-
1
-
-
0025183708
-
Basic local alignment search tool
-
Altschul S.F., Gish W., Miller W., Myers E.W., Lipman D.J. Basic local alignment search tool. J. Mol. Biol. 215:1990;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
-
3
-
-
0031841788
-
The PIR-International Protein Sequence Database
-
Barker W.C., Garavelli J.S., Haft D.H., Hunt L.T., Marzec C.R., Orcutt B.C., Srinivasarao G.Y., Yeh L.S.L., Ledley R.S., Mewes H.W., Pfeiffer F., Tsugita A. The PIR-International Protein Sequence Database. Nucleic Acids Res. 26:1998;27-32.
-
(1998)
Nucleic Acids Res.
, vol.26
, pp. 27-32
-
-
Barker, W.C.1
Garavelli, J.S.2
Haft, D.H.3
Hunt, L.T.4
Marzec, C.R.5
Orcutt, B.C.6
Srinivasarao, G.Y.7
Yeh, L.S.L.8
Ledley, R.S.9
Mewes, H.W.10
Pfeiffer, F.11
Tsugita, A.12
-
4
-
-
0028303468
-
Quantitative analysis of ribosome binding sites in E. coli
-
Barrick D., Villanueba K., Childs J., Kalil R., Schneider T.D., Lawrence C.E., Gold L., Stormo G.D. Quantitative analysis of ribosome binding sites in E. coli. Nucleic Acids Res. 22:1994;1287-1295.
-
(1994)
Nucleic Acids Res.
, vol.22
, pp. 1287-1295
-
-
Barrick, D.1
Villanueba, K.2
Childs, J.3
Kalil, R.4
Schneider, T.D.5
Lawrence, C.E.6
Gold, L.7
Stormo, G.D.8
-
5
-
-
0030755081
-
Against all odds: The survival strategies of Deinococcus radiodurans
-
Battista J.R. Against all odds: the survival strategies of Deinococcus radiodurans. Annu. Rev. Microbiol. 51:1997;203-224.
-
(1997)
Annu. Rev. Microbiol.
, vol.51
, pp. 203-224
-
-
Battista, J.R.1
-
6
-
-
0023947427
-
Selection of DNA binding sites by regulatory proteins
-
Berg O.G., von Hippel P.H. Selection of DNA binding sites by regulatory proteins. Trends Biochem. Sci. 13:1988;207-211.
-
(1988)
Trends Biochem. Sci.
, vol.13
, pp. 207-211
-
-
Berg, O.G.1
Von Hippel, P.H.2
-
7
-
-
0029055890
-
Identification of ribosome binding sites in Escherichia coli using neural network models
-
Bisant D., Maizel J. Identification of ribosome binding sites in Escherichia coli using neural network models. Nucleic Acids Res. 23:1995;1632-1639.
-
(1995)
Nucleic Acids Res.
, vol.23
, pp. 1632-1639
-
-
Bisant, D.1
Maizel, J.2
-
8
-
-
15444350252
-
The complete genome sequence of Escherichia coli K-12
-
Blattner F.R., Plunkett III G., Bloch C.A., et al. The complete genome sequence of Escherichia coli K-12. Science. 277:1997;1453-1462.
-
(1997)
Science
, vol.277
, pp. 1453-1462
-
-
Blattner, F.R.1
Plunkett G. III2
Bloch, C.A.3
-
9
-
-
0000241874
-
GeneMark: Parallel gene recognition for both DNA strands
-
Borodovsky M., McIninch J. GeneMark: parallel gene recognition for both DNA strands. Comput. Chem. 17:1993;123-133.
-
(1993)
Comput. Chem.
, vol.17
, pp. 123-133
-
-
Borodovsky, M.1
McIninch, J.2
-
10
-
-
16044367245
-
Complete genome sequence of the methanogenic archeon, Methanococcus jannaschii
-
Bult C., et al. Complete genome sequence of the methanogenic archeon, Methanococcus jannaschii. Science. 273:1996;1058-1073.
-
(1996)
Science
, vol.273
, pp. 1058-1073
-
-
Bult, C.1
-
12
-
-
0025166089
-
Secondary structure of the ribosome binding site determines translational efficiency: A quantitative analysis
-
de Smit M.H., van Duin J. Secondary structure of the ribosome binding site determines translational efficiency: a quantitative analysis. Proc. Natl. Acad. Sci. USA. 87:1990;7668-7672.
-
(1990)
Proc. Natl. Acad. Sci. USA
, vol.87
, pp. 7668-7672
-
-
De Smit, M.H.1
Van Duin, J.2
-
13
-
-
0001322945
-
Translation initiation
-
F.C. Neidhardt. Escherichia coli and Salmonella. Washington, DC: ASM Press. (Chapter 59)
-
Draper D.E. Translation initiation. Neidhardt F.C. Escherichia coli and Salmonella. Cellular and Molecular Biology. vol. 1:1996;902-908 ASM Press, Washington, DC. (Chapter 59).
-
(1996)
Cellular and Molecular Biology
, vol.1
, pp. 902-908
-
-
Draper, D.E.1
-
14
-
-
0029967362
-
SRS: Information retrieval system for molecular biology data banks
-
Etzold T., Ulyanov A., Argos P. SRS: information retrieval system for molecular biology data banks. Methods Enzymol. 266:1996;114-128.
-
(1996)
Methods Enzymol.
, vol.266
, pp. 114-128
-
-
Etzold, T.1
Ulyanov, A.2
Argos, P.3
-
15
-
-
0003437299
-
-
Distributed by the author. Department of Genetics, University of Washington, Seattle
-
Felsenstein, J., 1993. PHYLIP (Phylogeny Inference Package) version 3.5c. Distributed by the author. Department of Genetics, University of Washington, Seattle.
-
(1993)
PHYLIP (Phylogeny Inference Package) Version 3.5c
-
-
Felsenstein, J.1
-
16
-
-
0032526322
-
Combining diverse evidence for gene recognition in completely sequenced bacterial genomes
-
Frishman D., Mironov A., Mewes H.W., Gelfand M. Combining diverse evidence for gene recognition in completely sequenced bacterial genomes. Nucleic Acids Res. 26:1998;2941-2947.
-
(1998)
Nucleic Acids Res.
, vol.26
, pp. 2941-2947
-
-
Frishman, D.1
Mironov, A.2
Mewes, H.W.3
Gelfand, M.4
-
17
-
-
0003648101
-
-
Genetics Computer Group, August 1994, 575 Science Drive, Madison, WI 53711, USA
-
Genetics Computer Group, 1994. Program Manual for the Wisconsin Package, Version 8, August 1994, 575 Science Drive, Madison, WI 53711, USA.
-
(1994)
Program Manual for the Wisconsin Package, Version 8
-
-
-
19
-
-
0031616151
-
Deriving ribosomal binding sites (RBS) statistical models from unannotated DNA sequence and the use of the RBS model for N-terminal prediction
-
R.B. Altman, A.K. Dunker, L. Hunter, & T.E. Klein. Singapore: World Scientific
-
Hayes W.S., Borodovsky M. Deriving ribosomal binding sites (RBS) statistical models from unannotated DNA sequence and the use of the RBS model for N-terminal prediction. Altman R.B., Dunker A.K., Hunter L., Klein T.E. Pacific Symposium on Bioinformatics '98. 1998;279-290 World Scientific, Singapore.
-
(1998)
Pacific Symposium on Bioinformatics '98
, pp. 279-290
-
-
Hayes, W.S.1
Borodovsky, M.2
-
20
-
-
0031591522
-
Prediction of translation initiation sites on the genome of Synechocystis sp. strain PCC6803 by Hidden Markov model
-
Hirosawa M., Sazuka T., Yada T. Prediction of translation initiation sites on the genome of Synechocystis sp. strain PCC6803 by Hidden Markov model. DNA Res. 4:1997;179-184.
-
(1997)
DNA Res.
, vol.4
, pp. 179-184
-
-
Hirosawa, M.1
Sazuka, T.2
Yada, T.3
-
21
-
-
0032579989
-
Complete sequence and gene organization of the genome of a hyper-thermophilic archaebacterium, Pyrococcus horikoshii OT3
-
Kawarabayasi Y., Sawada M., Horikawa H., Haikawa Y., Hino Y., Yamamoto S., Sekine M., Baba S., Kosugi H., Hosoyama A., Nagai Y., Sakai M., Ogura K., Otsuka R., Nakazawa H., Takamiya M., Ohfuku Y., Funahashi T., Tanaka T., Kudoh Y., Yamazaki J., Kushida N., Oguchi A., Aoki K., Kikuchi H. Complete sequence and gene organization of the genome of a hyper-thermophilic archaebacterium, Pyrococcus horikoshii OT3. DNA Res. 5:1998;55-76.
-
(1998)
DNA Res.
, vol.5
, pp. 55-76
-
-
Kawarabayasi, Y.1
Sawada, M.2
Horikawa, H.3
Haikawa, Y.4
Hino, Y.5
Yamamoto, S.6
Sekine, M.7
Baba, S.8
Kosugi, H.9
Hosoyama, A.10
Nagai, Y.11
Sakai, M.12
Ogura, K.13
Otsuka, R.14
Nakazawa, H.15
Takamiya, M.16
Ohfuku, Y.17
Funahashi, T.18
Tanaka, T.19
Kudoh, Y.20
Yamazaki, J.21
Kushida, N.22
Oguchi, A.23
Aoki, K.24
Kikuchi, H.25
more..
-
22
-
-
0000847987
-
Regulation of ribosome synthesis
-
F.C. Neidhardt. Escherichia coli and Salmonella. Washington, DC: ASM Press. (Chapter 90)
-
Keener J., Nomura M. Regulation of ribosome synthesis. Neidhardt F.C. Escherichia coli and Salmonella. Cellular and Molecular Biology. vol. 1:1996;1417-1431 ASM Press, Washington, DC. (Chapter 90).
-
(1996)
Cellular and Molecular Biology
, vol.1
, pp. 1417-1431
-
-
Keener, J.1
Nomura, M.2
-
23
-
-
0027944605
-
A hidden Markov model that finds genes in E.coli DNA
-
Krogh A., Mian I.S., Haussler D. A hidden Markov model that finds genes in E.coli DNA. Nucleic Acids Res. 22:1994;4768-4778.
-
(1994)
Nucleic Acids Res.
, vol.22
, pp. 4768-4778
-
-
Krogh, A.1
Mian, I.S.2
Haussler, D.3
-
24
-
-
0023046899
-
Secondary structure as primary determinant of the efficiency of ribosomal binding sites in Escherichia coli
-
Looman A.C., Bodlaender J., de Gruyter M., Vogelaar A., van Knippenberg P.H. Secondary structure as primary determinant of the efficiency of ribosomal binding sites in Escherichia coli. Nucleic Acids Res. 14:1986;5481-5497.
-
(1986)
Nucleic Acids Res.
, vol.14
, pp. 5481-5497
-
-
Looman, A.C.1
Bodlaender, J.2
De Gruyter, M.3
Vogelaar, A.4
Van Knippenberg, P.H.5
-
25
-
-
0030819820
-
The RDP (Ribosomal Database Project)
-
Maidak B.L., Olsen G.J., Larsen N., Overbeek R., McCaughey M.J., Woese C.R. The RDP (Ribosomal Database Project). Nucleic Acids Res. 25:1997;109-111.
-
(1997)
Nucleic Acids Res.
, vol.25
, pp. 109-111
-
-
Maidak, B.L.1
Olsen, G.J.2
Larsen, N.3
Overbeek, R.4
McCaughey, M.J.5
Woese, C.R.6
-
26
-
-
22444453883
-
Computer analysis of regulatory patterns in complete bacterial genomes. Ribosome binding sites
-
in press
-
Mironov A.A., Frishman D., Gelfand M.S. Computer analysis of regulatory patterns in complete bacterial genomes. Ribosome binding sites. Mol. Biol. 1998;. in press.
-
(1998)
Mol. Biol.
-
-
Mironov, A.A.1
Frishman, D.2
Gelfand, M.S.3
-
28
-
-
0030608185
-
Sequence features surrounding the translation initiation sites assigned on the genome sequence of Synechocystis sp. strain PCC6803 by amino terminal protein sequencing
-
Sazuka T., Ohara O. Sequence features surrounding the translation initiation sites assigned on the genome sequence of Synechocystis sp. strain PCC6803 by amino terminal protein sequencing. DNA Res. 3:1996;225-232.
-
(1996)
DNA Res.
, vol.3
, pp. 225-232
-
-
Sazuka, T.1
Ohara, O.2
-
29
-
-
0027321823
-
Identification and characterization of E.coli ribosomal binding sites by free energy computation
-
Schurr T., Nadir E., Margalit H. Identification and characterization of E.coli ribosomal binding sites by free energy computation. Nucleic Acids Res. 21:1993;4019-4023.
-
(1993)
Nucleic Acids Res.
, vol.21
, pp. 4019-4023
-
-
Schurr, T.1
Nadir, E.2
Margalit, H.3
-
30
-
-
0016154301
-
Correlation between the 3′-terminal-polypirimidine sequence of 16S RNA and translational specificity of the ribosome
-
Shine J., Dalgarno L. Correlation between the 3′-terminal-polypirimidine sequence of 16S RNA and translational specificity of the ribosome. Proc. Natl. Acad. Sci. USA. 71:1974;1342-1346.
-
(1974)
Proc. Natl. Acad. Sci. USA
, vol.71
, pp. 1342-1346
-
-
Shine, J.1
Dalgarno, L.2
-
31
-
-
15644383855
-
Complete genome sequence of Methanobacterium thermoautotrophicum Δh: Functional analysis and comparative genomics
-
Smith D.R., et al. Complete genome sequence of Methanobacterium thermoautotrophicum ΔH: functional analysis and comparative genomics. J. Bacteriol. 179:1997;7135-7155.
-
(1997)
J. Bacteriol.
, vol.179
, pp. 7135-7155
-
-
Smith, D.R.1
-
32
-
-
0020480251
-
The use of the "perceptron" algorithm to distinguish translational initiation sites in E. coli
-
Stormo G.D., Schenider T.D., Gold L., Ehrenfeucht A. The use of the "Perceptron" algorithm to distinguish translational initiation sites in E. coli. Nucleic Acids Res. 10:1982;2997-3011.
-
(1982)
Nucleic Acids Res.
, vol.10
, pp. 2997-3011
-
-
Stormo, G.D.1
Schenider, T.D.2
Gold, L.3
Ehrenfeucht, A.4
-
33
-
-
0022978611
-
Quantitative computer analysis of signal sequence homologies
-
Studnicka G.M. Quantitative computer analysis of signal sequence homologies. Comput. Appl. Biosci. 2:1986;269-275.
-
(1986)
Comput. Appl. Biosci.
, vol.2
, pp. 269-275
-
-
Studnicka, G.M.1
-
34
-
-
0030835739
-
The complete genome sequence of the gastric pathogen Helicobacter pylori
-
Tomb J.-F, White O., Kerlavage A.R., et al. The complete genome sequence of the gastric pathogen Helicobacter pylori. Nature. 388:1997;539-547.
-
(1997)
Nature
, vol.388
, pp. 539-547
-
-
Tomb, J.-F.1
White, O.2
Kerlavage, A.R.3
-
35
-
-
0001837166
-
Translation and its regulation
-
A.L. Sonenstein, J.A. Hoch, & R. Losik. Washington, DC: American Society for Microbiology. (Chapter 48)
-
Vellanoweth R.L. Translation and its regulation. Sonenstein A.L., Hoch J.A., Losik R. Bacillus subtilis and other Gram-Positive Bacteria. 1993;American Society for Microbiology, Washington, DC. (Chapter 48).
-
(1993)
Bacillus Subtilis and Other Gram-Positive Bacteria
-
-
Vellanoweth, R.L.1
-
36
-
-
0021511573
-
Analysis of the distribution of charged residues in the N-terminal region of signal sequences: Implication for protein export in prokaryotic and eukaryotic cells
-
von Heijne G. Analysis of the distribution of charged residues in the N-terminal region of signal sequences: implication for protein export in prokaryotic and eukaryotic cells. EMBO J. 3:1984;2315-2318.
-
(1984)
EMBO J.
, vol.3
, pp. 2315-2318
-
-
Von Heijne, G.1
-
37
-
-
0031936279
-
Identification of Campylobacter jejuni promoter sequences
-
Wösten M.M., Boeve M., Koot M.G., van Nuene A.C., van der Zeijst B.A. Identification of Campylobacter jejuni promoter sequences. J. Bacteriol. 180:1998;594-599.
-
(1998)
J. Bacteriol.
, vol.180
, pp. 594-599
-
-
Wösten, M.M.1
Boeve, M.2
Koot, M.G.3
Van Nuene, A.C.4
Van Der Zeijst, B.A.5
-
38
-
-
0031588554
-
Analysis of sequence patterns surrounding the translation initiation sites in Cyanobacterium genome using the hidden Markov model
-
Yada T., Sazuka T., Hirosawa M. Analysis of sequence patterns surrounding the translation initiation sites in Cyanobacterium genome using the hidden Markov model. DNA Res. 4:1997;1-7.
-
(1997)
DNA Res.
, vol.4
, pp. 1-7
-
-
Yada, T.1
Sazuka, T.2
Hirosawa, M.3
|