共 67 条
New surveyor tools for charting microbial metabolic maps
被引:69
作者:

Breitling, Rainer
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机构:
Univ Groningen, Groningen Biomol Sci & Biotechnol Inst, Groningen Bioinformat Ctr, NL-9751 NN Haren, Netherlands Univ Groningen, Groningen Biomol Sci & Biotechnol Inst, Groningen Bioinformat Ctr, NL-9751 NN Haren, Netherlands

Vitkup, Dennis
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机构:
Columbia Univ, Dept Biomed Informat, Ctr Computat Biol & Bioinformat, New York, NY 10032 USA Univ Groningen, Groningen Biomol Sci & Biotechnol Inst, Groningen Bioinformat Ctr, NL-9751 NN Haren, Netherlands

Barrett, Michael P.
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机构:
Univ Glasgow, Inst Biomed & Life Sci, Div Infect & Immun, Glasgow G12 8QQ, Lanark, Scotland Univ Groningen, Groningen Biomol Sci & Biotechnol Inst, Groningen Bioinformat Ctr, NL-9751 NN Haren, Netherlands
机构:
[1] Univ Groningen, Groningen Biomol Sci & Biotechnol Inst, Groningen Bioinformat Ctr, NL-9751 NN Haren, Netherlands
[2] Columbia Univ, Dept Biomed Informat, Ctr Computat Biol & Bioinformat, New York, NY 10032 USA
[3] Univ Glasgow, Inst Biomed & Life Sci, Div Infect & Immun, Glasgow G12 8QQ, Lanark, Scotland
关键词:
D O I:
10.1038/nrmicro1797
中图分类号:
Q93 [微生物学];
学科分类号:
071005 ;
100705 ;
摘要:
The computational reconstruction and analysis of cellular models of microbial metabolism is one of the great success stories of systems biology. The extent and quality of metabolic network reconstructions is, however, limited by the current state of biochemical knowledge. Can experimental high-throughput data be used to improve and expand network reconstructions to include unexplored areas of metabolism? Recent advances in experimental technology and analytical methods bring this aim an important step closer to realization. Data integration will play a particularly important part in exploiting the new experimental opportunities.
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页码:156 / 161
页数:6
相关论文
共 67 条
[21]
A novel metabolic cycle catalyzes glucose oxidation and anaplerosis in hungry Escherichia coli
[J].
Fischer, E
;
Sauer, U
.
JOURNAL OF BIOLOGICAL CHEMISTRY,
2003, 278 (47)
:46446-46451

Fischer, E
论文数: 0 引用数: 0
h-index: 0
机构:
ETH, Inst Biotechnol, CH-8093 Zurich, Switzerland ETH, Inst Biotechnol, CH-8093 Zurich, Switzerland

Sauer, U
论文数: 0 引用数: 0
h-index: 0
机构:
ETH, Inst Biotechnol, CH-8093 Zurich, Switzerland ETH, Inst Biotechnol, CH-8093 Zurich, Switzerland
[22]
WHOLE-GENOME RANDOM SEQUENCING AND ASSEMBLY OF HAEMOPHILUS-INFLUENZAE RD
[J].
FLEISCHMANN, RD
;
ADAMS, MD
;
WHITE, O
;
CLAYTON, RA
;
KIRKNESS, EF
;
KERLAVAGE, AR
;
BULT, CJ
;
TOMB, JF
;
DOUGHERTY, BA
;
MERRICK, JM
;
MCKENNEY, K
;
SUTTON, G
;
FITZHUGH, W
;
FIELDS, C
;
GOCAYNE, JD
;
SCOTT, J
;
SHIRLEY, R
;
LIU, LI
;
GLODEK, A
;
KELLEY, JM
;
WEIDMAN, JF
;
PHILLIPS, CA
;
SPRIGGS, T
;
HEDBLOM, E
;
COTTON, MD
;
UTTERBACK, TR
;
HANNA, MC
;
NGUYEN, DT
;
SAUDEK, DM
;
BRANDON, RC
;
FINE, LD
;
FRITCHMAN, JL
;
FUHRMANN, JL
;
GEOGHAGEN, NSM
;
GNEHM, CL
;
MCDONALD, LA
;
SMALL, KV
;
FRASER, CM
;
SMITH, HO
;
VENTER, JC
.
SCIENCE,
1995, 269 (5223)
:496-512

FLEISCHMANN, RD
论文数: 0 引用数: 0
h-index: 0
机构: INST GENOM RES, GAITHERSBURG, MD 20878 USA

ADAMS, MD
论文数: 0 引用数: 0
h-index: 0
机构: INST GENOM RES, GAITHERSBURG, MD 20878 USA

WHITE, O
论文数: 0 引用数: 0
h-index: 0
机构: INST GENOM RES, GAITHERSBURG, MD 20878 USA

CLAYTON, RA
论文数: 0 引用数: 0
h-index: 0
机构: INST GENOM RES, GAITHERSBURG, MD 20878 USA

KIRKNESS, EF
论文数: 0 引用数: 0
h-index: 0
机构: INST GENOM RES, GAITHERSBURG, MD 20878 USA

KERLAVAGE, AR
论文数: 0 引用数: 0
h-index: 0
机构: INST GENOM RES, GAITHERSBURG, MD 20878 USA

BULT, CJ
论文数: 0 引用数: 0
h-index: 0
机构: INST GENOM RES, GAITHERSBURG, MD 20878 USA

TOMB, JF
论文数: 0 引用数: 0
h-index: 0
机构: INST GENOM RES, GAITHERSBURG, MD 20878 USA

DOUGHERTY, BA
论文数: 0 引用数: 0
h-index: 0
机构: INST GENOM RES, GAITHERSBURG, MD 20878 USA

MERRICK, JM
论文数: 0 引用数: 0
h-index: 0
机构: INST GENOM RES, GAITHERSBURG, MD 20878 USA

MCKENNEY, K
论文数: 0 引用数: 0
h-index: 0
机构: INST GENOM RES, GAITHERSBURG, MD 20878 USA

SUTTON, G
论文数: 0 引用数: 0
h-index: 0
机构: INST GENOM RES, GAITHERSBURG, MD 20878 USA

FITZHUGH, W
论文数: 0 引用数: 0
h-index: 0
机构: INST GENOM RES, GAITHERSBURG, MD 20878 USA

FIELDS, C
论文数: 0 引用数: 0
h-index: 0
机构: INST GENOM RES, GAITHERSBURG, MD 20878 USA

GOCAYNE, JD
论文数: 0 引用数: 0
h-index: 0
机构: INST GENOM RES, GAITHERSBURG, MD 20878 USA

SCOTT, J
论文数: 0 引用数: 0
h-index: 0
机构: INST GENOM RES, GAITHERSBURG, MD 20878 USA

SHIRLEY, R
论文数: 0 引用数: 0
h-index: 0
机构: INST GENOM RES, GAITHERSBURG, MD 20878 USA

LIU, LI
论文数: 0 引用数: 0
h-index: 0
机构: INST GENOM RES, GAITHERSBURG, MD 20878 USA

GLODEK, A
论文数: 0 引用数: 0
h-index: 0
机构: INST GENOM RES, GAITHERSBURG, MD 20878 USA

KELLEY, JM
论文数: 0 引用数: 0
h-index: 0
机构: INST GENOM RES, GAITHERSBURG, MD 20878 USA

WEIDMAN, JF
论文数: 0 引用数: 0
h-index: 0
机构: INST GENOM RES, GAITHERSBURG, MD 20878 USA

PHILLIPS, CA
论文数: 0 引用数: 0
h-index: 0
机构: INST GENOM RES, GAITHERSBURG, MD 20878 USA

SPRIGGS, T
论文数: 0 引用数: 0
h-index: 0
机构: INST GENOM RES, GAITHERSBURG, MD 20878 USA

HEDBLOM, E
论文数: 0 引用数: 0
h-index: 0
机构: INST GENOM RES, GAITHERSBURG, MD 20878 USA

COTTON, MD
论文数: 0 引用数: 0
h-index: 0
机构: INST GENOM RES, GAITHERSBURG, MD 20878 USA

UTTERBACK, TR
论文数: 0 引用数: 0
h-index: 0
机构: INST GENOM RES, GAITHERSBURG, MD 20878 USA

HANNA, MC
论文数: 0 引用数: 0
h-index: 0
机构: INST GENOM RES, GAITHERSBURG, MD 20878 USA

NGUYEN, DT
论文数: 0 引用数: 0
h-index: 0
机构: INST GENOM RES, GAITHERSBURG, MD 20878 USA

SAUDEK, DM
论文数: 0 引用数: 0
h-index: 0
机构: INST GENOM RES, GAITHERSBURG, MD 20878 USA

BRANDON, RC
论文数: 0 引用数: 0
h-index: 0
机构: INST GENOM RES, GAITHERSBURG, MD 20878 USA

FINE, LD
论文数: 0 引用数: 0
h-index: 0
机构: INST GENOM RES, GAITHERSBURG, MD 20878 USA

FRITCHMAN, JL
论文数: 0 引用数: 0
h-index: 0
机构: INST GENOM RES, GAITHERSBURG, MD 20878 USA

FUHRMANN, JL
论文数: 0 引用数: 0
h-index: 0
机构: INST GENOM RES, GAITHERSBURG, MD 20878 USA

GEOGHAGEN, NSM
论文数: 0 引用数: 0
h-index: 0
机构: INST GENOM RES, GAITHERSBURG, MD 20878 USA

GNEHM, CL
论文数: 0 引用数: 0
h-index: 0
机构: INST GENOM RES, GAITHERSBURG, MD 20878 USA

MCDONALD, LA
论文数: 0 引用数: 0
h-index: 0
机构: INST GENOM RES, GAITHERSBURG, MD 20878 USA

SMALL, KV
论文数: 0 引用数: 0
h-index: 0
机构: INST GENOM RES, GAITHERSBURG, MD 20878 USA

FRASER, CM
论文数: 0 引用数: 0
h-index: 0
机构: INST GENOM RES, GAITHERSBURG, MD 20878 USA

SMITH, HO
论文数: 0 引用数: 0
h-index: 0
机构: INST GENOM RES, GAITHERSBURG, MD 20878 USA

VENTER, JC
论文数: 0 引用数: 0
h-index: 0
机构: INST GENOM RES, GAITHERSBURG, MD 20878 USA
[23]
Latent pathway activation and increased pathway capacity enable Escherichia coli adaptation to loss of key metabolic enzymes
[J].
Fong, SS
;
Nanchen, A
;
Palsson, BO
;
Sauer, U
.
JOURNAL OF BIOLOGICAL CHEMISTRY,
2006, 281 (12)
:8024-8033

Fong, SS
论文数: 0 引用数: 0
h-index: 0
机构: Virginia Commonwealth Univ, Dept Chem & Life Sci Engn, Richmond, VA 23284 USA

Nanchen, A
论文数: 0 引用数: 0
h-index: 0
机构: Virginia Commonwealth Univ, Dept Chem & Life Sci Engn, Richmond, VA 23284 USA

Palsson, BO
论文数: 0 引用数: 0
h-index: 0
机构: Virginia Commonwealth Univ, Dept Chem & Life Sci Engn, Richmond, VA 23284 USA

Sauer, U
论文数: 0 引用数: 0
h-index: 0
机构: Virginia Commonwealth Univ, Dept Chem & Life Sci Engn, Richmond, VA 23284 USA
[24]
In silico design and adaptive evolution of Escherichia coli for production of lactic acid
[J].
Fong, SS
;
Burgard, AP
;
Herring, CD
;
Knight, EM
;
Blattner, FR
;
Maranas, CD
;
Palsson, BO
.
BIOTECHNOLOGY AND BIOENGINEERING,
2005, 91 (05)
:643-648

Fong, SS
论文数: 0 引用数: 0
h-index: 0
机构: Univ Calif San Diego, Dept Bioengn, La Jolla, CA 92093 USA

Burgard, AP
论文数: 0 引用数: 0
h-index: 0
机构: Univ Calif San Diego, Dept Bioengn, La Jolla, CA 92093 USA

Herring, CD
论文数: 0 引用数: 0
h-index: 0
机构: Univ Calif San Diego, Dept Bioengn, La Jolla, CA 92093 USA

Knight, EM
论文数: 0 引用数: 0
h-index: 0
机构: Univ Calif San Diego, Dept Bioengn, La Jolla, CA 92093 USA

Blattner, FR
论文数: 0 引用数: 0
h-index: 0
机构: Univ Calif San Diego, Dept Bioengn, La Jolla, CA 92093 USA

Maranas, CD
论文数: 0 引用数: 0
h-index: 0
机构: Univ Calif San Diego, Dept Bioengn, La Jolla, CA 92093 USA

Palsson, BO
论文数: 0 引用数: 0
h-index: 0
机构: Univ Calif San Diego, Dept Bioengn, La Jolla, CA 92093 USA
[25]
Metabolic gene-deletion strains of Escherichia coli evolve to computationally predicted growth phenotypes
[J].
Fong, SS
;
Palsson, BO
.
NATURE GENETICS,
2004, 36 (10)
:1056-1058

Fong, SS
论文数: 0 引用数: 0
h-index: 0
机构:
Univ Calif San Diego, Dept Bioengn, La Jolla, CA 92093 USA Univ Calif San Diego, Dept Bioengn, La Jolla, CA 92093 USA

Palsson, BO
论文数: 0 引用数: 0
h-index: 0
机构:
Univ Calif San Diego, Dept Bioengn, La Jolla, CA 92093 USA Univ Calif San Diego, Dept Bioengn, La Jolla, CA 92093 USA
[26]
Genome-scale reconstruction of the Saccharomyces cerevisiae metabolic network
[J].
Förster, J
;
Famili, I
;
Fu, P
;
Palsson, BO
;
Nielsen, J
.
GENOME RESEARCH,
2003, 13 (02)
:244-253

Förster, J
论文数: 0 引用数: 0
h-index: 0
机构: Tech Univ Denmark, Bioctr, Ctr Proc Biotechnol, DK-2800 Lyngby, Denmark

Famili, I
论文数: 0 引用数: 0
h-index: 0
机构: Tech Univ Denmark, Bioctr, Ctr Proc Biotechnol, DK-2800 Lyngby, Denmark

Fu, P
论文数: 0 引用数: 0
h-index: 0
机构: Tech Univ Denmark, Bioctr, Ctr Proc Biotechnol, DK-2800 Lyngby, Denmark

Palsson, BO
论文数: 0 引用数: 0
h-index: 0
机构: Tech Univ Denmark, Bioctr, Ctr Proc Biotechnol, DK-2800 Lyngby, Denmark

Nielsen, J
论文数: 0 引用数: 0
h-index: 0
机构:
Tech Univ Denmark, Bioctr, Ctr Proc Biotechnol, DK-2800 Lyngby, Denmark Tech Univ Denmark, Bioctr, Ctr Proc Biotechnol, DK-2800 Lyngby, Denmark
[27]
MetaNetwork: a computational protocol for the genetic study of metabolic networks
[J].
Fu, Jingyuan
;
Swertz, Morris A.
;
Keurentjes, Joost J. B.
;
Jansen, Ritsert C.
.
NATURE PROTOCOLS,
2007, 2 (03)
:685-694

Fu, Jingyuan
论文数: 0 引用数: 0
h-index: 0
机构:
Univ Groningen, Groningen Bioinformat Ctr, Groningen Biomol Sci & Biotechnol Inst, NL-9751 NN Haren, Netherlands Univ Groningen, Groningen Bioinformat Ctr, Groningen Biomol Sci & Biotechnol Inst, NL-9751 NN Haren, Netherlands

Swertz, Morris A.
论文数: 0 引用数: 0
h-index: 0
机构:
Univ Groningen, Groningen Bioinformat Ctr, Groningen Biomol Sci & Biotechnol Inst, NL-9751 NN Haren, Netherlands Univ Groningen, Groningen Bioinformat Ctr, Groningen Biomol Sci & Biotechnol Inst, NL-9751 NN Haren, Netherlands

Keurentjes, Joost J. B.
论文数: 0 引用数: 0
h-index: 0
机构:
Univ Wageningen & Res Ctr, Genet Lab, NL-6703 BD Wageningen, Netherlands
Univ Wageningen & Res Ctr, Lab Plant Physiol, NL-6703 BD Wageningen, Netherlands Univ Groningen, Groningen Bioinformat Ctr, Groningen Biomol Sci & Biotechnol Inst, NL-9751 NN Haren, Netherlands

Jansen, Ritsert C.
论文数: 0 引用数: 0
h-index: 0
机构:
Univ Groningen, Groningen Bioinformat Ctr, Groningen Biomol Sci & Biotechnol Inst, NL-9751 NN Haren, Netherlands Univ Groningen, Groningen Bioinformat Ctr, Groningen Biomol Sci & Biotechnol Inst, NL-9751 NN Haren, Netherlands
[28]
A Bayesian method for identifying missing enzymes in predicted metabolic pathway databases
[J].
Green, ML
;
Karp, PD
.
BMC BIOINFORMATICS,
2004, 5 (1)

Green, ML
论文数: 0 引用数: 0
h-index: 0
机构:
SRI Int, Bioinformat Res Grp, Menlo Pk, CA 94025 USA SRI Int, Bioinformat Res Grp, Menlo Pk, CA 94025 USA

Karp, PD
论文数: 0 引用数: 0
h-index: 0
机构:
SRI Int, Bioinformat Res Grp, Menlo Pk, CA 94025 USA SRI Int, Bioinformat Res Grp, Menlo Pk, CA 94025 USA
[29]
Functional cartography of complex metabolic networks
[J].
Guimerà, R
;
Amaral, LAN
.
NATURE,
2005, 433 (7028)
:895-900

Guimerà, R
论文数: 0 引用数: 0
h-index: 0
机构: Northwestern Univ, NICO, Evanston, IL 60208 USA

Amaral, LAN
论文数: 0 引用数: 0
h-index: 0
机构:
Northwestern Univ, NICO, Evanston, IL 60208 USA Northwestern Univ, NICO, Evanston, IL 60208 USA
[30]
Identification of genome-scale metabolic network models using experimentally measured flux profiles
[J].
Herrgard, Markus J.
;
Fong, Stephen S.
;
Palsson, Bernhard O.
.
PLOS COMPUTATIONAL BIOLOGY,
2006, 2 (07)
:676-686

Herrgard, Markus J.
论文数: 0 引用数: 0
h-index: 0
机构:
Univ Calif San Diego, Dept Bioengn, La Jolla, CA 92093 USA Univ Calif San Diego, Dept Bioengn, La Jolla, CA 92093 USA

Fong, Stephen S.
论文数: 0 引用数: 0
h-index: 0
机构:
Univ Calif San Diego, Dept Bioengn, La Jolla, CA 92093 USA Univ Calif San Diego, Dept Bioengn, La Jolla, CA 92093 USA

Palsson, Bernhard O.
论文数: 0 引用数: 0
h-index: 0
机构:
Univ Calif San Diego, Dept Bioengn, La Jolla, CA 92093 USA Univ Calif San Diego, Dept Bioengn, La Jolla, CA 92093 USA