-
1
-
-
0033607003
-
Placement of protein and rna structures into a 5 angstrom resolution map of the 50s ribosomal subunit
-
Ban, N.; Nissen, P.; Hansen, J.; Capel, M.; Moore, P.; and Steitz, T. 1999. Placement of protein and rna structures into a 5 angstrom resolution map of the 50s ribosomal subunit. Nature 400:841-847.
-
(1999)
Nature
, vol.400
, pp. 841-847
-
-
Ban, N.1
Nissen, P.2
Hansen, J.3
Capel, M.4
Moore, P.5
Steitz, T.6
-
2
-
-
0030310297
-
Rna pseudoknot modeling using intersections of stochastic context free grammars with applications to database search
-
Hunter, L., and Klein, T., eds
-
Brown, M. P. S., and Wilson, C. 1995. Rna pseudoknot modeling using intersections of stochastic context free grammars with applications to database search. In Hunter, L., and Klein, T., eds., Pacific Symposium on Biocomputing, 109-125.
-
(1995)
Pacific Symposium on Biocomputing
, pp. 109-125
-
-
Brown, M. P. S.1
Wilson, C.2
-
4
-
-
0032881809
-
X-ray crystal structures of 70s ribosome functional complexes
-
Cate, J.; Yusupov, M. M.; Yusupova, G. Z.; Earnest, T. N.; and Noller, H. F. 1999. X-ray crystal structures of 70s ribosome functional complexes. Science 285 (5436) :2095-2104.
-
(1999)
Science
, vol.285
, Issue.5436
, pp. 2095-2104
-
-
Cate, J.1
Yusupov, M. M.2
Yusupova, G. Z.3
Earnest, T. N.4
Noller, H. F.5
-
5
-
-
0026748179
-
A procedure for rna pseudoknot prediction
-
Chen, J.-H.; Le, S.-Y.; and Maizel, J. V. 1992. A procedure for rna pseudoknot prediction. CABIOS 8:243-248.
-
(1992)
CABIOS
, vol.8
, pp. 243-248
-
-
Chen, J.-H.1
Le, S.-Y.2
Maizel, J. V.3
-
6
-
-
0344809971
-
Structure of a bacterial 30s ribosomal subunit at 5.5 Angstom resolution
-
Clemons Jr., W.; May, J.; Wimberyly, B.; Mc-Cutcheon, J.; Capel, M.; and Ramakrishnan, V. 1999. Structure of a bacterial 30s ribosomal subunit at 5.5 Angstom resolution. Nature 400:833-840.
-
(1999)
Nature
, vol.400
, pp. 833-840
-
-
Clemons, W.1
May, J.2
Wimberyly, B.3
Mc-Cutcheon, J.4
Capel, M.5
Ramakrishnan, V.6
-
7
-
-
0030862608
-
The antwerp ribosomal rna database
-
de Peer, Y. V.; Jansen, J.; Rijk, P. D.; and Wachter, R. D. 1997. The antwerp ribosomal rna database. NAR 25:111-116.
-
(1997)
NAR
, vol.25
, pp. 111-116
-
-
de Peer, Y. V.1
Jansen, J.2
Rijk, P. D.3
Wachter, R. D.4
-
8
-
-
0033603539
-
Phylogenetic classification and the universal tree
-
Doolittle, W. 1999. Phylogenetic classification and the universal tree. Science 284:2124-2128.
-
(1999)
Science
, vol.284
, pp. 2124-2128
-
-
Doolittle, W.1
-
10
-
-
0028272315
-
RNA sequence analysis using covariance models
-
Eddy, S. R., and Durbin, R. 1994. RNA sequence analysis using covariance models. NAR 22:2079-2088.
-
(1994)
NAR
, vol.22
, pp. 2079-2088
-
-
Eddy, S. R.1
Durbin, R.2
-
11
-
-
0019797407
-
Evolutionary trees from dna sequences
-
Felsenstein, J. 1981. Evolutionary trees from dna sequences. Journal of Molecular Evolution 17:368-376.
-
(1981)
Journal of Molecular Evolution
, vol.17
, pp. 368-376
-
-
Felsenstein, J.1
-
12
-
-
0023084055
-
Progressive sequence alignment as a prerequisite to correct phylogenetic trees
-
Feng, D. F., and Doolittle, R. F. 1987. Progressive sequence alignment as a prerequisite to correct phylogenetic trees. Journal of Molecular Evolution 25:351-360.
-
(1987)
Journal of Molecular Evolution
, vol.25
, pp. 351-360
-
-
Feng, D. F.1
Doolittle, R. F.2
-
13
-
-
0029825658
-
Structure of the a site of escherichia coli 16s ribosomal ma complexed with an aminoglycoside antibiotic
-
Fourmy, D.; Recht, M. I.; Blanchard, S. C.; and Puglisi, J. D. 1996. Structure of the a site of escherichia coli 16s ribosomal ma complexed with an aminoglycoside antibiotic. Science 274 (5291) :1367-1371.
-
(1996)
Science
, vol.274
, Issue.5291
, pp. 1367-1371
-
-
Fourmy, D.1
Recht, M. I.2
Blanchard, S. C.3
Puglisi, J. D.4
-
14
-
-
0030629295
-
Finding common sequence and structure motifs in a set of rna sequences
-
Gorodkin, J.; Heyer, J.; and Stormo, G. 1997. Finding common sequence and structure motifs in a set of rna sequences. In Proceedings of ISMB-97.
-
(1997)
Proceedings of ISMB-97
-
-
Gorodkin, J.1
Heyer, J.2
Stormo, G.3
-
15
-
-
0033525788
-
Mitochondrial evolution
-
Gray, M.; Burger, G.; and Lang, B. 1999. Mitochondrial evolution. Science 283:1476-1481.
-
(1999)
Science
, vol.283
, pp. 1476-1481
-
-
Gray, M.1
Burger, G.2
Lang, B.3
-
17
-
-
0026466830
-
Identifying constraints on the higher-order structure of RNA: continued development and application of comparative sequence analysis methods
-
Gutell, R. R.; Power, A.; Hertz, G. Z.; Putz, E. J.; and Stormo, G. D. 1992. Identifying constraints on the higher-order structure of RNA: continued development and application of comparative sequence analysis methods. NAR 20:5785-5795.
-
(1992)
NAR
, vol.20
, pp. 5785-5795
-
-
Gutell, R. R.1
Power, A.2
Hertz, G. Z.3
Putz, E. J.4
Stormo, G. D.5
-
19
-
-
85165228177
-
Comparitive analysis of rna
-
Gestel, and Atkins., eds., Addison-Wesley
-
Gutell. 1993. Comparitive analysis of rna. In Gestel, and Atkins., eds., The RNA World. Addison-Wesley.
-
(1993)
The RNA World
-
-
Gutell1
-
20
-
-
0029887381
-
Hidden Markov models for sequence analysis: Extension and analysis of the basic method
-
Information on obtaining SAM is
-
Hughey, R., and Krogh, A. 1996. Hidden Markov models for sequence analysis: Extension and analysis of the basic method. CABIOS 12 (2) :95-107. Information on obtaining SAM is available at http://www.cBe.ucsc.edu/research/compbio/sam.html.
-
(1996)
CABIOS
, vol.12
, Issue.2
, pp. 95-107
-
-
Hughey, R.1
Krogh, A.2
-
21
-
-
0032796501
-
Rna secondary structure prediction using stochastic context-free grammars and evolutionary history
-
Knudsen, B., and Hein, J. 1999. Rna secondary structure prediction using stochastic context-free grammars and evolutionary history. bioinformatics 15 (6) :446-454.
-
(1999)
bioinformatics
, vol.15
, Issue.6
, pp. 446-454
-
-
Knudsen, B.1
Hein, J.2
-
22
-
-
0029348884
-
A comparison of thermodynamic foldings with comparatively derived structures of 16s and 16s-like rrnas
-
Konings, D. A. M., and Gutell, R. R. 1995. A comparison of thermodynamic foldings with comparatively derived structures of 16s and 16s-like rrnas. RNA 1:559-574.
-
(1995)
RNA
, vol.1
, pp. 559-574
-
-
Konings, D. A. M.1
Gutell, R. R.2
-
23
-
-
0030854739
-
trnascan-se: a program for improved detection of transfer rna genes in genomic sequence
-
Lowe, T., and Eddy, S. 1997. trnascan-se: a program for improved detection of transfer rna genes in genomic sequence. NAR 25:955-964.
-
(1997)
NAR
, vol.25
, pp. 955-964
-
-
Lowe, T.1
Eddy, S.2
-
24
-
-
85165226076
-
The ribosomal data project (rdp)
-
Maidak, B.; Olsen, G.; Larsen, N.; Overbeek, R.; Mc-Caughey, M.; and Woese, C. 1997. The ribosomal data project (rdp). NAR 25:443-453.
-
(1997)
NAR
, vol.25
, pp. 443-453
-
-
Maidak, B.1
Olsen, G.2
Larsen, N.3
Overbeek, R.4
Mc-Caughey, M.5
Woese, C.6
-
25
-
-
0033591465
-
Expanded sequence dependence of thermodynamic parameters provides robust prediction of rna secondary structure
-
Mathews, D.; Sabina, J.; Zuker, M.; and Turner, D. 1999. Expanded sequence dependence of thermodynamic parameters provides robust prediction of rna secondary structure. 3MB 288:911-940.
-
(1999)
3MB
, vol.288
, pp. 911-940
-
-
Mathews, D.1
Sabina, J.2
Zuker, M.3
Turner, D.4
-
26
-
-
0030934592
-
Effects of nucleotide sequence alignment of phylogeny estimation
-
Morrison, D., and Ellis, J. 1997. Effects of nucleotide sequence alignment of phylogeny estimation. Mol. Biol. Evol. 14 (4) :428-441.
-
(1997)
Mol. Biol. Evol
, vol.14
, Issue.4
, pp. 428-441
-
-
Morrison, D.1
Ellis, J.2
-
27
-
-
0031857097
-
Optimization of ribosomal rna profile alignments
-
O'Brien, E.; Notredame, C.; and Higgins, D. 1998. Optimization of ribosomal rna profile alignments. Bioinformatics 14 (4) :332-341.
-
(1998)
Bioinformatics
, vol.14
, Issue.4
, pp. 332-341
-
-
O'Brien, E.1
Notredame, C.2
Higgins, D.3
-
28
-
-
0027505613
-
Ribosmal rna: a key to phylogeny
-
Olsen, G., and Woese, C. 1993. Ribosmal rna: a key to phylogeny. FASEB 7:113-123.
-
(1993)
FASEB
, vol.7
, pp. 113-123
-
-
Olsen, G.1
Woese, C.2
-
29
-
-
0030982247
-
A molecular view of microbial diversity and the biosphere
-
Pace, N. 1997. A molecular view of microbial diversity and the biosphere. Science 276:734-740.
-
(1997)
Science
, vol.276
, pp. 734-740
-
-
Pace, N.1
-
30
-
-
0031957964
-
Diverse and related 16s rrna-encoding dna sequences in prostate tissues of men with chronic prostatitis
-
Riley, D.; Berger, R.; Miner, D.; and Krieger, J. 1998. Diverse and related 16s rrna-encoding dna sequences in prostate tissues of men with chronic prostatitis. JOURNAL OF CLINICAL MICROBIOL-OGY 36 (6) :1646-1652.
-
(1998)
JOURNAL OF CLINICAL MICROBIOL-OGY
, vol.36
, Issue.6
, pp. 1646-1652
-
-
Riley, D.1
Berger, R.2
Miner, D.3
Krieger, J.4
-
31
-
-
0033524952
-
A dynamic programming algorithm for rna structure prediction including pseudoknots
-
Rivas, E., and Eddy, S. R. 1999. A dynamic programming algorithm for rna structure prediction including pseudoknots. JMB 285 (5) :2053-2068.
-
(1999)
JMB
, vol.285
, Issue.5
, pp. 2053-2068
-
-
Rivas, E.1
Eddy, S. R.2
-
32
-
-
0028593508
-
Stochastic context-free grammars for tRNA modeling
-
Sakakibara, Y.; Brown, M.; Hughey, R.; Mian, I. S.; Sjolander, K.; Underwood, R. C.; and Haussler, D. 1994. Stochastic context-free grammars for tRNA modeling. NAR 22:5112-5120.
-
(1994)
NAR
, vol.22
, pp. 5112-5120
-
-
Sakakibara, Y.1
Brown, M.2
Hughey, R.3
Mian, I. S.4
Sjolander, K.5
Underwood, R. C.6
Haussler, D.7
-
33
-
-
0027968068
-
CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties, and weight matrix choice
-
Thompson, J. D.; Higgins, D. G.; and Gibson, T. J. 1994. CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties, and weight matrix choice. NAR 22 (22) :4673-4680.
-
(1994)
NAR
, vol.22
, Issue.22
, pp. 4673-4680
-
-
Thompson, J. D.1
Higgins, D. G.2
Gibson, T. J.3
-
34
-
-
0004246255
-
-
Benjamin/Cummings
-
Watson, J.; Hopkins, N.; Roberts, J.; Steitz, J.; and Weiner, A. 1987. Molecular Biology of the Gene. Benjamin/Cummings.
-
(1987)
Molecular Biology of the Gene
-
-
Watson, J.1
Hopkins, N.2
Roberts, J.3
Steitz, J.4
Weiner, A.5
-
35
-
-
0001271789
-
Phylogenetic structure of the prokaryotic domain
-
Woese, C., and Fox, G. 1977. Phylogenetic structure of the prokaryotic domain. PNAS 74:5088-5090.
-
(1977)
PNAS
, vol.74
, pp. 5088-5090
-
-
Woese, C.1
Fox, G.2
-
36
-
-
0343007324
-
Evidence for several higher order structural elements in ribosomal rna
-
Woese, C., and Gutell, R. 1989. Evidence for several higher order structural elements in ribosomal rna. PNAS 86:3119-3122.
-
(1989)
PNAS
, vol.86
, pp. 3119-3122
-
-
Woese, C.1
Gutell, R.2
-
37
-
-
0021012648
-
Detailed analysis of the higher-order structure of 16S-like ribosomal ribonucleic acids
-
Woese, C R.; Gutell, R. R.; Gupta, R.; and Noller, H. F. 1983. Detailed analysis of the higher-order structure of 16S-like ribosomal ribonucleic acids. Microbiology Reviews 47 (4) :621-669.
-
(1983)
Microbiology Reviews
, vol.47
, Issue.4
, pp. 621-669
-
-
Woese, C R.1
Gutell, R. R.2
Gupta, R.3
Noller, H. F.4
-
38
-
-
0025300402
-
Towards a natural system of organisms
-
Woese, C.; Kandler, O.; and Wheelis, M. 1990. Towards a natural system of organisms. PNAS 87:4576-4579.
-
(1990)
PNAS
, vol.87
, pp. 4576-4579
-
-
Woese, C.1
Kandler, O.2
Wheelis, M.3
-
39
-
-
0023184331
-
Bacterial evolution
-
Woese, C. 1987. Bacterial evolution. Microbiological Reviews 51 (2) :221-271.
-
(1987)
Microbiological Reviews
, vol.51
, Issue.2
, pp. 221-271
-
-
Woese, C.1
-
40
-
-
0028880897
-
Revised dinoflagellate phylogeny inferred from molecular analysis of large subunit ribosomal rna gene sequences
-
Zardoya, R.; Costas, E.; Lopex-Rodas, V.; Garrido-Pertierra, A.; and Bautista, J. 1995. Revised dinoflagellate phylogeny inferred from molecular analysis of large subunit ribosomal rna gene sequences. Journal of Molecular Evolution 41:637-645.
-
(1995)
Journal of Molecular Evolution
, vol.41
, pp. 637-645
-
-
Zardoya, R.1
Costas, E.2
Lopex-Rodas, V.3
Garrido-Pertierra, A.4
Bautista, J.5
-
41
-
-
0002287019
-
Algorithms and thermodynamics for rna secondary structure prediction
-
Barciszewski, J., and Clark, B., eds., Kluwer
-
Zuker, M.; Mathews, D.; and Turner, D. 1999. Algorithms and thermodynamics for rna secondary structure prediction. In Barciszewski, J., and Clark, B., eds., RNA Biochemistry and Biotechnology. Kluwer.
-
(1999)
RNA Biochemistry and Biotechnology
-
-
Zuker, M.1
Mathews, D.2
Turner, D.3
|