-
1
-
-
45649084229
-
The biological meaning of DNA correlations
-
Losa G.A., Merlini D., Nonnenmacher T.F., and Weibel E.R. (Eds)
-
Acquisti C., Buiatti M., Mersi G., Bogani P., and Buiatti M. The biological meaning of DNA correlations. In: Losa G.A., Merlini D., Nonnenmacher T.F., and Weibel E.R. (Eds). Fractals in Biology and Medicine vol. 3 (2002) 235-247
-
(2002)
Fractals in Biology and Medicine
, vol.3
, pp. 235-247
-
-
Acquisti, C.1
Buiatti, M.2
Mersi, G.3
Bogani, P.4
Buiatti, M.5
-
2
-
-
0141887171
-
The search for the low-complexity sequences in prokaryotic and eukaryotic genomes: how to derive a coherent picture from global and local entropy measures
-
Acquisti C., Allegrini P., Bogani P., Buiatti M., Catanese E., Fronzoni L., Grigolini P., Mersi G., and Palatella L. The search for the low-complexity sequences in prokaryotic and eukaryotic genomes: how to derive a coherent picture from global and local entropy measures. Chaos, Solitons and Fractals 20 (2004) 127-137
-
(2004)
Chaos, Solitons and Fractals
, vol.20
, pp. 127-137
-
-
Acquisti, C.1
Allegrini, P.2
Bogani, P.3
Buiatti, M.4
Catanese, E.5
Fronzoni, L.6
Grigolini, P.7
Mersi, G.8
Palatella, L.9
-
3
-
-
13844291872
-
DNA sequence compression using the Burrows-Wheeler transform
-
Adjeroh D., Zhang Y., Mukherjee A., Powell M., and Bell T. DNA sequence compression using the Burrows-Wheeler transform. Proceedings of IEEE Bioinformatics Conference, 14-16 August 2002 (2002) 303-313
-
(2002)
Proceedings of IEEE Bioinformatics Conference, 14-16 August 2002
, pp. 303-313
-
-
Adjeroh, D.1
Zhang, Y.2
Mukherjee, A.3
Powell, M.4
Bell, T.5
-
4
-
-
0000003625
-
Non-Gaussian statistics of anomalous diffusion: the DNA sequences of prokaryotes
-
Allegrini P., Buiatti M., Grigolini P., and West B. Non-Gaussian statistics of anomalous diffusion: the DNA sequences of prokaryotes. Phys. Rev. E 58 (1998) 3640-3648
-
(1998)
Phys. Rev. E
, vol.58
, pp. 3640-3648
-
-
Allegrini, P.1
Buiatti, M.2
Grigolini, P.3
West, B.4
-
5
-
-
0036489580
-
Information and dynamical systems: a concrete measurement on sporadic dynamics
-
Argenti F., Benci V., Cerrai P., Cordelli A., Galatolo S., and Menconi G. Information and dynamical systems: a concrete measurement on sporadic dynamics. Chaos, Solitons and Fractals 13 3 (2002) 461-469
-
(2002)
Chaos, Solitons and Fractals
, vol.13
, Issue.3
, pp. 461-469
-
-
Argenti, F.1
Benci, V.2
Cerrai, P.3
Cordelli, A.4
Galatolo, S.5
Menconi, G.6
-
6
-
-
0035847859
-
Long-range correlations in genomic DNA: a signature of the nucleosomal structure
-
Audit B., Thermes C., Vaillant C., d'Aubenton-Carafa Y., Muzy J.F., and Ameodo A. Long-range correlations in genomic DNA: a signature of the nucleosomal structure. Phys. Rev. Lett. 86 11 (2001) 2471-2474
-
(2001)
Phys. Rev. Lett.
, vol.86
, Issue.11
, pp. 2471-2474
-
-
Audit, B.1
Thermes, C.2
Vaillant, C.3
d'Aubenton-Carafa, Y.4
Muzy, J.F.5
Ameodo, A.6
-
8
-
-
4944246972
-
Dynamical systems and computable information
-
Benci V., Bonanno C., Galatolo S., Menconi G., and Virgilio M. Dynamical systems and computable information. Disc. Cont. Dyn. Syst.-B 4 4 (2004) 935-960
-
(2004)
Disc. Cont. Dyn. Syst.-B
, vol.4
, Issue.4
, pp. 935-960
-
-
Benci, V.1
Bonanno, C.2
Galatolo, S.3
Menconi, G.4
Virgilio, M.5
-
10
-
-
0043263931
-
Computational information for the logistic map at the chaos threshold
-
Bonanno C., and Menconi G. Computational information for the logistic map at the chaos threshold. Disc. Cont. Dyn. Syst.-B 2 3 (2002) 415-431
-
(2002)
Disc. Cont. Dyn. Syst.-B
, vol.2
, Issue.3
, pp. 415-431
-
-
Bonanno, C.1
Menconi, G.2
-
11
-
-
45649083478
-
-
Buiatti, M., 2006. Long range correlations in biological time series. Ph.D. Thesis, Paris VI.
-
Buiatti, M., 2006. Long range correlations in biological time series. Ph.D. Thesis, Paris VI.
-
-
-
-
12
-
-
0141990843
-
Towards a statistical characterization of the living state of matter
-
Buiatti M., and Buiatti M. Towards a statistical characterization of the living state of matter. Chaos Solitons and Fractals 20 (2004) 55-61
-
(2004)
Chaos Solitons and Fractals
, vol.20
, pp. 55-61
-
-
Buiatti, M.1
Buiatti, M.2
-
13
-
-
13444299064
-
The living state of matter: between noise and homeorrhetic constraints
-
Gell-Mann M., and Tsallis C. (Eds), Oxford University Press, Cambridge, MA
-
Buiatti M., Bogani P., Acquisti C., Mersi G., and Fronzoni L. The living state of matter: between noise and homeorrhetic constraints. In: Gell-Mann M., and Tsallis C. (Eds). Non Extensive Entropy: Inter-disciplinary Applications (2004), Oxford University Press, Cambridge, MA 221-241
-
(2004)
Non Extensive Entropy: Inter-disciplinary Applications
, pp. 221-241
-
-
Buiatti, M.1
Bogani, P.2
Acquisti, C.3
Mersi, G.4
Fronzoni, L.5
-
14
-
-
33748690289
-
Long-range correlation properties of coding and noncoding DNA sequences: GenBank analysis
-
Buldyrev S.V., Goldberger A.L., Havlin S., Mantegna R.N., Matsa M.E., Peng C.K., Simons M., and Stanley H.E. Long-range correlation properties of coding and noncoding DNA sequences: GenBank analysis. Phys. Rev. E 51 (1995) 5084-5091
-
(1995)
Phys. Rev. E
, vol.51
, pp. 5084-5091
-
-
Buldyrev, S.V.1
Goldberger, A.L.2
Havlin, S.3
Mantegna, R.N.4
Matsa, M.E.5
Peng, C.K.6
Simons, M.7
Stanley, H.E.8
-
16
-
-
21044437200
-
Genome phylogeny based on short-range correlations in DNA sequences
-
Dehnert M., Plaumann R., Helm W.E., and Hutt M.T. Genome phylogeny based on short-range correlations in DNA sequences. J. Comput. Biol. 12 5 (2005) 545-553
-
(2005)
J. Comput. Biol.
, vol.12
, Issue.5
, pp. 545-553
-
-
Dehnert, M.1
Plaumann, R.2
Helm, W.E.3
Hutt, M.T.4
-
17
-
-
8844220452
-
STAR: an algorithm to search for tandem approximate repeats
-
Delgrange O., and Rivals E. STAR: an algorithm to search for tandem approximate repeats. Bioinformatics 20 16 (2004) 2812-2820
-
(2004)
Bioinformatics
, vol.20
, Issue.16
, pp. 2812-2820
-
-
Delgrange, O.1
Rivals, E.2
-
18
-
-
84925291641
-
-
Grumbach, S., Tahi, F., 1993. Compression of DNA sequences. Data Compression Conference 1993, 30 March-2 April 1993, pp. 340-350.
-
Grumbach, S., Tahi, F., 1993. Compression of DNA sequences. Data Compression Conference 1993, 30 March-2 April 1993, pp. 340-350.
-
-
-
-
20
-
-
19544369461
-
-
Hagenauer, J., Dawy, Z., Gobel, B., Hanus, P., Mueller, J., 2004. Genomic analysis using methods from information theory. IEEE Information Theory Workshop, 24-29 October 2004, pp. 55-59.
-
Hagenauer, J., Dawy, Z., Gobel, B., Hanus, P., Mueller, J., 2004. Genomic analysis using methods from information theory. IEEE Information Theory Workshop, 24-29 October 2004, pp. 55-59.
-
-
-
-
21
-
-
0032891716
-
10-11 bp periodicities in complete genomes reflect protein structure and DNA folding
-
Herzel H., Weiss O., and Trifonov E.N. 10-11 bp periodicities in complete genomes reflect protein structure and DNA folding. Bioinformatics 15 3 (1999) 187-193
-
(1999)
Bioinformatics
, vol.15
, Issue.3
, pp. 187-193
-
-
Herzel, H.1
Weiss, O.2
Trifonov, E.N.3
-
24
-
-
0001494176
-
On the entropy per time unit as a metric invariant of automorohism
-
Kolmogorov A.N. On the entropy per time unit as a metric invariant of automorohism. Dokl. Acad. Nauk. 124 (1959) 754-755
-
(1959)
Dokl. Acad. Nauk.
, vol.124
, pp. 754-755
-
-
Kolmogorov, A.N.1
-
25
-
-
0031298464
-
The study of correlation structures of DNA sequences: a critical review
-
Li W. The study of correlation structures of DNA sequences: a critical review. Comput. Chem. 21 4 (1997) 257-271
-
(1997)
Comput. Chem.
, vol.21
, Issue.4
, pp. 257-271
-
-
Li, W.1
-
26
-
-
84956088098
-
Long-range correlation and partial 1/f-alpha spectrum in a non-coding DNA sequence
-
Li W., and Kaneko K. Long-range correlation and partial 1/f-alpha spectrum in a non-coding DNA sequence. Europhys. Lett. 17 7 (1992) 655-660
-
(1992)
Europhys. Lett.
, vol.17
, Issue.7
, pp. 655-660
-
-
Li, W.1
Kaneko, K.2
-
28
-
-
0035102453
-
An information based sequence distance and its application to whole mithocondrial genome phylogeny
-
Li M., Badger J.H., Chen X., Kwong S., Kearney P., and Zhang H. An information based sequence distance and its application to whole mithocondrial genome phylogeny. Bioinformatics 17 2 (2001) 149-154
-
(2001)
Bioinformatics
, vol.17
, Issue.2
, pp. 149-154
-
-
Li, M.1
Badger, J.H.2
Chen, X.3
Kwong, S.4
Kearney, P.5
Zhang, H.6
-
29
-
-
0028148067
-
Third codon G + C periodicity as a possible signal for an internal selective constraint
-
Lió P., Ruffo S., and Buiatti M. Third codon G + C periodicity as a possible signal for an internal selective constraint. J. Theor. Biol. 171 2 (1994) 215-223
-
(1994)
J. Theor. Biol.
, vol.171
, Issue.2
, pp. 215-223
-
-
Lió, P.1
Ruffo, S.2
Buiatti, M.3
-
30
-
-
39049189269
-
A compression-based approach for coding sequences identification I. Prokaryotic genomes
-
Menconi G., and Marangoni R. A compression-based approach for coding sequences identification I. Prokaryotic genomes. J. Comput. Biol. 13 8 (2006)
-
(2006)
J. Comput. Biol.
, vol.13
, Issue.8
-
-
Menconi, G.1
Marangoni, R.2
-
31
-
-
0033609333
-
Evidence for lateral gene transfer between Archaea and Bacteria from genome sequence of Thermotoga maritima
-
Nelson K.E., et al. Evidence for lateral gene transfer between Archaea and Bacteria from genome sequence of Thermotoga maritima. Nature 399 (1999) 323-329
-
(1999)
Nature
, vol.399
, pp. 323-329
-
-
Nelson, K.E.1
-
32
-
-
3242892432
-
Complexity: an internet resource for analysis of DNA sequence complexity
-
Orlov Y.L., and Potapov V.N. Complexity: an internet resource for analysis of DNA sequence complexity. Nucl. Acids Res. 32 (2004) W628-W633
-
(2004)
Nucl. Acids Res.
, vol.32
-
-
Orlov, Y.L.1
Potapov, V.N.2
-
33
-
-
0242643741
-
A new sequence distance measure for phylogenetic tree construction
-
Otu H.H., and Sayood K. A new sequence distance measure for phylogenetic tree construction. Bioinformatics 19 16 (2003) 2122-2130
-
(2003)
Bioinformatics
, vol.19
, Issue.16
, pp. 2122-2130
-
-
Otu, H.H.1
Sayood, K.2
-
34
-
-
0031351245
-
Scaling properties of coding and non-coding DNA sequences
-
Provata A., and Almirantis Y. Scaling properties of coding and non-coding DNA sequences. Physica A 247 (1997) 482-496
-
(1997)
Physica A
, vol.247
, pp. 482-496
-
-
Provata, A.1
Almirantis, Y.2
-
35
-
-
2442476580
-
The mammalian transcriptome and the function of non-coding DNA sequences
-
Shabalina S.A., and Spiridonov N.A.S. The mammalian transcriptome and the function of non-coding DNA sequences. Genome Biol. 5 (2004) 105
-
(2004)
Genome Biol.
, vol.5
, pp. 105
-
-
Shabalina, S.A.1
Spiridonov, N.A.S.2
-
36
-
-
34748835079
-
-
Szpankowski, W., Ren, W., Szpankowski, L., 2003. An optimal DNA segmentation based on the MDL principle. In: Proceedings of the 2003 IEEE Bioinformatics Conference, CSB 2003, 11-14 August 2003, pp. 541-546.
-
Szpankowski, W., Ren, W., Szpankowski, L., 2003. An optimal DNA segmentation based on the MDL principle. In: Proceedings of the 2003 IEEE Bioinformatics Conference, CSB 2003, 11-14 August 2003, pp. 541-546.
-
-
-
-
37
-
-
0024334889
-
-
Trifonov, E.N., 1989. The multiple codes of nucleotide sequences. Bull. Math. Biol. 417-432.
-
Trifonov, E.N., 1989. The multiple codes of nucleotide sequences. Bull. Math. Biol. 417-432.
-
-
-
-
38
-
-
0000204878
-
Evolution of long-range fractal correlations and 1/f noise in DNA-base sequences
-
Voss R.F. Evolution of long-range fractal correlations and 1/f noise in DNA-base sequences. Phys. Rev. Lett. 68 25 (1992) 3805-3808
-
(1992)
Phys. Rev. Lett.
, vol.68
, Issue.25
, pp. 3805-3808
-
-
Voss, R.F.1
-
39
-
-
0015997746
-
A catastrophe theory of evolution
-
Waddington C.H. A catastrophe theory of evolution. Ann. NY Acad. Sci. 231 (1975) 32-42
-
(1975)
Ann. NY Acad. Sci.
, vol.231
, pp. 32-42
-
-
Waddington, C.H.1
-
40
-
-
0034141421
-
Structural analysis of DNA sequence: evidence for lateral gene transfer in Thermotoga maritima
-
Worning P., Jensen L.J., Nelson K.E., Brunak S., and Ussery D.W. Structural analysis of DNA sequence: evidence for lateral gene transfer in Thermotoga maritima. Nucl. Acids Res. 28 3 (2000) 706-709
-
(2000)
Nucl. Acids Res.
, vol.28
, Issue.3
, pp. 706-709
-
-
Worning, P.1
Jensen, L.J.2
Nelson, K.E.3
Brunak, S.4
Ussery, D.W.5
-
41
-
-
33751181225
-
-
Xia, C., Ooi, B.C., Tung, A.K.H., Pang, H.H., Tan, K.-L., 2005. DSIM: a distance-based indexing method for genomic sequences. Fifth IEEE Symposium on Bioinformatics and Bioengineering, 2005. BIBE 2005 19-21 October 2005, pp. 97-104.
-
Xia, C., Ooi, B.C., Tung, A.K.H., Pang, H.H., Tan, K.-L., 2005. DSIM: a distance-based indexing method for genomic sequences. Fifth IEEE Symposium on Bioinformatics and Bioengineering, 2005. BIBE 2005 19-21 October 2005, pp. 97-104.
-
-
-
-
42
-
-
0017493286
-
A universal algorithm for sequential data compression
-
Ziv J., and Lempel A. A universal algorithm for sequential data compression. IEEE Trans. Inf. Theory 23 (1977) 337-342
-
(1977)
IEEE Trans. Inf. Theory
, vol.23
, pp. 337-342
-
-
Ziv, J.1
Lempel, A.2
-
43
-
-
0018019231
-
Compression of individual sequences via variable-rate coding
-
Ziv J., and Lempel A. Compression of individual sequences via variable-rate coding. IEEE Trans. Inf. Theory 24 (1978) 530-536
-
(1978)
IEEE Trans. Inf. Theory
, vol.24
, pp. 530-536
-
-
Ziv, J.1
Lempel, A.2
|