-
1
-
-
0035972861
-
Introns resolve the conflict between base order-dependent stem-loop potential and the encoding of RNA or protein: Further evidence from overlapping genes
-
Barrette IH, McKenna S, Taylor DR, Forsdyke DR (2001) Introns resolve the conflict between base order-dependent stem-loop potential and the encoding of RNA or protein: further evidence from overlapping genes. Gene 270:181-189
-
(2001)
Gene
, vol.270
, pp. 181-189
-
-
Barrette, I.H.1
McKenna, S.2
Taylor, D.R.3
Forsdyke, D.R.4
-
3
-
-
0033531431
-
Deviations from Chargaff's second parity rule correlate with direction of transcription
-
Bell SJ, Forsdyke DR (1999b) Deviations from Chargaff's second parity rule correlate with direction of transcription. J Theor Biol 197:63-76
-
(1999)
J Theor Biol
, vol.197
, pp. 63-76
-
-
Bell, S.J.1
Forsdyke, D.R.2
-
4
-
-
0033991967
-
Isochores and the evolutionary genomics of vertebrates
-
Bernardi G (2000) Isochores and the evolutionary genomics of vertebrates. Gene 241:3-17
-
(2000)
Gene
, vol.241
, pp. 3-17
-
-
Bernardi, G.1
-
5
-
-
0022914759
-
Compositional constraints and genome evolution
-
Bernardi G, Bernardi G (1986) Compositional constraints and genome evolution. J Mol Evol 24:1-11
-
(1986)
J Mol Evol
, vol.24
, pp. 1-11
-
-
Bernardi, G.1
Bernardi, G.2
-
6
-
-
0034693042
-
Structural and genomic correlates of hyperthermostability
-
Cambillau C, Claverie J-M (2000) Structural and genomic correlates of hyperthermostability. J Biol Chem 275:32383-32386
-
(2000)
J Biol Chem
, vol.275
, pp. 32383-32386
-
-
Cambillau, C.1
Claverie, J.-M.2
-
7
-
-
0003302268
-
Statistical mechanics and kinetics of nucleic acid interactions
-
Freeman, San Francisco
-
Cantor CR, Schimmel PR (1980) Statistical mechanics and kinetics of nucleic acid interactions. In: Biophysical chemistry. Freeman, San Francisco, pp 1183-1264
-
(1980)
Biophysical Chemistry
, pp. 1183-1264
-
-
Cantor, C.R.1
Schimmel, P.R.2
-
8
-
-
0035925033
-
Double-stranded RNA as a not-self alarm signal: To evade, most viruses purine-load their RNAs, but some (HTLV-1, EBV) pyrimidine-load
-
Cristillo AD, Mortimer JR, Barrette IH, Lillicrap TP, Forsdyke DR (2001) Double-stranded RNA as a not-self alarm signal: to evade, most viruses purine-load their RNAs, but some (HTLV-1, EBV) pyrimidine-load. J Theor Biol 208:475-491
-
(2001)
J Theor Biol
, vol.208
, pp. 475-491
-
-
Cristillo, A.D.1
Mortimer, J.R.2
Barrette, I.H.3
Lillicrap, T.P.4
Forsdyke, D.R.5
-
9
-
-
77956844355
-
Archaeal hyperthermophile genes
-
Kates M, Kushner DJ, Matheson AT (eds) Elsevier, Amsterdam
-
Dalgaard JZ, Garrett A (1993) Archaeal hyperthermophile genes. In: Kates M, Kushner DJ, Matheson AT (eds) The biochemistry of Archaea (Archaebacteria), Elsevier, Amsterdam, pp 535-562
-
(1993)
The Biochemistry of Archaea (Archaebacteria)
, pp. 535-562
-
-
Dalgaard, J.Z.1
Garrett, A.2
-
10
-
-
0032857714
-
The correlation of protein hydropathy with the base composition of coding sequences
-
D'Onofrio G, Jabbari K, Musto H, Bernardi G (1999) The correlation of protein hydropathy with the base composition of coding sequences. Gene 238:3-14
-
(1999)
Gene
, vol.238
, pp. 3-14
-
-
D'Onofrio, G.1
Jabbari, K.2
Musto, H.3
Bernardi, G.4
-
11
-
-
0017864801
-
The hypercycle. A principle of natural self-organization, part C. The realistic hypercycle
-
Eigen M, Schuster P (1978) The hypercycle. A principle of natural self-organization, part C. The realistic hypercycle. Naturwissenschaften 65:341-369
-
(1978)
Naturwissenschaften
, vol.65
, pp. 341-369
-
-
Eigen, M.1
Schuster, P.2
-
12
-
-
0000981224
-
Entropy-driven protein self-aggregation as the basis for self/not-self discrimination in the crowded cytosol
-
Forsdyke DR (1995) Entropy-driven protein self-aggregation as the basis for self/not-self discrimination in the crowded cytosol. J Biol Sys 3:273-287
-
(1995)
J Biol Sys
, vol.3
, pp. 273-287
-
-
Forsdyke, D.R.1
-
13
-
-
0029918528
-
Different biological species "broadcast" their DNAs at different (C + G)% "wavelengths"
-
Forsdyke DR (1996) Different biological species "broadcast" their DNAs at different (C + G)% "wavelengths". J Theor Biol 178:405-417
-
(1996)
J Theor Biol
, vol.178
, pp. 405-417
-
-
Forsdyke, D.R.1
-
14
-
-
0032555046
-
An alternative way of thinking about stem-loops in DNA. A case study of the G0S2 gene
-
Forsdyke DR (1998) An alternative way of thinking about stem-loops in DNA. A case study of the G0S2 gene. J Theor Biol 192:489-504
-
(1998)
J Theor Biol
, vol.192
, pp. 489-504
-
-
Forsdyke, D.R.1
-
15
-
-
0033533934
-
Two levels of information in DNA. Relationship of Romanes' "intrinsic" variability of the reproductive system, and Bateson's "residue", to the species-dependent component of the base composition, (C + G)%
-
Forsdyke DR (1999) Two levels of information in DNA. Relationship of Romanes' "intrinsic" variability of the reproductive system, and Bateson's "residue", to the species-dependent component of the base composition, (C + G)%. J Theor Biol 201: 47-61
-
(1999)
J Theor Biol
, vol.201
, pp. 47-61
-
-
Forsdyke, D.R.1
-
17
-
-
0001474770
-
Functional constraint and molecular evolution
-
Nature Publishing, London
-
Forsdyke DR (2001b) Functional constraint and molecular evolution. In: Nature encyclopedia of life sciences, vol 7. Nature Publishing, London, pp 396-403
-
(2001)
Nature Encyclopedia of Life Sciences
, vol.7
, pp. 396-403
-
-
Forsdyke, D.R.1
-
18
-
-
0036166794
-
Symmetry observations in long nucleotide sequences
-
Forsdyke DR (2002a) Symmetry observations in long nucleotide sequences. Bioinformatics 18:215-217
-
(2002)
Bioinformatics
, vol.18
, pp. 215-217
-
-
Forsdyke, D.R.1
-
19
-
-
0036746005
-
Selective pressures that decrease synonymous mutations in Plasmodium falciparum
-
Forsdyke DR (2002b) Selective pressures that decrease synonymous mutations in Plasmodium falciparum. Trends Parasitol 18:411-418
-
(2002)
Trends Parasitol
, vol.18
, pp. 411-418
-
-
Forsdyke, D.R.1
-
21
-
-
0342951832
-
Chromosome structure, DNA topoisomerases, and DNA polymerases in Archaebacteria (Archaea)
-
Kates M, Kushner DJ, Matheson AT (eds). Elsevier, Amsterdam
-
Forterre P, Elie C (1993) Chromosome structure, DNA topoisomerases, and DNA polymerases in Archaebacteria (Archaea). In: Kates M, Kushner DJ, Matheson AT (eds) The biochemistry of Archaea (Archaebacteria). Elsevier, Amsterdam, pp 325-345
-
(1993)
The Biochemistry of Archaea (Archaebacteria)
, pp. 325-345
-
-
Forterre, P.1
Elie, C.2
-
22
-
-
0035876479
-
Protein surface amino acid compositions distinctively differ between thermophilic and mesophilic bacteria
-
Fukuchi S, Nishikawa K (2001) Protein surface amino acid compositions distinctively differ between thermophilic and mesophilic bacteria. J Mol Biol 309:835-843
-
(2001)
J Mol Biol
, vol.309
, pp. 835-843
-
-
Fukuchi, S.1
Nishikawa, K.2
-
23
-
-
0030900384
-
Relationships between genomic G + C content, RNA secondary structures, and optimal growth temperature in prokaryotes
-
Galtier N, Lobry JR (1997) Relationships between genomic G + C content, RNA secondary structures, and optimal growth temperature in prokaryotes. J Mol Evol 44:632-636
-
(1997)
J Mol Evol
, vol.44
, pp. 632-636
-
-
Galtier, N.1
Lobry, J.R.2
-
24
-
-
79958819106
-
Workings of the genetic code
-
Grantham R (1980) Workings of the genetic code. Trends Biochem Sci 5:327-331
-
(1980)
Trends Biochem Sci
, vol.5
, pp. 327-331
-
-
Grantham, R.1
-
25
-
-
0035902820
-
High affinity DNA binding of HU protein from the hyperthermophile Thermotoga maritime
-
Grove A, Lim L (2001) High affinity DNA binding of HU protein from the hyperthermophile Thermotoga maritime. J Mol Biol 311:491-502
-
(2001)
J Mol Biol
, vol.311
, pp. 491-502
-
-
Grove, A.1
Lim, L.2
-
26
-
-
0035819839
-
High guanine-cytosine content is not an adaptation to high temperature: A comparative analysis among prokaryotes
-
Hurst LD, Merchant AR (2001) High guanine-cytosine content is not an adaptation to high temperature: a comparative analysis among prokaryotes. Proc R Soc Lond B 268:493-497
-
(2001)
Proc R Soc Lond B
, vol.268
, pp. 493-497
-
-
Hurst, L.D.1
Merchant, A.R.2
-
27
-
-
0032438190
-
The stability of proteins in extreme environments
-
Jaenicke R, Bohm G (1998) The stability of proteins in extreme environments. Curr Opin Struct Biol 8:738-748
-
(1998)
Curr Opin Struct Biol
, vol.8
, pp. 738-748
-
-
Jaenicke, R.1
Bohm, G.2
-
28
-
-
0035036803
-
Evolution of base composition and codon usage bias in the genus Flavivirus
-
Jenkins JM, Pagel M, Gould EA, Zanotto PM de A, Holmes EC (2001) Evolution of base composition and codon usage bias in the genus Flavivirus. J Mol Evol 52:383-390
-
(2001)
J Mol Evol
, vol.52
, pp. 383-390
-
-
Jenkins, J.M.1
Pagel, M.2
Gould, E.A.3
Zanotto, P.M.D.A.4
Holmes, E.C.5
-
29
-
-
0035220937
-
A simple model based on mutation and selection explains trends in codon and amino-acid usage and GC composition within and across genomes
-
Knight RD, Freeland SJ, Landweber LF (2001) A simple model based on mutation and selection explains trends in codon and amino-acid usage and GC composition within and across genomes. Genome Biol 2:0010.1-0010.13
-
(2001)
Genome Biol
, vol.2
-
-
Knight, R.D.1
Freeland, S.J.2
Landweber, L.F.3
-
30
-
-
0034006790
-
Thermophilic bacteria strictly obey Szybalski's transcription direction rule and politely purine-load RNAs with both adenine and guanine
-
Lao PJ, Forsdyke DR (2000) Thermophilic bacteria strictly obey Szybalski's transcription direction rule and politely purine-load RNAs with both adenine and guanine. Genome Res 10:228-236
-
(2000)
Genome Res
, vol.10
, pp. 228-236
-
-
Lao, P.J.1
Forsdyke, D.R.2
-
32
-
-
0038480747
-
Internal correspondence analysis of codon and amino-acid usage in thermophilic bacteria
-
Lobry JR, Chessel D (2003) Internal correspondence analysis of codon and amino-acid usage in thermophilic bacteria. J Appl Genet 44:235-261
-
(2003)
J Appl Genet
, vol.44
, pp. 235-261
-
-
Lobry, J.R.1
Chessel, D.2
-
33
-
-
7044275640
-
Comparison of responses by bacteriophage and bacteria to pressures on the base composition of open reading frames
-
Mortimer JR, Forsdyke DR (2003) Comparison of responses by bacteriophage and bacteria to pressures on the base composition of open reading frames. Appl Bioinformatics 2:47-62
-
(2003)
Appl Bioinformatics
, vol.2
, pp. 47-62
-
-
Mortimer, J.R.1
Forsdyke, D.R.2
-
34
-
-
0342614926
-
Codon usage tabulated from the international DNA sequence databases: Status for the year 2000
-
Nakamura Y, Gojobori T, Ikemura T (2000) Codon usage tabulated from the international DNA sequence databases: status for the year 2000. Nucleic Acids Res 28:292
-
(2000)
Nucleic Acids Res
, vol.28
, pp. 292
-
-
Nakamura, Y.1
Gojobori, T.2
Ikemura, T.3
-
35
-
-
0035104190
-
Low-complexity regions in Plasmodium falciparum proteins
-
Pizzi E, Frontali C (2001) Low-complexity regions in Plasmodium falciparum proteins. Genome Res 11:218-229
-
(2001)
Genome Res
, vol.11
, pp. 218-229
-
-
Pizzi, E.1
Frontali, C.2
-
36
-
-
0037225045
-
Base compositions of genes encoding α-actin and lactate dehydrogenase-A from differently adapted vertebrates show no temperature-adaptive variation in G + C content
-
Ream RA, Johns GC, Somero GN (2003) Base compositions of genes encoding α-actin and lactate dehydrogenase-A from differently adapted vertebrates show no temperature-adaptive variation in G + C content. Mol Biol Evol 20:105-110
-
(2003)
Mol Biol Evol
, vol.20
, pp. 105-110
-
-
Ream, R.A.1
Johns, G.C.2
Somero, G.N.3
-
37
-
-
0034736514
-
Evolution of the mitochondrial genetic system: An overview
-
Saccone C, Gissi C, Lanave C, Larizza A, Pesole G, Reyes A (2000) Evolution of the mitochondrial genetic system: an overview. Gene 261:153-159
-
(2000)
Gene
, vol.261
, pp. 153-159
-
-
Saccone, C.1
Gissi, C.2
Lanave, C.3
Larizza, A.4
Pesole, G.5
Reyes, A.6
-
38
-
-
0019542835
-
Method to determine the reading frame of a protein from the purine/pyrimidine genome sequence and its possible evolutionary justification
-
U S A
-
Shepherd JCW (1981) Method to determine the reading frame of a protein from the purine/pyrimidine genome sequence and its possible evolutionary justification. Proc Natl Acad Sci U S A 78:1596-1600
-
(1981)
Proc Natl Acad Sci
, vol.78
, pp. 1596-1600
-
-
Shepherd, J.C.W.1
-
39
-
-
0034730390
-
Molecular adaptation to an extreme environment: Origin of the thermal stability of the Pompeii worm collagen
-
Sicot F-X, Mesnage M, Masselot M, Exposito J-Y, Garrone R, Deutsch J, Gaill F (2000) Molecular adaptation to an extreme environment: origin of the thermal stability of the Pompeii worm collagen. J Mol Biol 302:811-820
-
(2000)
J Mol Biol
, vol.302
, pp. 811-820
-
-
Sicot, F.-X.1
Mesnage, M.2
Masselot, M.3
Exposito, J.-Y.4
Garrone, R.5
Deutsch, J.6
Gaill, F.7
-
41
-
-
0033066726
-
Extremophiles and their adaptation to hot environments
-
Stetter KO (1999) Extremophiles and their adaptation to hot environments. FEBS Lett 452:22-25
-
(1999)
FEBS Lett
, vol.452
, pp. 22-25
-
-
Stetter, K.O.1
-
42
-
-
0013997435
-
Pyrimidine clusters on the transcribing strand of DNA and their possible role in the initiation of RNA synthesis
-
Szybalski W, Kubinski H, Sheldrick O (1966) Pyrimidine clusters on the transcribing strand of DNA and their possible role in the initiation of RNA synthesis. Cold Spring Harb Symp Quant Biol 31:123-127
-
(1966)
Cold Spring Harb Symp Quant Biol
, vol.31
, pp. 123-127
-
-
Szybalski, W.1
Kubinski, H.2
Sheldrick, O.3
-
43
-
-
0037466436
-
Low complexity segments in Plasmodium falciparum proteins are primarily nucleic acid level adaptations
-
Xue HY, Forsdyke DR (2003) Low complexity segments in Plasmodium falciparum proteins are primarily nucleic acid level adaptations. Mol Biochem Parasitol 128:21-32
-
(2003)
Mol Biochem Parasitol
, vol.128
, pp. 21-32
-
-
Xue, H.Y.1
Forsdyke, D.R.2
|