-
1
-
-
84952689866
-
-
RAND Corporation SM, California, and Cambridge, UK: The Wellcome Trust
-
Taylor J., Hafner M., Yerushalmi E., Smith R., Bellasio J., Vardavas R., et al. Estimating the economic costs of antimicrobial resistance. Models and results 2014, RAND Corporation SM, California, and Cambridge, UK: The Wellcome Trust.
-
(2014)
Estimating the economic costs of antimicrobial resistance. Models and results
-
-
Taylor, J.1
Hafner, M.2
Yerushalmi, E.3
Smith, R.4
Bellasio, J.5
Vardavas, R.6
-
3
-
-
84930832473
-
-
London; The Review on Antimicrobial Resistance
-
The Review on Antimicrobial Resistance Antimicrobial resistance: tackling a crisis for the health and wealth of nations 2014, London; The Review on Antimicrobial Resistance. http://amr-review.org/sites/default/files/SECURING%20NEW%20DRUGS%20FOR%20FUTURE%20GENERATIONS%20FINAL%20WEB_0.pdf.
-
(2014)
Antimicrobial resistance: tackling a crisis for the health and wealth of nations
-
-
-
4
-
-
81255157431
-
Tackling antibiotic resistance
-
Bush K., Courvalin P., Dantas G., Davies J., Eisenstein B., Huovinen P., et al. Tackling antibiotic resistance. Nat Rev Microbiol 2011, 9:894-896.
-
(2011)
Nat Rev Microbiol
, vol.9
, pp. 894-896
-
-
Bush, K.1
Courvalin, P.2
Dantas, G.3
Davies, J.4
Eisenstein, B.5
Huovinen, P.6
-
5
-
-
84876002671
-
Natural products: a continuing source of novel drug leads
-
Cragg G.M., Newman D.J. Natural products: a continuing source of novel drug leads. Biochim Biophys Acta 1830, 2013:3670-3695.
-
(1830)
Biochim Biophys Acta
, vol.2013
, pp. 3670-3695
-
-
Cragg, G.M.1
Newman, D.J.2
-
6
-
-
69549111337
-
Antibiotics for emerging pathogens
-
Fischbach M.A., Walsh C.T. Antibiotics for emerging pathogens. Science 2009, 325:1089-1093.
-
(2009)
Science
, vol.325
, pp. 1089-1093
-
-
Fischbach, M.A.1
Walsh, C.T.2
-
7
-
-
84858308226
-
Natural products as sources of new drugs over the 30 years from 1981 to 2010
-
Newman D.J., Cragg G.M. Natural products as sources of new drugs over the 30 years from 1981 to 2010. J Nat Prod 2012, 75:311-335.
-
(2012)
J Nat Prod
, vol.75
, pp. 311-335
-
-
Newman, D.J.1
Cragg, G.M.2
-
8
-
-
0036902202
-
Big effects from small changes: possible ways to explore nature's chemical diversity
-
Bode H.B., Bethe B., Hofs R., Zeeck A. Big effects from small changes: possible ways to explore nature's chemical diversity. Chembiochem 2002, 3:619-627.
-
(2002)
Chembiochem
, vol.3
, pp. 619-627
-
-
Bode, H.B.1
Bethe, B.2
Hofs, R.3
Zeeck, A.4
-
9
-
-
0037046560
-
Complete genome sequence of the model actinomycete Streptomyces coelicolor A3(2)
-
Bentley S.D., Chater K.F., Cerdeno-Tarraga A.M., Challis G.L., Thomson N.R., James K.D., et al. Complete genome sequence of the model actinomycete Streptomyces coelicolor A3(2). Nature 2002, 417:141-147.
-
(2002)
Nature
, vol.417
, pp. 141-147
-
-
Bentley, S.D.1
Chater, K.F.2
Cerdeno-Tarraga, A.M.3
Challis, G.L.4
Thomson, N.R.5
James, K.D.6
-
10
-
-
0038561132
-
Complete genome sequence and comparative analysis of the industrial microorganism Streptomyces avermitilis
-
Ikeda H., Ishikawa J., Hanamoto A., Shinose M., Kikuchi H., Shiba T., et al. Complete genome sequence and comparative analysis of the industrial microorganism Streptomyces avermitilis. Nat Biotechnol 2003, 21:526-531.
-
(2003)
Nat Biotechnol
, vol.21
, pp. 526-531
-
-
Ikeda, H.1
Ishikawa, J.2
Hanamoto, A.3
Shinose, M.4
Kikuchi, H.5
Shiba, T.6
-
11
-
-
0035834039
-
Genome sequence of an industrial microorganism Streptomyces avermitilis: deducing the ability of producing secondary metabolites
-
Omura S., Ikeda H., Ishikawa J., Hanamoto A., Takahashi C., Shinose M., et al. Genome sequence of an industrial microorganism Streptomyces avermitilis: deducing the ability of producing secondary metabolites. Proc Natl Acad Sci U S A 2001, 98:12215-12220.
-
(2001)
Proc Natl Acad Sci U S A
, vol.98
, pp. 12215-12220
-
-
Omura, S.1
Ikeda, H.2
Ishikawa, J.3
Hanamoto, A.4
Takahashi, C.5
Shinose, M.6
-
12
-
-
84918813440
-
Metabolic engineering of antibiotic factories: new tools for antibiotic production in actinomycetes
-
Weber T., Charusanti P., Musiol-Kroll E.M., Jiang X., Tong Y., Kim H.U., et al. Metabolic engineering of antibiotic factories: new tools for antibiotic production in actinomycetes. Trends Biotechnol 2015, 33:15-26.
-
(2015)
Trends Biotechnol
, vol.33
, pp. 15-26
-
-
Weber, T.1
Charusanti, P.2
Musiol-Kroll, E.M.3
Jiang, X.4
Tong, Y.5
Kim, H.U.6
-
13
-
-
84979859096
-
AntiSMASH 3.0 - a comprehensive resource for the genome mining of biosynthetic gene clusters
-
Weber T., Blin K., Duddela S., Krug D., Kim H.U., Bruccoleri R., et al. antiSMASH 3.0 - a comprehensive resource for the genome mining of biosynthetic gene clusters. Nucleic Acids Res 2015, 43:W237-43.
-
(2015)
Nucleic Acids Res
, vol.43
, pp. W237-W243
-
-
Weber, T.1
Blin, K.2
Duddela, S.3
Krug, D.4
Kim, H.U.5
Bruccoleri, R.6
-
14
-
-
84883353135
-
AntiSMASH 2.0 - a versatile platform for genome mining of secondary metabolite producers
-
Blin K., Medema M.H., Kazempour D., Fischbach M., Breitling R., Takano E., et al. antiSMASH 2.0 - a versatile platform for genome mining of secondary metabolite producers. Nucleic Acids Res 2013, 41:W204-12.
-
(2013)
Nucleic Acids Res
, vol.41
, pp. W204-W212
-
-
Blin, K.1
Medema, M.H.2
Kazempour, D.3
Fischbach, M.4
Breitling, R.5
Takano, E.6
-
15
-
-
79959920872
-
AntiSMASH: rapid identification, annotation and analysis of secondary metabolite biosynthesis gene clusters in bacterial and fungal genome sequences
-
Medema M.H., Blin K., Cimermancic P., de Jager V., Zakrzewski P., Fischbach M.A., et al. antiSMASH: rapid identification, annotation and analysis of secondary metabolite biosynthesis gene clusters in bacterial and fungal genome sequences. Nucleic Acids Res 2011, 39:W339-46.
-
(2011)
Nucleic Acids Res
, vol.39
, pp. W339-W346
-
-
Medema, M.H.1
Blin, K.2
Cimermancic, P.3
de Jager, V.4
Zakrzewski, P.5
Fischbach, M.A.6
-
16
-
-
84859078407
-
The natural product domain seeker NaPDoS: a phylogeny based bioinformatic tool to classify secondary metabolite gene diversity
-
Ziemert N., Podell S., Penn K., Badger J.H., Allen E., Jensen P.R. The natural product domain seeker NaPDoS: a phylogeny based bioinformatic tool to classify secondary metabolite gene diversity. PLoS ONE 2012, 7:e34064.
-
(2012)
PLoS ONE
, vol.7
-
-
Ziemert, N.1
Podell, S.2
Penn, K.3
Badger, J.H.4
Allen, E.5
Jensen, P.R.6
-
17
-
-
67650898253
-
Automated genome mining for natural products
-
Li M.H., Ung P.M., Zajkowski J., Garneau-Tsodikova S., Sherman D.H. Automated genome mining for natural products. BMC Bioinformatics 2009, 10:185.
-
(2009)
BMC Bioinformatics
, vol.10
, pp. 185
-
-
Li, M.H.1
Ung, P.M.2
Zajkowski, J.3
Garneau-Tsodikova, S.4
Sherman, D.H.5
-
18
-
-
84949999706
-
Genomes to natural products PRediction Informatics for Secondary Metabolomes (PRISM)
-
Skinnider M.A., Dejong C.A., Rees P.N., Johnston C.W., Li H., Webster A.L., et al. Genomes to natural products PRediction Informatics for Secondary Metabolomes (PRISM). Nucleic Acids Res 2015, 10.1093/nar/gkv1012.
-
(2015)
Nucleic Acids Res
-
-
Skinnider, M.A.1
Dejong, C.A.2
Rees, P.N.3
Johnston, C.W.4
Li, H.5
Webster, A.L.6
-
19
-
-
77955274600
-
SMURF: genomic mapping of fungal secondary metabolite clusters
-
Khaldi N., Seifuddin F.T., Turner G., Haft D., Nierman W.C., Wolfe K.H., et al. SMURF: genomic mapping of fungal secondary metabolite clusters. Fungal Genet Biol 2010, 47:736-741.
-
(2010)
Fungal Genet Biol
, vol.47
, pp. 736-741
-
-
Khaldi, N.1
Seifuddin, F.T.2
Turner, G.3
Haft, D.4
Nierman, W.C.5
Wolfe, K.H.6
-
20
-
-
84904554933
-
Insights into secondary metabolism from a global analysis of prokaryotic biosynthetic gene clusters
-
Cimermancic P., Medema M.H., Claesen J., Kurita K., Wieland Brown L.C., Mavrommatis K., et al. Insights into secondary metabolism from a global analysis of prokaryotic biosynthetic gene clusters. Cell 2014, 158:412-421.
-
(2014)
Cell
, vol.158
, pp. 412-421
-
-
Cimermancic, P.1
Medema, M.H.2
Claesen, J.3
Kurita, K.4
Wieland Brown, L.C.5
Mavrommatis, K.6
-
21
-
-
84980010514
-
Recapitulation of the evolution of biosynthetic gene clusters reveals hidden chemical diversity on bacterial genomes
-
Cruz-Morales P., Martínez-Guerrero C.E., Morales-Escalante M.A., Yáñez-Guerra L.A., Kopp J.F., Feldmann J., et al. Recapitulation of the evolution of biosynthetic gene clusters reveals hidden chemical diversity on bacterial genomes. bioRxiv 2015, 10.1101/020503.
-
(2015)
bioRxiv
-
-
Cruz-Morales, P.1
Martínez-Guerrero, C.E.2
Morales-Escalante, M.A.3
Yáñez-Guerra, L.A.4
Kopp, J.F.5
Feldmann, J.6
-
22
-
-
84871997235
-
Accurate prediction of secondary metabolite gene clusters in filamentous fungi
-
Andersen M.R., Nielsen J.B., Klitgaard A., Petersen L.M., Zachariasen M., Hansen T.J., et al. Accurate prediction of secondary metabolite gene clusters in filamentous fungi. Proc Natl Acad Sci U S A 2013, 110:E99-107.
-
(2013)
Proc Natl Acad Sci U S A
, vol.110
, pp. E99-107
-
-
Andersen, M.R.1
Nielsen, J.B.2
Klitgaard, A.3
Petersen, L.M.4
Zachariasen, M.5
Hansen, T.J.6
-
23
-
-
84895072793
-
Microbial genome mining for accelerated natural products discovery: is a renaissance in the making?
-
Bachmann B.O., Van Lanen S.G., Baltz R.H. Microbial genome mining for accelerated natural products discovery: is a renaissance in the making?. J Ind Microbiol Biotechnol 2014, 41:175-184.
-
(2014)
J Ind Microbiol Biotechnol
, vol.41
, pp. 175-184
-
-
Bachmann, B.O.1
Van Lanen, S.G.2
Baltz, R.H.3
-
24
-
-
84899651850
-
In silico tools for the analysis of antibiotic biosynthetic pathways
-
Weber T. In silico tools for the analysis of antibiotic biosynthetic pathways. Int J Med Microbiol 2014, 304:230-235.
-
(2014)
Int J Med Microbiol
, vol.304
, pp. 230-235
-
-
Weber, T.1
-
25
-
-
84939536885
-
Computational approaches to natural product discovery
-
Medema M.H., Fischbach M.A. Computational approaches to natural product discovery. Nat Chem Biol 2015, 11:639-648.
-
(2015)
Nat Chem Biol
, vol.11
, pp. 639-648
-
-
Medema, M.H.1
Fischbach, M.A.2
-
26
-
-
84895076285
-
Bioinformatics tools for genome mining of polyketide and non-ribosomal peptides
-
Boddy C.N. Bioinformatics tools for genome mining of polyketide and non-ribosomal peptides. J Ind Microbiol Biotechnol 2014, 41:443-450.
-
(2014)
J Ind Microbiol Biotechnol
, vol.41
, pp. 443-450
-
-
Boddy, C.N.1
-
27
-
-
64249084052
-
Chapter 8. Methods for in silico prediction of microbial polyketide and nonribosomal peptide biosynthetic pathways from DNA sequence data
-
Bachmann B.O., Ravel J. Chapter 8. Methods for in silico prediction of microbial polyketide and nonribosomal peptide biosynthetic pathways from DNA sequence data. Methods Enzymol 2009, 458:181-217.
-
(2009)
Methods Enzymol
, vol.458
, pp. 181-217
-
-
Bachmann, B.O.1
Ravel, J.2
-
28
-
-
84883572507
-
BAGEL3: automated identification of genes encoding bacteriocins and (non-) bactericidal posttranslationally modified peptides
-
van Heel A.J., de Jong A., Montalban-Lopez M., Kok J., Kuipers O.P. BAGEL3: automated identification of genes encoding bacteriocins and (non-) bactericidal posttranslationally modified peptides. Nucleic Acids Res 2013, 41:W448-53.
-
(2013)
Nucleic Acids Res
, vol.41
, pp. W448-W453
-
-
van Heel, A.J.1
de Jong, A.2
Montalban-Lopez, M.3
Kok, J.4
Kuipers, O.P.5
-
29
-
-
77954305252
-
BAGEL2: mining for bacteriocins in genomic data
-
de Jong A., van Heel A.J., Kok J., Kuipers O.P. BAGEL2: mining for bacteriocins in genomic data. Nucleic Acids Res 2010, 38:W647-51.
-
(2010)
Nucleic Acids Res
, vol.38
, pp. W647-W651
-
-
de Jong, A.1
van Heel, A.J.2
Kok, J.3
Kuipers, O.P.4
-
30
-
-
33747827906
-
BAGEL: a web-based bacteriocin genome mining tool
-
de Jong A., van Hijum S.A., Bijlsma J.J., Kok J., Kuipers O.P. BAGEL: a web-based bacteriocin genome mining tool. Nucleic Acids Res 2006, 34:W273-9.
-
(2006)
Nucleic Acids Res
, vol.34
, pp. W273-W279
-
-
de Jong, A.1
van Hijum, S.A.2
Bijlsma, J.J.3
Kok, J.4
Kuipers, O.P.5
-
31
-
-
61649111711
-
CLUSEAN: a computer-based framework for the automated analysis of bacterial secondary metabolite biosynthetic gene clusters
-
Weber T., Rausch C., Lopez P., Hoof I., Gaykova V., Huson D.H., et al. CLUSEAN: a computer-based framework for the automated analysis of bacterial secondary metabolite biosynthetic gene clusters. J Biotechnol 2009, 140:13-17.
-
(2009)
J Biotechnol
, vol.140
, pp. 13-17
-
-
Weber, T.1
Rausch, C.2
Lopez, P.3
Hoof, I.4
Gaykova, V.5
Huson, D.H.6
-
32
-
-
84996993134
-
Global biogeographic sampling of bacterial secondary metabolism
-
Charlop-Powers Z., Owen J.G., Reddy B.V., Ternei M.A., Guimaraes D.O., de Frias U.A., et al. Global biogeographic sampling of bacterial secondary metabolism. Elife 2015, 4:e05048.
-
(2015)
Elife
, vol.4
-
-
Charlop-Powers, Z.1
Owen, J.G.2
Reddy, B.V.3
Ternei, M.A.4
Guimaraes, D.O.5
de Frias, U.A.6
-
33
-
-
84880370987
-
Mapping gene clusters within arrayed metagenomic libraries to expand the structural diversity of biomedically relevant natural products
-
Owen J.G., Reddy B.V., Ternei M.A., Charlop-Powers Z., Calle P.Y., Kim J.H., et al. Mapping gene clusters within arrayed metagenomic libraries to expand the structural diversity of biomedically relevant natural products. Proc Natl Acad Sci U S A 2013, 110:11797-11802.
-
(2013)
Proc Natl Acad Sci U S A
, vol.110
, pp. 11797-11802
-
-
Owen, J.G.1
Reddy, B.V.2
Ternei, M.A.3
Charlop-Powers, Z.4
Calle, P.Y.5
Kim, J.H.6
-
34
-
-
84861121487
-
Natural product biosynthetic gene diversity in geographically distinct soil microbiomes
-
Reddy B.V., Kallifidas D., Kim J.H., Charlop-Powers Z., Feng Z., Brady S.F. Natural product biosynthetic gene diversity in geographically distinct soil microbiomes. Appl Environ Microbiol 2012, 78:3744-3752.
-
(2012)
Appl Environ Microbiol
, vol.78
, pp. 3744-3752
-
-
Reddy, B.V.1
Kallifidas, D.2
Kim, J.H.3
Charlop-Powers, Z.4
Feng, Z.5
Brady, S.F.6
-
35
-
-
84942761231
-
An automated Genomes-to-Natural Products platform (GNP) for the discovery of modular natural products
-
Johnston C.W., Skinnider M.A., Wyatt M.A., Li X., Ranieri M.R., Yang L., et al. An automated Genomes-to-Natural Products platform (GNP) for the discovery of modular natural products. Nat Commun 2015, 6:8421.
-
(2015)
Nat Commun
, vol.6
, pp. 8421
-
-
Johnston, C.W.1
Skinnider, M.A.2
Wyatt, M.A.3
Li, X.4
Ranieri, M.R.5
Yang, L.6
-
36
-
-
84894140502
-
MIDDAS-M: Motif-Independent De Novo Detection of Secondary Metabolite gene clusters through the integration of genome sequencing and transcriptome data
-
Umemura M., Koike H., Nagano N., Ishii T., Kawano J., Yamane N., et al. MIDDAS-M: Motif-Independent De Novo Detection of Secondary Metabolite gene clusters through the integration of genome sequencing and transcriptome data. PLoS ONE 2013, 8:e84028.
-
(2013)
PLoS ONE
, vol.8
-
-
Umemura, M.1
Koike, H.2
Nagano, N.3
Ishii, T.4
Kawano, J.5
Yamane, N.6
-
37
-
-
84906983992
-
Motif-independent prediction of a secondary metabolism gene cluster using comparative genomics: application to sequenced genomes of Aspergillus and ten other filamentous fungal species
-
Takeda I., Umemura M., Koike H., Asai K., Machida M. Motif-independent prediction of a secondary metabolism gene cluster using comparative genomics: application to sequenced genomes of Aspergillus and ten other filamentous fungal species. DNA Res 2014, 21:447-457.
-
(2014)
DNA Res
, vol.21
, pp. 447-457
-
-
Takeda, I.1
Umemura, M.2
Koike, H.3
Asai, K.4
Machida, M.5
-
38
-
-
84931262348
-
Motif-independent de novo detection of secondary metabolite gene clusters-toward identification from filamentous fungi
-
Umemura M., Koike H., Machida M. Motif-independent de novo detection of secondary metabolite gene clusters-toward identification from filamentous fungi. Front Microbiol 2015, 6:371.
-
(2015)
Front Microbiol
, vol.6
, pp. 371
-
-
Umemura, M.1
Koike, H.2
Machida, M.3
-
39
-
-
57149112966
-
ClustScan: an integrated program package for the semi-automatic annotation of modular biosynthetic gene clusters and in silico prediction of novel chemical structures
-
Starcevic A., Zucko J., Simunkovic J., Long P.F., Cullum J., Hranueli D. ClustScan: an integrated program package for the semi-automatic annotation of modular biosynthetic gene clusters and in silico prediction of novel chemical structures. Nucleic Acids Res 2008, 36:6882-6892.
-
(2008)
Nucleic Acids Res
, vol.36
, pp. 6882-6892
-
-
Starcevic, A.1
Zucko, J.2
Simunkovic, J.3
Long, P.F.4
Cullum, J.5
Hranueli, D.6
-
40
-
-
77954265333
-
SBSPKS: structure based sequence analysis of polyketide synthases
-
Anand S., Prasad M.V., Yadav G., Kumar N., Shehara J., Ansari M.Z., et al. SBSPKS: structure based sequence analysis of polyketide synthases. Nucleic Acids Res 2010, 38:W487-96.
-
(2010)
Nucleic Acids Res
, vol.38
, pp. W487-W496
-
-
Anand, S.1
Prasad, M.V.2
Yadav, G.3
Kumar, N.4
Shehara, J.5
Ansari, M.Z.6
-
41
-
-
3442896886
-
NRPS-PKS: a knowledge-based resource for analysis of NRPS/PKS megasynthases
-
Ansari M.Z., Yadav G., Gokhale R.S., Mohanty D. NRPS-PKS: a knowledge-based resource for analysis of NRPS/PKS megasynthases. Nucleic Acids Res 2004, 32:W405-13.
-
(2004)
Nucleic Acids Res
, vol.32
, pp. W405-W413
-
-
Ansari, M.Z.1
Yadav, G.2
Gokhale, R.S.3
Mohanty, D.4
-
42
-
-
0041620248
-
SEARCHPKS: a program for detection and analysis of polyketide synthase domains
-
Yadav G., Gokhale R.S., Mohanty D. SEARCHPKS: a program for detection and analysis of polyketide synthase domains. Nucleic Acids Res 2003, 31:3654-3658.
-
(2003)
Nucleic Acids Res
, vol.31
, pp. 3654-3658
-
-
Yadav, G.1
Gokhale, R.S.2
Mohanty, D.3
-
43
-
-
84893481062
-
Predicting substrate specificity of adenylation domains of nonribosomal peptide synthetases and other protein properties by latent semantic indexing
-
Baranasic D., Zucko J., Diminic J., Gacesa R., Long P.F., Cullum J., et al. Predicting substrate specificity of adenylation domains of nonribosomal peptide synthetases and other protein properties by latent semantic indexing. J Ind Microbiol Biotechnol 2014, 41:461-467.
-
(2014)
J Ind Microbiol Biotechnol
, vol.41
, pp. 461-467
-
-
Baranasic, D.1
Zucko, J.2
Diminic, J.3
Gacesa, R.4
Long, P.F.5
Cullum, J.6
-
44
-
-
84876340080
-
Classification of the adenylation and acyl-transferase activity of NRPS and PKS systems using ensembles of substrate specific hidden Markov models
-
Khayatt B.I., Overmars L., Siezen R.J., Francke C. Classification of the adenylation and acyl-transferase activity of NRPS and PKS systems using ensembles of substrate specific hidden Markov models. PLoS ONE 2013, 8:e62136.
-
(2013)
PLoS ONE
, vol.8
-
-
Khayatt, B.I.1
Overmars, L.2
Siezen, R.J.3
Francke, C.4
-
45
-
-
79959936207
-
NRPSpredictor2 - a web server for predicting NRPS adenylation domain specificity
-
Röttig M., Medema M.H., Blin K., Weber T., Rausch C., Kohlbacher O. NRPSpredictor2 - a web server for predicting NRPS adenylation domain specificity. Nucleic Acids Res 2011, 39:W362-7.
-
(2011)
Nucleic Acids Res
, vol.39
, pp. W362-W367
-
-
Röttig, M.1
Medema, M.H.2
Blin, K.3
Weber, T.4
Rausch, C.5
Kohlbacher, O.6
-
46
-
-
26944502019
-
Specificity prediction of adenylation domains in nonribosomal peptide synthetases (NRPS) using transductive support vector machines (TSVMs)
-
Rausch C., Weber T., Kohlbacher O., Wohlleben W., Huson D.H. Specificity prediction of adenylation domains in nonribosomal peptide synthetases (NRPS) using transductive support vector machines (TSVMs). Nucleic Acids Res 2005, 33:5799-5808.
-
(2005)
Nucleic Acids Res
, vol.33
, pp. 5799-5808
-
-
Rausch, C.1
Weber, T.2
Kohlbacher, O.3
Wohlleben, W.4
Huson, D.H.5
-
47
-
-
84856587901
-
NRPSsp: non-ribosomal peptide synthase substrate predictor
-
Prieto C., Garcia-Estrada C., Lorenzana D., Martin J.F. NRPSsp: non-ribosomal peptide synthase substrate predictor. Bioinformatics 2012, 28:426-427.
-
(2012)
Bioinformatics
, vol.28
, pp. 426-427
-
-
Prieto, C.1
Garcia-Estrada, C.2
Lorenzana, D.3
Martin, J.F.4
-
48
-
-
23144453475
-
SEARCHGTr: a program for analysis of glycosyltransferases involved in glycosylation of secondary metabolites
-
Kamra P., Gokhale R.S., Mohanty D. SEARCHGTr: a program for analysis of glycosyltransferases involved in glycosylation of secondary metabolites. Nucleic Acids Res 2005, 33:W220-5.
-
(2005)
Nucleic Acids Res
, vol.33
, pp. W220-W225
-
-
Kamra, P.1
Gokhale, R.S.2
Mohanty, D.3
-
49
-
-
84962256980
-
Computational discovery of specificity-conferring sites in non-ribosomal peptide synthetases
-
Knudsen M., Sondergaard D., Tofting-Olesen C., Hansen F.T., Brodersen D.E., Pedersen C.N. Computational discovery of specificity-conferring sites in non-ribosomal peptide synthetases. Bioinformatics 2015, 10.1093/bioinformatics/btv600.
-
(2015)
Bioinformatics
-
-
Knudsen, M.1
Sondergaard, D.2
Tofting-Olesen, C.3
Hansen, F.T.4
Brodersen, D.E.5
Pedersen, C.N.6
-
50
-
-
38349095584
-
BACTIBASE: a new web-accessible database for bacteriocin characterization
-
Hammami R., Zouhir A., Ben Hamida J., Fliss I. BACTIBASE: a new web-accessible database for bacteriocin characterization. BMC Microbiol 2007, 7:89.
-
(2007)
BMC Microbiol
, vol.7
, pp. 89
-
-
Hammami, R.1
Zouhir, A.2
Ben Hamida, J.3
Fliss, I.4
-
51
-
-
77249117208
-
BACTIBASE second release: a database and tool platform for bacteriocin characterization
-
Hammami R., Zouhir A., Le Lay C., Ben Hamida J., Fliss I. BACTIBASE second release: a database and tool platform for bacteriocin characterization. BMC Microbiol 2010, 10:22.
-
(2010)
BMC Microbiol
, vol.10
, pp. 22
-
-
Hammami, R.1
Zouhir, A.2
Le Lay, C.3
Ben Hamida, J.4
Fliss, I.5
-
52
-
-
84876566794
-
ClusterMine360: a database of microbial PKS/NRPS biosynthesis
-
Conway K.R., Boddy C.N. ClusterMine360: a database of microbial PKS/NRPS biosynthesis. Nucleic Acids Res 2013, 41:D402-7.
-
(2013)
Nucleic Acids Res
, vol.41
, pp. D402-D407
-
-
Conway, K.R.1
Boddy, C.N.2
-
53
-
-
84878234603
-
Databases of the thiotemplate modular systems (CSDB) and their in silico recombinants (r-CSDB)
-
Diminic J., Zucko J., Ruzic I.T., Gacesa R., Hranueli D., Long P.F., et al. Databases of the thiotemplate modular systems (CSDB) and their in silico recombinants (r-CSDB). J Ind Microbiol Biotechnol 2013, 40:653-659.
-
(2013)
J Ind Microbiol Biotechnol
, vol.40
, pp. 653-659
-
-
Diminic, J.1
Zucko, J.2
Ruzic, I.T.3
Gacesa, R.4
Hranueli, D.5
Long, P.F.6
-
54
-
-
84876517188
-
DoBISCUIT: a database of secondary metabolite biosynthetic gene clusters
-
Ichikawa N., Sasagawa M., Yamamoto M., Komaki H., Yoshida Y., Yamazaki S., et al. DoBISCUIT: a database of secondary metabolite biosynthetic gene clusters. Nucleic Acids Res 2013, 41:D408-14.
-
(2013)
Nucleic Acids Res
, vol.41
, pp. D408-D414
-
-
Ichikawa, N.1
Sasagawa, M.2
Yamamoto, M.3
Komaki, H.4
Yoshida, Y.5
Yamazaki, S.6
-
55
-
-
84939493603
-
IMG-ABC: a knowledge base to fuel discovery of biosynthetic gene clusters and novel secondary metabolites
-
Hadjithomas M., Chen I.M., Chu K., Ratner A., Palaniappan K., Szeto E., et al. IMG-ABC: a knowledge base to fuel discovery of biosynthetic gene clusters and novel secondary metabolites. MBio 2015, 6:e00932.
-
(2015)
MBio
, vol.6
-
-
Hadjithomas, M.1
Chen, I.M.2
Chu, K.3
Ratner, A.4
Palaniappan, K.5
Szeto, E.6
-
56
-
-
84939557642
-
Minimum information about a biosynthetic gene cluster
-
Medema M.H., Kottmann R., Yilmaz P., Cummings M., Biggins J.B., Blin K., et al. Minimum information about a biosynthetic gene cluster. Nat Chem Biol 2015, 11:625-631.
-
(2015)
Nat Chem Biol
, vol.11
, pp. 625-631
-
-
Medema, M.H.1
Kottmann, R.2
Yilmaz, P.3
Cummings, M.4
Biggins, J.B.5
Blin, K.6
-
57
-
-
84863299498
-
Recombinatorial biosynthesis of polyketides
-
Starcevic A., Wolf K., Diminic J., Zucko J., Ruzic I.T., Long P.F., et al. Recombinatorial biosynthesis of polyketides. J Ind Microbiol Biotechnol 2012, 39:503-511.
-
(2012)
J Ind Microbiol Biotechnol
, vol.39
, pp. 503-511
-
-
Starcevic, A.1
Wolf, K.2
Diminic, J.3
Zucko, J.4
Ruzic, I.T.5
Long, P.F.6
-
58
-
-
84976888261
-
ChEBI in 2016: improved services and an expanding collection of metabolites
-
Hastings J., Owen G., Dekker A., Ennis M., Kale N., Muthukrishnan V., et al. ChEBI in 2016: improved services and an expanding collection of metabolites. Nucleic Acids Res 2015, 44(D1):D1214-9.
-
(2015)
Nucleic Acids Res
, vol.44
, Issue.D1
, pp. D1214-D1219
-
-
Hastings, J.1
Owen, G.2
Dekker, A.3
Ennis, M.4
Kale, N.5
Muthukrishnan, V.6
-
59
-
-
84979856851
-
ChEMBL web services: streamlining access to drug discovery data and utilities
-
Davies M., Nowotka M., Papadatos G., Dedman N., Gaulton A., Atkinson F., et al. ChEMBL web services: streamlining access to drug discovery data and utilities. Nucleic Acids Res 2015, 43:W612-20.
-
(2015)
Nucleic Acids Res
, vol.43
, pp. W612-W620
-
-
Davies, M.1
Nowotka, M.2
Papadatos, G.3
Dedman, N.4
Gaulton, A.5
Atkinson, F.6
-
60
-
-
84937680248
-
Editorial: ChemSpider - a tool for natural products research
-
Kelly R., Kidd R. Editorial: ChemSpider - a tool for natural products research. Nat Prod Rep 2015, 32:1163-1164.
-
(2015)
Nat Prod Rep
, vol.32
, pp. 1163-1164
-
-
Kelly, R.1
Kidd, R.2
-
61
-
-
84892767391
-
KNApSAcK Metabolite Activity Database for retrieving the relationships between metabolites and biological activities
-
Nakamura Y., Afendi F.M., Parvin A.K., Ono N., Tanaka K., Hirai Morita A., et al. KNApSAcK Metabolite Activity Database for retrieving the relationships between metabolites and biological activities. Plant Cell Physiol 2014, 55:e7.
-
(2014)
Plant Cell Physiol
, vol.55
-
-
Nakamura, Y.1
Afendi, F.M.2
Parvin, A.K.3
Ono, N.4
Tanaka, K.5
Hirai Morita, A.6
-
62
-
-
84857226999
-
KNApSAcK family databases: integrated metabolite-plant species databases for multifaceted plant research
-
Afendi F.M., Okada T., Yamazaki M., Hirai-Morita A., Nakamura Y., Nakamura K., et al. KNApSAcK family databases: integrated metabolite-plant species databases for multifaceted plant research. Plant Cell Physiol 2012, 53:e1.
-
(2012)
Plant Cell Physiol
, vol.53
-
-
Afendi, F.M.1
Okada, T.2
Yamazaki, M.3
Hirai-Morita, A.4
Nakamura, Y.5
Nakamura, K.6
-
63
-
-
38549094609
-
NORINE: a database of nonribosomal peptides
-
Caboche S., Pupin M., Leclere V., Fontaine A., Jacques P., Kucherov G. NORINE: a database of nonribosomal peptides. Nucleic Acids Res 2008, 36:D326-31.
-
(2008)
Nucleic Acids Res
, vol.36
, pp. D326-D331
-
-
Caboche, S.1
Pupin, M.2
Leclere, V.3
Fontaine, A.4
Jacques, P.5
Kucherov, G.6
-
64
-
-
84979258428
-
Norine, the knowledgebase dedicated to non-ribosomal peptides, is now open to crowdsourcing
-
Flissi A., Dufresne Y., Michalik J., Tonon L., Janot S., Noe L., et al. Norine, the knowledgebase dedicated to non-ribosomal peptides, is now open to crowdsourcing. Nucleic Acids Res 2015, 44(D1):D1113-8.
-
(2015)
Nucleic Acids Res
, vol.44
, Issue.D1
, pp. D1113-D1118
-
-
Flissi, A.1
Dufresne, Y.2
Michalik, J.3
Tonon, L.4
Janot, S.5
Noe, L.6
-
65
-
-
54949108677
-
PubChem: integrated platform of small molecules and biological activities
-
American Chemical Society, Washington, DC, editors
-
Bolton E., Wang Y., Thiessen P.A., Bryant S.H. PubChem: integrated platform of small molecules and biological activities. Annual reports in computational chemistry 2008, Vol. 4:217-241. American Chemical Society, Washington, DC, editors.
-
(2008)
Annual reports in computational chemistry
, vol.4
, pp. 217-241
-
-
Bolton, E.1
Wang, Y.2
Thiessen, P.A.3
Bryant, S.H.4
-
66
-
-
84876543738
-
StreptomeDB: a resource for natural compounds isolated from Streptomyces species
-
Lucas X., Senger C., Erxleben A., Gruning B.A., Doring K., Mosch J., et al. StreptomeDB: a resource for natural compounds isolated from Streptomyces species. Nucleic Acids Res 2013, 41:D1130-6.
-
(2013)
Nucleic Acids Res
, vol.41
, pp. D1130-D1136
-
-
Lucas, X.1
Senger, C.2
Erxleben, A.3
Gruning, B.A.4
Doring, K.5
Mosch, J.6
-
67
-
-
84976875272
-
StreptomeDB 2.0 - an extended resource of natural products produced by streptomycetes
-
Klementz D., Doring K., Lucas X., Telukunta K.K., Erxleben A., Deubel D., et al. StreptomeDB 2.0 - an extended resource of natural products produced by streptomycetes. Nucleic Acids Res 2016, 44(D1):D509-14.
-
(2016)
Nucleic Acids Res
, vol.44
, Issue.D1
, pp. D509-D514
-
-
Klementz, D.1
Doring, K.2
Lucas, X.3
Telukunta, K.K.4
Erxleben, A.5
Deubel, D.6
-
68
-
-
80053896196
-
Cycloquest: identification of cyclopeptides via database search of their mass spectra against genome databases
-
Mohimani H., Liu W.T., Mylne J.S., Poth A.G., Colgrave M.L., Tran D., et al. Cycloquest: identification of cyclopeptides via database search of their mass spectra against genome databases. J Proteome Res 2011, 10:4505-4512.
-
(2011)
J Proteome Res
, vol.10
, pp. 4505-4512
-
-
Mohimani, H.1
Liu, W.T.2
Mylne, J.S.3
Poth, A.G.4
Colgrave, M.L.5
Tran, D.6
-
69
-
-
84869792678
-
Dereplicating nonribosomal peptides using an informatic search algorithm for natural products (iSNAP) discovery
-
Ibrahim A., Yang L., Johnston C., Liu X., Ma B., Magarvey N.A. Dereplicating nonribosomal peptides using an informatic search algorithm for natural products (iSNAP) discovery. Proc Natl Acad Sci U S A 2012, 109:19196-19201.
-
(2012)
Proc Natl Acad Sci U S A
, vol.109
, pp. 19196-19201
-
-
Ibrahim, A.1
Yang, L.2
Johnston, C.3
Liu, X.4
Ma, B.5
Magarvey, N.A.6
-
70
-
-
84941944299
-
Exploration of nonribosomal peptide families with an automated informatic search algorithm
-
Yang L., Ibrahim A., Johnston C.W., Skinnider M.A., Ma B., Magarvey N.A. Exploration of nonribosomal peptide families with an automated informatic search algorithm. Chem Biol 2015, 22:1259-1269.
-
(2015)
Chem Biol
, vol.22
, pp. 1259-1269
-
-
Yang, L.1
Ibrahim, A.2
Johnston, C.W.3
Skinnider, M.A.4
Ma, B.5
Magarvey, N.A.6
-
71
-
-
84958120965
-
Informatic search strategies to discover analogues and variants of natural product archetypes
-
Johnston C.W., Connaty A.D., Skinnider M.A., Li Y., Grunwald A., Wyatt M.A., et al. Informatic search strategies to discover analogues and variants of natural product archetypes. J Ind Microbiol Biotechnol 2015, 10.1007/s10295-015-1675-9.
-
(2015)
J Ind Microbiol Biotechnol
-
-
Johnston, C.W.1
Connaty, A.D.2
Skinnider, M.A.3
Li, Y.4
Grunwald, A.5
Wyatt, M.A.6
-
72
-
-
84906678559
-
NRPquest: coupling mass spectrometry and genome mining for nonribosomal peptide discovery
-
Mohimani H., Liu W.T., Kersten R.D., Moore B.S., Dorrestein P.C., Pevzner P.A. NRPquest: coupling mass spectrometry and genome mining for nonribosomal peptide discovery. J Nat Prod 2014, 77:1902-1909.
-
(2014)
J Nat Prod
, vol.77
, pp. 1902-1909
-
-
Mohimani, H.1
Liu, W.T.2
Kersten, R.D.3
Moore, B.S.4
Dorrestein, P.C.5
Pevzner, P.A.6
-
73
-
-
84907584619
-
Pep2Path: automated mass spectrometry-guided genome mining of peptidic natural products
-
Medema M.H., Paalvast Y., Nguyen D.D., Melnik A., Dorrestein P.C., Takano E., et al. Pep2Path: automated mass spectrometry-guided genome mining of peptidic natural products. PLoS Comput Biol 2014, 10:e1003822.
-
(2014)
PLoS Comput Biol
, vol.10
-
-
Medema, M.H.1
Paalvast, Y.2
Nguyen, D.D.3
Melnik, A.4
Dorrestein, P.C.5
Takano, E.6
-
74
-
-
84904547209
-
Automated genome mining of ribosomal peptide natural products
-
Mohimani H., Kersten R.D., Liu W.T., Wang M., Purvine S.O., Wu S., et al. Automated genome mining of ribosomal peptide natural products. ACS Chem Biol 2014, 9:1545-1551.
-
(2014)
ACS Chem Biol
, vol.9
, pp. 1545-1551
-
-
Mohimani, H.1
Kersten, R.D.2
Liu, W.T.3
Wang, M.4
Purvine, S.O.5
Wu, S.6
-
75
-
-
0030801002
-
Gapped BLAST and PSI-BLAST: a new generation of protein database search programs
-
Altschul S.F., Madden T.L., Schaffer A.A., Zhang J., Zhang Z., Miller W., et al. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res 1997, 25:3389-3402.
-
(1997)
Nucleic Acids Res
, vol.25
, pp. 3389-3402
-
-
Altschul, S.F.1
Madden, T.L.2
Schaffer, A.A.3
Zhang, J.4
Zhang, Z.5
Miller, W.6
-
76
-
-
80055082271
-
Accelerated profile HMM searches
-
Eddy S.R. Accelerated profile HMM searches. PLoS Comput Biol 2011, 7:e1002195.
-
(2011)
PLoS Comput Biol
, vol.7
-
-
Eddy, S.R.1
-
77
-
-
84876587454
-
Detecting sequence homology at the gene cluster level with MultiGeneBlast
-
Medema M.H., Takano E., Breitling R. Detecting sequence homology at the gene cluster level with MultiGeneBlast. Mol Biol Evol 2013, 10.1093/molbev/mst025.
-
(2013)
Mol Biol Evol
-
-
Medema, M.H.1
Takano, E.2
Breitling, R.3
-
78
-
-
84920866686
-
Automated identification of depsipeptide natural products by an informatic search algorithm
-
Skinnider M.A., Johnston C.W., Zvanych R., Magarvey N.A. Automated identification of depsipeptide natural products by an informatic search algorithm. Chembiochem 2015, 16:223-227.
-
(2015)
Chembiochem
, vol.16
, pp. 223-227
-
-
Skinnider, M.A.1
Johnston, C.W.2
Zvanych, R.3
Magarvey, N.A.4
-
79
-
-
84895873870
-
Improved lanthipeptide detection and prediction for antiSMASH
-
Blin K., Kazempour D., Wohlleben W., Weber T. Improved lanthipeptide detection and prediction for antiSMASH. PLoS ONE 2014, 9:e89420.
-
(2014)
PLoS ONE
, vol.9
-
-
Blin, K.1
Kazempour, D.2
Wohlleben, W.3
Weber, T.4
-
80
-
-
0033179468
-
The specificity-conferring code of adenylation domains in nonribosomal peptide synthetases
-
Stachelhaus T., Mootz H.D., Marahiel M.A. The specificity-conferring code of adenylation domains in nonribosomal peptide synthetases. Chem Biol 1999, 6:493-505.
-
(1999)
Chem Biol
, vol.6
, pp. 493-505
-
-
Stachelhaus, T.1
Mootz, H.D.2
Marahiel, M.A.3
-
81
-
-
0034013269
-
Predictive, structure-based model of amino acid recognition by nonribosomal peptide synthetase adenylation domains
-
Challis G.L., Ravel J., Townsend C.A. Predictive, structure-based model of amino acid recognition by nonribosomal peptide synthetase adenylation domains. Chem Biol 2000, 7:211-224.
-
(2000)
Chem Biol
, vol.7
, pp. 211-224
-
-
Challis, G.L.1
Ravel, J.2
Townsend, C.A.3
-
82
-
-
34247279292
-
Comprehensive analysis of distinctive polyketide and nonribosomal peptide structural motifs encoded in microbial genomes
-
Minowa Y., Araki M., Kanehisa M. Comprehensive analysis of distinctive polyketide and nonribosomal peptide structural motifs encoded in microbial genomes. J Mol Biol 2007, 368:1500-1517.
-
(2007)
J Mol Biol
, vol.368
, pp. 1500-1517
-
-
Minowa, Y.1
Araki, M.2
Kanehisa, M.3
-
83
-
-
84944461014
-
Prediction of the substrate for nonribosomal peptide synthetase (NRPS) adenylation domains by virtual screening
-
Lee T.V., Johnson R.D., Arcus V.L., Lott J.S. Prediction of the substrate for nonribosomal peptide synthetase (NRPS) adenylation domains by virtual screening. Proteins 2015, 83(11):2052-2066.
-
(2015)
Proteins
, vol.83
, Issue.11
, pp. 2052-2066
-
-
Lee, T.V.1
Johnson, R.D.2
Arcus, V.L.3
Lott, J.S.4
-
84
-
-
84859051266
-
PKSIIIexplorer: TSVM approach for predicting Type III polyketide synthase proteins
-
Vijayan M., Chandrika S.K., Vasudevan S.E. PKSIIIexplorer: TSVM approach for predicting Type III polyketide synthase proteins. Bioinformation 2011, 6:125-127.
-
(2011)
Bioinformation
, vol.6
, pp. 125-127
-
-
Vijayan, M.1
Chandrika, S.K.2
Vasudevan, S.E.3
-
85
-
-
84896269325
-
Chemical-biogeographic survey of secondary metabolism in soil
-
Charlop-Powers Z., Owen J.G., Reddy B.V., Ternei M.A., Brady S.F. Chemical-biogeographic survey of secondary metabolism in soil. Proc Natl Acad Sci U S A 2014, 111:3757-3762.
-
(2014)
Proc Natl Acad Sci U S A
, vol.111
, pp. 3757-3762
-
-
Charlop-Powers, Z.1
Owen, J.G.2
Reddy, B.V.3
Ternei, M.A.4
Brady, S.F.5
-
86
-
-
84891762026
-
The ChEMBL bioactivity database: an update
-
Bento A.P., Gaulton A., Hersey A., Bellis L.J., Chambers J., Davies M., et al. The ChEMBL bioactivity database: an update. Nucleic Acids Res 2014, 42:D1083-90.
-
(2014)
Nucleic Acids Res
, vol.42
, pp. D1083-D1090
-
-
Bento, A.P.1
Gaulton, A.2
Hersey, A.3
Bellis, L.J.4
Chambers, J.5
Davies, M.6
-
87
-
-
84862192766
-
ChEMBL: a large-scale bioactivity database for drug discovery
-
Gaulton A., Bellis L.J., Bento A.P., Chambers J., Davies M., Hersey A., et al. ChEMBL: a large-scale bioactivity database for drug discovery. Nucleic Acids Res 2012, 40:D1100-7.
-
(2012)
Nucleic Acids Res
, vol.40
, pp. D1100-D1107
-
-
Gaulton, A.1
Bellis, L.J.2
Bento, A.P.3
Chambers, J.4
Davies, M.5
Hersey, A.6
-
88
-
-
84876560358
-
The ChEBI reference database and ontology for biologically relevant chemistry: enhancements for 2013
-
Hastings J., de Matos P., Dekker A., Ennis M., Harsha B., Kale N., et al. The ChEBI reference database and ontology for biologically relevant chemistry: enhancements for 2013. Nucleic Acids Res 2013, 41:D456-63.
-
(2013)
Nucleic Acids Res
, vol.41
, pp. D456-D463
-
-
Hastings, J.1
de Matos, P.2
Dekker, A.3
Ennis, M.4
Harsha, B.5
Kale, N.6
-
89
-
-
38549127678
-
ChEBI: a database and ontology for chemical entities of biological interest
-
Degtyarenko K., de Matos P., Ennis M., Hastings J., Zbinden M., McNaught A., et al. ChEBI: a database and ontology for chemical entities of biological interest. Nucleic Acids Res 2008, 36:D344-50.
-
(2008)
Nucleic Acids Res
, vol.36
, pp. D344-D350
-
-
Degtyarenko, K.1
de Matos, P.2
Ennis, M.3
Hastings, J.4
Zbinden, M.5
McNaught, A.6
-
90
-
-
84958121975
-
Metabolic profiling as a tool for prioritizing antimicrobial compounds
-
Wu C., Choi Y.H., van Wezel G.P. Metabolic profiling as a tool for prioritizing antimicrobial compounds. J Ind Microbiol Biotechnol 2015, 10.1007/s10295-015-1666-x.
-
(2015)
J Ind Microbiol Biotechnol
-
-
Wu, C.1
Choi, Y.H.2
van Wezel, G.P.3
-
91
-
-
84937525959
-
Metabolomics in the natural products field - a gateway to novel antibiotics
-
Wu C., Kim H.K., van Wezel G.P., Choi Y.H. Metabolomics in the natural products field - a gateway to novel antibiotics. Drug Discov Today Technol 2015, 13:11-17.
-
(2015)
Drug Discov Today Technol
, vol.13
, pp. 11-17
-
-
Wu, C.1
Kim, H.K.2
van Wezel, G.P.3
Choi, Y.H.4
-
92
-
-
38349151554
-
Metabolic flux analysis and metabolic engineering of microorganisms
-
Kim H.U., Kim T.Y., Lee S.Y. Metabolic flux analysis and metabolic engineering of microorganisms. Mol Biosyst 2008, 4:113-120.
-
(2008)
Mol Biosyst
, vol.4
, pp. 113-120
-
-
Kim, H.U.1
Kim, T.Y.2
Lee, S.Y.3
-
93
-
-
84887019367
-
Metabolic impact assessment for heterologous protein production in Streptomyces lividans based on genome-scale metabolic network modeling
-
Lule I., Huys P.J.D., Van Mellaert L., Anne J., Bernaerts K., Van Impe J. Metabolic impact assessment for heterologous protein production in Streptomyces lividans based on genome-scale metabolic network modeling. Math Biosci 2013, 246:113-121.
-
(2013)
Math Biosci
, vol.246
, pp. 113-121
-
-
Lule, I.1
Huys, P.J.D.2
Van Mellaert, L.3
Anne, J.4
Bernaerts, K.5
Van Impe, J.6
-
94
-
-
84863440730
-
Genome-scale metabolic flux analysis of Streptomyces lividans growing on a complex medium
-
Huys P.J.D., Lule I., Vercammen D., Anne J., Van Impe J.F., Bernaerts K. Genome-scale metabolic flux analysis of Streptomyces lividans growing on a complex medium. J Biotechnol 2012, 161:1-13.
-
(2012)
J Biotechnol
, vol.161
, pp. 1-13
-
-
Huys, P.J.D.1
Lule, I.2
Vercammen, D.3
Anne, J.4
Van Impe, J.F.5
Bernaerts, K.6
-
95
-
-
84906949001
-
Reconstruction of a high-quality metabolic model enables the identification of gene overexpression targets for enhanced antibiotic production in Streptomyces coelicolor A3(2)
-
Kim M., Sang Yi J., Kim J., Kim J.N., Kim M.W., Kim B.G. Reconstruction of a high-quality metabolic model enables the identification of gene overexpression targets for enhanced antibiotic production in Streptomyces coelicolor A3(2). Biotechnol J 2014, 9:1185-1194.
-
(2014)
Biotechnol J
, vol.9
, pp. 1185-1194
-
-
Kim, M.1
Sang Yi, J.2
Kim, J.3
Kim, J.N.4
Kim, M.W.5
Kim, B.G.6
-
96
-
-
84878003979
-
Genome-scale metabolic network guided engineering of Streptomyces tsukubaensis for FK506 production improvement
-
Huang D., Li S., Xia M., Wen J., Jia X. Genome-scale metabolic network guided engineering of Streptomyces tsukubaensis for FK506 production improvement. Microb Cell Fact 2013, 12:52.
-
(2013)
Microb Cell Fact
, vol.12
, pp. 52
-
-
Huang, D.1
Li, S.2
Xia, M.3
Wen, J.4
Jia, X.5
-
97
-
-
75149129569
-
A protocol for generating a high-quality genome-scale metabolic reconstruction
-
Thiele I., Palsson B.O. A protocol for generating a high-quality genome-scale metabolic reconstruction. Nat Protoc 2010, 5:93-121.
-
(2010)
Nat Protoc
, vol.5
, pp. 93-121
-
-
Thiele, I.1
Palsson, B.O.2
-
98
-
-
79960356281
-
Comparative genome-scale metabolic modeling of actinomycetes: the topology of essential core metabolism
-
Alam M.T., Medema M.H., Takano E., Breitling R. Comparative genome-scale metabolic modeling of actinomycetes: the topology of essential core metabolism. FEBS Lett 2011, 585:2389-2394.
-
(2011)
FEBS Lett
, vol.585
, pp. 2389-2394
-
-
Alam, M.T.1
Medema, M.H.2
Takano, E.3
Breitling, R.4
-
99
-
-
77956696072
-
High-throughput generation, optimization and analysis of genome-scale metabolic models
-
Henry C.S., DeJongh M., Best A.A., Frybarger P.M., Linsay B., Stevens R.L. High-throughput generation, optimization and analysis of genome-scale metabolic models. Nat Biotechnol 2010, 28:977-982.
-
(2010)
Nat Biotechnol
, vol.28
, pp. 977-982
-
-
Henry, C.S.1
DeJongh, M.2
Best, A.A.3
Frybarger, P.M.4
Linsay, B.5
Stevens, R.L.6
-
100
-
-
79251546728
-
MEMOSys: bioinformatics platform for genome-scale metabolic models
-
Pabinger S., Rader R., Agren R., Nielsen J., Trajanoski Z. MEMOSys: bioinformatics platform for genome-scale metabolic models. BMC Syst Biol 2011, 5:20.
-
(2011)
BMC Syst Biol
, vol.5
, pp. 20
-
-
Pabinger, S.1
Rader, R.2
Agren, R.3
Nielsen, J.4
Trajanoski, Z.5
-
101
-
-
84856038703
-
The SuBliMinaL Toolbox: automating steps in the reconstruction of metabolic networks
-
Swainston N., Smallbone K., Mendes P., Kell D., Paton N. The SuBliMinaL Toolbox: automating steps in the reconstruction of metabolic networks. J Integr Bioinform 2011, 8:186.
-
(2011)
J Integr Bioinform
, vol.8
, pp. 186
-
-
Swainston, N.1
Smallbone, K.2
Mendes, P.3
Kell, D.4
Paton, N.5
-
102
-
-
84856247380
-
FAME, the Flux Analysis and Modeling Environment
-
Boele J., Olivier B.G., Teusink B. FAME, the Flux Analysis and Modeling Environment. BMC Syst Biol 2012, 6:8.
-
(2012)
BMC Syst Biol
, vol.6
, pp. 8
-
-
Boele, J.1
Olivier, B.G.2
Teusink, B.3
-
103
-
-
84864000794
-
GEMSiRV: a software platform for GEnome-scale metabolic model simulation, reconstruction and visualization
-
Liao Y.C., Tsai M.H., Chen F.C., Hsiung C.A. GEMSiRV: a software platform for GEnome-scale metabolic model simulation, reconstruction and visualization. Bioinformatics 2012, 28:1752-1758.
-
(2012)
Bioinformatics
, vol.28
, pp. 1752-1758
-
-
Liao, Y.C.1
Tsai, M.H.2
Chen, F.C.3
Hsiung, C.A.4
-
104
-
-
84856568013
-
Construction and completion of flux balance models from pathway databases
-
Latendresse M., Krummenacker M., Trupp M., Karp P.D. Construction and completion of flux balance models from pathway databases. Bioinformatics 2012, 28:388-396.
-
(2012)
Bioinformatics
, vol.28
, pp. 388-396
-
-
Latendresse, M.1
Krummenacker, M.2
Trupp, M.3
Karp, P.D.4
-
105
-
-
84864464109
-
MicrobesFlux: a web platform for drafting metabolic models from the KEGG database
-
Feng X., Xu Y., Chen Y., Tang Y.J. MicrobesFlux: a web platform for drafting metabolic models from the KEGG database. BMC Syst Biol 2012, 6:94.
-
(2012)
BMC Syst Biol
, vol.6
, pp. 94
-
-
Feng, X.1
Xu, Y.2
Chen, Y.3
Tang, Y.J.4
-
106
-
-
84875973063
-
The RAVEN toolbox and its use for generating a genome-scale metabolic model for Penicillium chrysogenum
-
Agren R., Liu L., Shoaie S., Vongsangnak W., Nookaew I., Nielsen J. The RAVEN toolbox and its use for generating a genome-scale metabolic model for Penicillium chrysogenum. PLoS Comput Biol 2013, 9:e1002980.
-
(2013)
PLoS Comput Biol
, vol.9
-
-
Agren, R.1
Liu, L.2
Shoaie, S.3
Vongsangnak, W.4
Nookaew, I.5
Nielsen, J.6
-
107
-
-
84895735489
-
Comparative genome-scale reconstruction of gapless metabolic networks for present and ancestral species
-
Pitkanen E., Jouhten P., Hou J., Syed M.F., Blomberg P., Kludas J., et al. Comparative genome-scale reconstruction of gapless metabolic networks for present and ancestral species. PLoS Comput Biol 2014, 10:e1003465.
-
(2014)
PLoS Comput Biol
, vol.10
-
-
Pitkanen, E.1
Jouhten, P.2
Hou, J.3
Syed, M.F.4
Blomberg, P.5
Kludas, J.6
-
108
-
-
84930225331
-
Reconstructing genome-scale metabolic models with merlin
-
Dias O., Rocha M., Ferreira E.C., Rocha I. Reconstructing genome-scale metabolic models with merlin. Nucleic Acids Res 2015, 43:3899-3910.
-
(2015)
Nucleic Acids Res
, vol.43
, pp. 3899-3910
-
-
Dias, O.1
Rocha, M.2
Ferreira, E.C.3
Rocha, I.4
-
109
-
-
84891635463
-
Software platforms to facilitate reconstructing genome-scale metabolic networks
-
Hamilton J.J., Reed J.L. Software platforms to facilitate reconstructing genome-scale metabolic networks. Environ Microbiol 2014, 16:49-59.
-
(2014)
Environ Microbiol
, vol.16
, pp. 49-59
-
-
Hamilton, J.J.1
Reed, J.L.2
-
110
-
-
84903172568
-
Natural product proteomining, a quantitative proteomics platform, allows rapid discovery of biosynthetic gene clusters for different classes of natural products
-
Gubbens J., Zhu H., Girard G., Song L., Florea B.I., Aston P., et al. Natural product proteomining, a quantitative proteomics platform, allows rapid discovery of biosynthetic gene clusters for different classes of natural products. Chem Biol 2014, 21:707-718.
-
(2014)
Chem Biol
, vol.21
, pp. 707-718
-
-
Gubbens, J.1
Zhu, H.2
Girard, G.3
Song, L.4
Florea, B.I.5
Aston, P.6
-
111
-
-
84922466451
-
A roadmap for natural product discovery based on large-scale genomics and metabolomics
-
Doroghazi J.R., Albright J.C., Goering A.W., Ju K.S., Haines R.R., Tchalukov K.A., et al. A roadmap for natural product discovery based on large-scale genomics and metabolomics. Nat Chem Biol 2014, 10:963-968.
-
(2014)
Nat Chem Biol
, vol.10
, pp. 963-968
-
-
Doroghazi, J.R.1
Albright, J.C.2
Goering, A.W.3
Ju, K.S.4
Haines, R.R.5
Tchalukov, K.A.6
-
112
-
-
84887624961
-
Design-based re-engineering of biosynthetic gene clusters: plug-and-play in practice
-
Frasch H.J., Medema M.H., Takano E., Breitling R. Design-based re-engineering of biosynthetic gene clusters: plug-and-play in practice. Curr Opin Biotechnol 2013, 24:1144-1150.
-
(2013)
Curr Opin Biotechnol
, vol.24
, pp. 1144-1150
-
-
Frasch, H.J.1
Medema, M.H.2
Takano, E.3
Breitling, R.4
-
113
-
-
84857192122
-
Computational tools for the synthetic design of biochemical pathways
-
Medema M.H., van Raaphorst R., Takano E., Breitling R. Computational tools for the synthetic design of biochemical pathways. Nat Rev Microbiol 2012, 10:191-202.
-
(2012)
Nat Rev Microbiol
, vol.10
, pp. 191-202
-
-
Medema, M.H.1
van Raaphorst, R.2
Takano, E.3
Breitling, R.4
-
114
-
-
0141706445
-
Active-site residue, domain and module swaps in modular polyketide synthases
-
Del Vecchio F., Petkovic H., Kendrew S.G., Low L., Wilkinson B., Lill R., et al. Active-site residue, domain and module swaps in modular polyketide synthases. J Ind Microbiol Biotechnol 2003, 30:489-494.
-
(2003)
J Ind Microbiol Biotechnol
, vol.30
, pp. 489-494
-
-
Del Vecchio, F.1
Petkovic, H.2
Kendrew, S.G.3
Low, L.4
Wilkinson, B.5
Lill, R.6
-
115
-
-
27144509740
-
Combinatorial polyketide biosynthesis by de novo design and rearrangement of modular polyketide synthase genes
-
Menzella H.G., Reid R., Carney J.R., Chandran S.S., Reisinger S.J., Patel K.G., et al. Combinatorial polyketide biosynthesis by de novo design and rearrangement of modular polyketide synthase genes. Nat Biotechnol 2005, 23:1171-1176.
-
(2005)
Nat Biotechnol
, vol.23
, pp. 1171-1176
-
-
Menzella, H.G.1
Reid, R.2
Carney, J.R.3
Chandran, S.S.4
Reisinger, S.J.5
Patel, K.G.6
-
116
-
-
33751218042
-
Combinatorial biosynthesis of novel antibiotics related to daptomycin
-
Nguyen K.T., Ritz D., Gu J.Q., Alexander D., Chu M., Miao V., et al. Combinatorial biosynthesis of novel antibiotics related to daptomycin. Proc Natl Acad Sci U S A 2006, 103:17462-17467.
-
(2006)
Proc Natl Acad Sci U S A
, vol.103
, pp. 17462-17467
-
-
Nguyen, K.T.1
Ritz, D.2
Gu, J.Q.3
Alexander, D.4
Chu, M.5
Miao, V.6
-
117
-
-
49249127703
-
Module extension of a non-ribosomal peptide synthetase of the glycopeptide antibiotic balhimycin produced by Amycolatopsis balhimycina
-
Butz D., Schmiederer T., Hadatsch B., Wohlleben W., Weber T., Süßmuth R.D. Module extension of a non-ribosomal peptide synthetase of the glycopeptide antibiotic balhimycin produced by Amycolatopsis balhimycina. Chembiochem 2008, 9:1195-1200.
-
(2008)
Chembiochem
, vol.9
, pp. 1195-1200
-
-
Butz, D.1
Schmiederer, T.2
Hadatsch, B.3
Wohlleben, W.4
Weber, T.5
Süßmuth, R.D.6
-
118
-
-
84858184688
-
Reprogramming a module of the 6-deoxyerythronolide B synthase for iterative chain elongation
-
Kapur S., Lowry B., Yuzawa S., Kenthirapalan S., Chen A.Y., Cane D.E., et al. Reprogramming a module of the 6-deoxyerythronolide B synthase for iterative chain elongation. Proc Natl Acad Sci U S A 2012, 109:4110-4115.
-
(2012)
Proc Natl Acad Sci U S A
, vol.109
, pp. 4110-4115
-
-
Kapur, S.1
Lowry, B.2
Yuzawa, S.3
Kenthirapalan, S.4
Chen, A.Y.5
Cane, D.E.6
-
119
-
-
0033515090
-
Multiple genetic modifications of the erythromycin polyketide synthase to produce a library of novel "unnatural" natural products
-
McDaniel R., Thamchaipenet A., Gustafsson C., Fu H., Betlach M., Ashley G. Multiple genetic modifications of the erythromycin polyketide synthase to produce a library of novel "unnatural" natural products. Proc Natl Acad Sci U S A 1999, 96:1846-1851.
-
(1999)
Proc Natl Acad Sci U S A
, vol.96
, pp. 1846-1851
-
-
McDaniel, R.1
Thamchaipenet, A.2
Gustafsson, C.3
Fu, H.4
Betlach, M.5
Ashley, G.6
-
120
-
-
48749083335
-
Crystal structure of the termination module of a nonribosomal peptide synthetase
-
Tanovic A., Samel S.A., Essen L.O., Marahiel M.A. Crystal structure of the termination module of a nonribosomal peptide synthetase. Science 2008, 321:659-663.
-
(2008)
Science
, vol.321
, pp. 659-663
-
-
Tanovic, A.1
Samel, S.A.2
Essen, L.O.3
Marahiel, M.A.4
-
121
-
-
84957080440
-
A structural model for multimodular NRPS assembly lines
-
Marahiel M.A. A structural model for multimodular NRPS assembly lines. Nat Prod Rep 2015, 10.1039/C5NP00082C.
-
(2015)
Nat Prod Rep
-
-
Marahiel, M.A.1
-
122
-
-
84903481589
-
Structural rearrangements of a polyketide synthase module during its catalytic cycle
-
Whicher J.R., Dutta S., Hansen D.A., Hale W.A., Chemler J.A., Dosey A.M., et al. Structural rearrangements of a polyketide synthase module during its catalytic cycle. Nature 2014, 510:560-564.
-
(2014)
Nature
, vol.510
, pp. 560-564
-
-
Whicher, J.R.1
Dutta, S.2
Hansen, D.A.3
Hale, W.A.4
Chemler, J.A.5
Dosey, A.M.6
-
123
-
-
84903436332
-
Structure of a modular polyketide synthase
-
Dutta S., Whicher J.R., Hansen D.A., Hale W.A., Chemler J.A., Congdon G.R., et al. Structure of a modular polyketide synthase. Nature 2014, 510:512-517.
-
(2014)
Nature
, vol.510
, pp. 512-517
-
-
Dutta, S.1
Whicher, J.R.2
Hansen, D.A.3
Hale, W.A.4
Chemler, J.A.5
Congdon, G.R.6
-
124
-
-
78650660868
-
Molecular recognition between ketosynthase and acyl carrier protein domains of the 6-deoxyerythronolide B synthase
-
Kapur S., Chen A.Y., Cane D.E., Khosla C. Molecular recognition between ketosynthase and acyl carrier protein domains of the 6-deoxyerythronolide B synthase. Proc Natl Acad Sci U S A 2010, 107:22066-22071.
-
(2010)
Proc Natl Acad Sci U S A
, vol.107
, pp. 22066-22071
-
-
Kapur, S.1
Chen, A.Y.2
Cane, D.E.3
Khosla, C.4
-
125
-
-
84901390725
-
Reprogramming acyl carrier protein interactions of an acyl-CoA promiscuous trans-acyltransferase
-
Ye Z., Musiol E.M., Weber T., Williams G.J. Reprogramming acyl carrier protein interactions of an acyl-CoA promiscuous trans-acyltransferase. Chem Biol 2014, 21:636-646.
-
(2014)
Chem Biol
, vol.21
, pp. 636-646
-
-
Ye, Z.1
Musiol, E.M.2
Weber, T.3
Williams, G.J.4
-
126
-
-
84940106526
-
CRISPR-Cas9 based engineering of actinomycetal genomes
-
Tong Y., Charusanti P., Zhang L., Weber T., Lee S.Y. CRISPR-Cas9 based engineering of actinomycetal genomes. ACS Synth Biol 2015, 4:1020-1029.
-
(2015)
ACS Synth Biol
, vol.4
, pp. 1020-1029
-
-
Tong, Y.1
Charusanti, P.2
Zhang, L.3
Weber, T.4
Lee, S.Y.5
-
127
-
-
84934947770
-
High-efficiency multiplex genome editing of Streptomyces species using an engineered CRISPR/Cas system
-
Cobb R.E., Wang Y., Zhao H. High-efficiency multiplex genome editing of Streptomyces species using an engineered CRISPR/Cas system. ACS Synth Biol 2015, 4:723-728.
-
(2015)
ACS Synth Biol
, vol.4
, pp. 723-728
-
-
Cobb, R.E.1
Wang, Y.2
Zhao, H.3
-
128
-
-
84948382257
-
Highly efficient editing of the actinorhodin polyketide chain length factor gene in Streptomyces coelicolor M145 using CRISPR/Cas9-CodA(sm) combined system
-
Zeng H., Wen S., Xu W., He Z., Zhai G., Liu Y., et al. Highly efficient editing of the actinorhodin polyketide chain length factor gene in Streptomyces coelicolor M145 using CRISPR/Cas9-CodA(sm) combined system. Appl Microbiol Biotechnol 2015, 99(24):10575-10585.
-
(2015)
Appl Microbiol Biotechnol
, vol.99
, Issue.24
, pp. 10575-10585
-
-
Zeng, H.1
Wen, S.2
Xu, W.3
He, Z.4
Zhai, G.5
Liu, Y.6
-
129
-
-
84926466507
-
One-step high-efficiency CRISPR/Cas9-mediated genome editing in Streptomyces
-
Huang H., Zheng G., Jiang W., Hu H., Lu Y. One-step high-efficiency CRISPR/Cas9-mediated genome editing in Streptomyces. Acta Biochim Biophys Sin (Shanghai) 2015, 47:231-243.
-
(2015)
Acta Biochim Biophys Sin (Shanghai)
, vol.47
, pp. 231-243
-
-
Huang, H.1
Zheng, G.2
Jiang, W.3
Hu, H.4
Lu, Y.5
|