bocs, S.5
Médigue, C.6
-
10
-
-
55749109226
-
Ethanolamine activates a sensor histidine kinase regulating its utilization in Enterococcus faecalis
-
Del Papa, M. F. & Perego, M. (2008). Ethanolamine activates a sensor histidine kinase regulating its utilization in Enterococcus faecalis. J Bacteriol 190, 7147-7156.
-
(2008)
J Bacteriol
, vol.190
, pp. 7147-7156
-
-
del Papa, M.F.1
Perego, M.2
-
11
-
-
0019992453
-
Complete amino acid sequence of the 4Fe-4S, thermostable ferredoxin from Clostridium thermoaceticum
-
Elliott, J. I., Yang, S. S., Ljungdahl, L. G., Travis, J. & Reilly, C. F. (1982). Complete amino acid sequence of the 4Fe-4S, thermostable ferredoxin from Clostridium thermoaceticum. Biochemistry 21, 3294-3298.
-
(1982)
Biochemistry
, vol.21
, pp. 3294-3298
-
-
Elliott, J.I.1
Yang, S.S.2
Ljungdahl, L.G.3
Travis, J.4
Reilly, C.F.5
-
12
-
-
17844361922
-
Ribonucleases J1 and J2: Two novel endoribonucleases in B. subtilis with functional homology to E. coli RNase E
-
Even, S., Pellegrini, O., Zig, L., Labas, V., Vinh, J., Bréchemmier-Baey, D. & Putzer, H. (2005). Ribonucleases J1 and J2: two novel endoribonucleases in B. subtilis with functional homology to E. coli RNase E. Nucleic Acids Res 33, 2141-2152.
-
(2005)
Nucleic Acids Res
, vol.33
, pp. 2141-2152
-
-
Even, S.1
Pellegrini, O.2
Zig, L.3
Labas, V.4
Vinh, J.5
Bréchemmier-Baey, D.6
Putzer, H.7
-
13
-
-
33745882947
-
Biochemical and molecular characterization of a Na+-translocating F1F0-ATPase from the thermoalkaliphilic bacterium Clostridium paradoxum
-
Ferguson, S. A., Keis, S. & Cook, G. M. (2006). Biochemical and molecular characterization of a Na+-translocating F1F0-ATPase from the thermoalkaliphilic bacterium Clostridium paradoxum. J Bacteriol 188, 5045-5054.
-
(2006)
J Bacteriol
, vol.188
, pp. 5045-5054
-
-
Ferguson, S.A.1
Keis, S.2
Cook, G.M.3
-
14
-
-
65549105636
-
A conserved gene cluster rules anaerobic oxidative degradation of L-ornithine
-
Authors other
-
Fonknechten, N., Perret, A., Perchat, N., Tricot, S., Lechaplais, C., Vallenet, D., Vergne, C., Zaparucha, A., Le Paslier, D. & other authors (2009). A conserved gene cluster rules anaerobic oxidative degradation of L-ornithine. J Bacteriol 191, 3162-3167.
-
(2009)
J Bacteriol
, vol.191
, pp. 3162-3167
-
-
Fonknechten, N.1
Perret, A.2
Perchat, N.3
Tricot, S.4
Lechaplais, C.5
Vallenet, D.6
Vergne, C.7
Zaparucha, A.8
le Paslier, D.9
-
15
-
-
77957664849
-
Clostridium sticklandii, a specialist in amino acid degradation: Revisiting its metabolism through its genome sequence
-
Authors other
-
Fonknechten, N., Chaussonnerie, S., Tricot, S., Lajus, A., Andreesen, J. R., Perchat, N., Pelletier, E., Gouyvenoux, M., Barbe, V. & other authors (2010). Clostridium sticklandii, a specialist in amino acid degradation: revisiting its metabolism through its genome sequence. BMC Genomics 11, 555.
-
(2010)
BMC Genomics
, vol.11
, pp. 555
-
-
Fonknechten, N.1
Chaussonnerie, S.2
Tricot, S.3
Lajus, A.4
Andreesen, J.R.5
Perchat, N.6
Pelletier, E.7
Gouyvenoux, M.8
Barbe, V.9
-
16
-
-
63149194170
-
Multiple posttranscriptional regulatory mechanisms partner to control ethanolamine utilization in Enterococcus faecalis
-
Fox, K. A., Ramesh, A., Stearns, J. E., Bourgogne, A., Reyes-Jara, A., Winkler, W. C. & Garsin, D. A. (2009). Multiple posttranscriptional regulatory mechanisms partner to control ethanolamine utilization in Enterococcus faecalis. Proc Natl Acad Sci U S A 106, 4435-4440.
-
(2009)
Proc Natl Acad Sci U S A
, vol.106
, pp. 4435-4440
-
-
Fox, K.A.1
Ramesh, A.2
Stearns, J.E.3
Bourgogne, A.4
Reyes-Jara, A.5
Winkler, W.C.6
Garsin, D.A.7
-
17
-
-
79251506985
-
Proteomic analysis of the insoluble subproteome of Clostridium difficile strain 630
-
Jain, S., Graham, R. L., McMullan, G. & Ternan, N. G. (2010). Proteomic analysis of the insoluble subproteome of Clostridium difficile strain 630. FEMS Microbiol Lett 312, 151-159.
-
(2010)
FEMS Microbiol Lett
, vol.312
, pp. 151-159
-
-
Jain, S.1
Graham, R.L.2
McMullan, G.3
Ternan, N.G.4
-
18
-
-
77954608134
-
Transcriptional profiling of Clostridium difficile and Caco-2 cells during infection
-
Janvilisri, T., Scaria, J. & Chang, Y. F. (2010). Transcriptional profiling of Clostridium difficile and Caco-2 cells during infection. J Infect Dis 202, 282-290.
-
(2010)
J Infect Dis
, vol.202
, pp. 282-290
-
-
Janvilisri, T.1
Scaria, J.2
Chang, Y.F.3
-
19
-
-
68949097598
-
Proteomic and genomic characterization of highly infectious Clostridium difficile 630 spores
-
Lawley, T. D., Croucher, N. J., Yu, L., Clare, S., Sebaihia, M., Goulding, D., Pickard, D. J., Parkhill, J., Choudhary, J. & Dougan, G. (2009). Proteomic and genomic characterization of highly infectious Clostridium difficile 630 spores. J Bacteriol 191, 5377-5386.
-
(2009)
J Bacteriol
, vol.191
, pp. 5377-5386
-
-
Lawley, T.D.1
Croucher, N.J.2
Yu, L.3
Clare, S.4
Sebaihia, M.5
Goulding, D.6
Pickard, D.J.7
Parkhill, J.8
Choudhary, J.9
Dougan, G.10
-
20
-
-
58149202167
-
HAMAP: A database of completely sequenced microbial proteome sets and manually curated microbial protein families in UniProtKB/Swiss-Prot
-
Authors other (database issue)
-
Lima, T., Auchincloss, A. H., Coudert, E., Keller, G., Michoud, K., Rivoire, C., Bulliard, V., De Castro, E., Lachaize, C. & other authors (2009). HAMAP: a database of completely sequenced microbial proteome sets and manually curated microbial protein families in UniProtKB/Swiss-Prot. Nucleic Acids Res 37 (database issue), D471-D478.
-
(2009)
Nucleic Acids Res
, vol.37
-
-
Lima, T.1
Auchincloss, A.H.2
Coudert, E.3
Keller, G.4
Michoud, K.5
Rivoire, C.6
Bulliard, V.7
de Castro, E.8
Lachaize, C.9
-
21
-
-
71549129512
-
Genome reannotation of Escherichia coli CFT073 with new insights into virulence
-
Luo, C., Hu, G. Q. & Zhu, H. (2009). Genome reannotation of Escherichia coli CFT073 with new insights into virulence. BMC Genomics 10, 552.
-
(2009)
BMC Genomics
, vol.10
, pp. 552
-
-
Luo, C.1
Hu, G.Q.2
Zhu, H.3
-
22
-
-
77954638776
-
Array comparative hybridisation reveals a high degree of similarity between UK and European clinical isolates of hypervirulent Clostridium difficile
-
Marsden, G. L., Davis, I. J., Wright, V. J., Sebaihia, M., Kuijper, E. J. & Minton, N. P. (2010). Array comparative hybridisation reveals a high degree of similarity between UK and European clinical isolates of hypervirulent Clostridium difficile. BMC Genomics 11, 389.
-
(2010)
BMC Genomics
, vol.11
, pp. 389
-
-
Marsden, G.L.1
Davis, I.J.2
Wright, V.J.3
Sebaihia, M.4
Kuijper, E.J.5
Minton, N.P.6
-
23
-
-
79960391449
-
A novel virulence factor SRL modulates toxin B sensitivity of intestinal epithelial cells
-
Basel: European Society of Clinical Microbiology and Infectious Diseases
-
Miura, M., Kato, H. & Matsushita, O. (2010). A novel virulence factor SRL modulates toxin B sensitivity of intestinal epithelial cells. In 3rd International Clostridium difficile Symposium, Bled, Slovenia, 22-24 September 2010. Basel: European Society of Clinical Microbiology and Infectious Diseases.
-
(2010)
3rd International Clostridium Difficile Symposium, Bled, Slovenia, 22-24 September 2010
-
-
Miura, M.1
Kato, H.2
Matsushita, O.3
-
24
-
-
77958094641
-
Genome annotation: Man versus machine
-
Petty, N. K. (2010). Genome annotation: man versus machine. Nat Rev Microbiol 8, 762.
-
(2010)
Nat Rev Microbiol
, vol.8
, pp. 762
-
-
Petty, N.K.1
-
25
-
-
33846040629
-
TransportDB: A comprehensive database resource for cytoplasmic membrane transportsystems and outer membrane channels
-
(Database issue)
-
Ren, Q., Chen, K. & Paulsen, I. T. (2007). TransportDB: a comprehensive database resource for cytoplasmic membrane transportsystems and outer membrane channels. Nucleic Acids Res 35 (Database issue), D274-D279.
-
(2007)
Nucleic Acids Res
, vol.35
-
-
Ren, Q.1
Chen, K.2
Paulsen, I.T.3
-
26
-
-
20144363326
-
Revised nomenclature of Clostridium difficile toxins and associated genes
-
Authors other
-
Rupnik, M., Dupuy, B., Fairweather, N. F., Gerding, D. N., Johnson, S., Just, I., Lyerly, D. M., Popoff, M. R., Rood, J. I. & other authors (2005). Revised nomenclature of Clostridium difficile toxins and associated genes. J Med Microbiol 54, 113-117.
-
(2005)
J Med Microbiol
, vol.54
, pp. 113-117
-
-
Rupnik, M.1
Dupuy, B.2
Fairweather, N.F.3
Gerding, D.N.4
Johnson, S.5
Just, I.6
Lyerly, D.M.7
Popoff, M.R.8
Rood, J.I.9
-
27
-
-
33745550745
-
The multidrug-resistant human pathogen Clostridium difficile has a highly mobile, mosaic genome
-
other authors
-
Sebaihia, M., Wren, B. W., Mullany, P., Fairweather, N. F., Minton, N., Stabler, R., Thomson, N. R., Roberts, A. P., Cerdeño-Tárraga, A. M. &other authors (2006). The multidrug-resistant human pathogen Clostridium difficile has a highly mobile, mosaic genome. Nat Genet 38, 779-786.
-
(2006)
Nat Genet
, vol.38
, pp. 779-786
-
-
Sebaihia, M.1
Wren, B.W.2
Mullany, P.3
Fairweather, N.F.4
Minton, N.5
Stabler, R.6
Thomson, N.R.7
Roberts, A.P.8
Cerdeño-Tárraga, A.M.9
-
28
-
-
70450222923
-
RNase Y, a novel endoribonuclease, initiates riboswitch turnover in Bacillus subtilis
-
Shahbabian, K., Jamalli, A., Zig, L. & Putzer, H. (2009). RNase Y, a novel endoribonuclease, initiates riboswitch turnover in Bacillus subtilis. EMBO J 28, 3523-3533.
-
(2009)
EMBO J
, vol.28
, pp. 3523-3533
-
-
Shahbabian, K.1
Jamalli, A.2
Zig, L.3
Putzer, H.4
-
29
-
-
0031614678
-
A hidden Markov model for predicting transmembrane helices in protein sequences
-
Sonnhammer, E. L., Von Heijne, G. & Krogh, A. (1998). A hidden Markov model for predicting transmembrane helices in protein sequences. Proc Int Conf Intell Syst Mol Biol 6, 175-182.
-
(1998)
Proc Int Conf Intell Syst Mol Biol
, vol.6
, pp. 175-182
-
-
Sonnhammer, E.L.1
von Heijne, G.2
Krogh, A.3
-
30
-
-
76249088522
-
Comparative genome and phenotypic analysis of Clostridium difficile 027 strains provides insight into the evolution of a hypervirulent bacterium
-
Authors other
-
Stabler, R. A., He, M., Dawson, L., Martin, M., Valiente, E., Corton, C., Lawley, T. D., Sebaihia, M., Quail, M. A. & other authors (2009). Comparative genome and phenotypic analysis of Clostridium difficile 027 strains provides insight into the evolution of a hypervirulent bacterium. Genome Biol 10, R102.
-
(2009)
Genome Biol
, vol.10
-
-
Stabler, R.A.1
He, M.2
Dawson, L.3
Martin, M.4
Valiente, E.5
Corton, C.6
Lawley, T.D.7
Sebaihia, M.8
Quail, M.A.9
-
31
-
-
70350457936
-
Motility and flagellar glycosylation in Clostridium difficile
-
Twine, S.M., Reid, C.W., Aubry, A., McMullin, D.R., Fulton, K. M., Austin, J. & Logan, S. M. (2009). Motility and flagellar glycosylation in Clostridium difficile. J Bacteriol 191, 7050-7062.
-
(2009)
J Bacteriol
, vol.191
, pp. 7050-7062
-
-
Twine, S.M.1
Reid, C.W.2
Aubry, A.3
McMullin, D.R.4
Fulton, K.M.5
Austin, J.6
Logan, S.M.7
-
32
-
-
78651319979
-
Ongoing and future developments at the Universal Protein Resource
-
UPC, (database issue)
-
UPC (2011). Ongoing and future developments at the Universal Protein Resource. Nucleic Acids Res 39 (database issue), D214-D219.
-
(2011)
Nucleic Acids Res
, vol.39
-
-
-
33
-
-
31644444476
-
MaGe: A microbial genome annotation system supported by synteny results
-
Vallenet, D., Labarre, L., Rouy, Z., Barbe, V., Bocs, S., Cruveiller, S., Lajus, A., Pascal, G., Scarpelli, C. & Me ́ digue, C. (2006). MaGe: a microbial genome annotation system supported by synteny results. Nucleic Acids Res 34, 53-65.
-
(2006)
Nucleic Acids Res
, vol.34
, pp. 53-65
-
-
Vallenet, D.1
Labarre, L.2
Rouy, Z.3
Barbe, V.4
Bocs, S.5
Cruveiller, S.6
Lajus, A.7
Pascal, G.8
Scarpelli, C.9
Diguemé, C.10
-
34
-
-
84908096911
-
MicroScope: A platform for microbial genome annotation and comparative genomics
-
other authors, Oxford, bap021
-
Vallenet, D., Engelen, S., Mornico, D., Cruveiller, S., Fleury, L., Lajus, A., Rouy, Z., Roche, D., Salvignol, G. & other authors (2009). MicroScope: a platform for microbial genome annotation and comparative genomics. Database (Oxford) 2009, bap021.
-
(2009)
Database
-
-
Vallenet, D.1
Engelen, S.2
Mornico, D.3
Cruveiller, S.4
Fleury, L.5
Lajus, A.6
Rouy, Z.7
Roche, D.8
Salvignol, G.9
-
35
-
-
77954199597
-
PSORTb 3.0: Improved protein subcellular localization prediction with refined localization subcategories and predictive capabilities for all prokaryotes
-
Authors other
-
Yu, N. Y., Wagner, J. R., Laird, M. R., Melli, G., Rey, S., Lo, R., Dao, P., Sahinalp, S. C., Ester, M. & other authors (2010). PSORTb 3.0: improved protein subcellular localization prediction with refined localization subcategories and predictive capabilities for all prokaryotes. Bioinformatics 26, 1608-1615.
-
(2010)
Bioinformatics
, vol.26
, pp. 1608-1615
-
-
Yu, N.Y.1
Wagner, J.R.2
Laird, M.R.3
Melli, G.4
Rey, S.5
Lo, R.6
Dao, P.7
Sahinalp, S.C.8
Ester, M.9
-
36
-
-
0034800374
-
InterProScan - an integration platform for the signature-recognition methods in InterPro
-
Zdobnov, E. M. & Apweiler, R. (2001). InterProScan - an integration platform for the signature-recognition methods in InterPro. Bioinformatics 17, 847-848.
-
(2001)
Bioinformatics
, vol.17
, pp. 847-848
-
-
Zdobnov, E.M.1
Apweiler, R.2
|