corr in DNA (1996)

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1996

P Allegrini, M Barbi, P Grigolini, BJ West (1996), "Dynamical model for DNA sequences", Physical Review E, 52(5):5281-5296.
M Altaiski, O Mornev, R Polozov (1996), "Wavelet analysis of DNA sequences", Genetic Analysis: Biomolecular Engineering, 12:165-168.
A Arneodo, Y d'Aubenton-Carafa, E Bacry, PV Graves, JF Muzy, C Thermes (1996), "Wavelet based fractal analysis of DNA sequences", Physica D, 96:291-320.
GS Attard, AC Hurworth, JP Jack (1996), "Language-like features in DNA: transposable element footprints in the genome", Europhysics Letters, 36(5):391-396.
DA Bafna, PA Pevzner (1996), "Genome rearrangements and sorting by reversals", SIAM Journal on Computing, 25(2):272-289.
period:10-11

P Baldi, S Brunak, Y Chauvin, A Krogh (1996), "Naturally occuring nucleosome positioning signals in human exons and introns", Journal of Molecular Biology, 263:503-510.
[abstract]
repeats

MA Batzer, PL Deininger, U Hellmann-Blumberg, J Jurka, D Labuda, CM Rubin, CW Schmid, E Zietkiewicz, E Zuckerkandl (1996), "Standardized nomenclature for Alu repeats", Journal of Molecular Evolution, 42(1):3-6.
P Bernaola-Galvan, R Roman-Roldan, JL Oliver (1996), "Compositional segmentation and long-range fractal correlations in DNA sequences", Physical Review E, 53(5):5181-5189.
[ abstract] [ PDF ]
BE Blaisdell, AM Campbell, S Karlin (1996), "Similarities and dissimilarities of phage genomes", Proceedings of the National Academy of Sciences, 93(12):5854-5859. [ Medline entry ]
sequence

CJ Bult, O White, GJ Olsen, L Zhou, RD Fleischmann, GG Sutton, JA Blake, LM FitzGerald, RA Clayton, JD Gocayne, AR Kerlavage, BA Dougherty, JF Tomb, MD Adams, CI Reich, R Overbeek, EF Kirkness, KG Weinstock, JM Merrick, A Glodek, JL Scott, NSM Geoghagen, JF Weidman, JL Fuhrman, D Nguyen, TR Utterback, JM Kelley, JD Peterson, PW Sadow, MC Hanna, MD Cotton, KM Roberts, MA Hurst, BP Kaine, M Borodovsky, HP Klenk, CM Fraser, HO Smith, CR Woese, JC Venter (1996), "Complete genome sequence of the methanogenic archaeon, Methanococcus jannaschii", Science, 273:1058-1073.
VR Chechetkin, VV Lobzin (1996), Levels of ordering in coding and noncoding regions of DNA sequences", Physics Letters A, 222:354-360.
[ abstract] [abstract]
VR Chechetkin, AY Turygin (1996), "Study of correlations in DNA sequences", Journal of Theoretical Biology, 178:205-217.
[ abstract]
O Clay, S Caccio, S Zoubak, D Mouchiroud, G Bernardi (1996), "Human coding and noncoding DNA: compositional correlations", Molecular Phylogenetics and Evolution, 5(1):2-12.
M de Sousa Vieira, HJ Herrmann (1996), "A growth model for DNA evolution", Europhysics Letters, 33(5):409-414.
[ PDF ]
TG Dewey, BJ Strait (1996), "Multifractals, encoded walks and the ergodicity of protein sequences", First Pacific Symposium on Biocomputing, eds. RB Altman, AK Dunker, L Hunter, TE Klein, pages 216-219.
J Filipski, E Svetlova, N Avril-Fournout, P Deschavanne, M Bellis (1996), "New approaches to the mapping of chromosomal domains", Acta Biochim Pol., 43(2):289-292.
Jan Freund, Werner Ebeling, and Katja Rateitschak (1996), "Self-similar sequences and universal scaling of dynamical entropies", Physical Review E, 54(5):5561-5566.
sequence

R Himmelreich, H Hilbert, H Plagens, E Pirkl, BC Li, R Herrmann (1996), "Complete sequence analysis of the genome of the bacterium Mycoplasma pneumoniae", Nucleic Acids Research, 24:4420-4449.
sequence

H Inoko, N Mizuki, T Shiina, A Ando, M Kimura, YY Kikuchi, H Kawata, K Sugaya, T Fukagawa, K Matsumoto, T Nagata, M Taketo, K Okumura, M Kasahara, T Ikemura (1996), "Cloning, sequencing and evolutionary analyses of the human major histocompatibility complex (MHC) region", DNA Sequence, 7(1):31-32.
period:10-11

Ilya Ioshikhes, Alex Bolshoy, Konstantin Derenshteyn, Mark Borodovsky, Edward N Trifonov (1996), "Nucleosome DNA sequence pattern revealed by multiple alignment of experimentally mapped sequences", Journal of Molecular Biology, 262(2):129-139.
[abstract]
repeats

J Jurka, VV Kapitonov, P Klonowski, J Walichiewicz, AF Smit (1996), "Identification of new medium reiteration frequency repeats in the genomes of Primates, Rodentia and Lagomorpha", Genetica, 98(3):235-247.
repeats

J Jurka, P Klonowski, V Dagman, P Pelton (1996), "CENSOR--a program for identification and elimination of repetitive elements from DNA sequences", Computers & Chemistry, 20(1):119-121.
sequence

T Kaneko, S Sato, H Kotani, A Tanaka, E Asamizu, Y Nakamura, N Miyajima, M Hirosawa, M Sugiura, S Sasamoto, T Kimura, T Hosouchi, A Matsuno, A Muraki, N Nakazaki, K Naruo, S Okumura, S Shimpo, C Takeuchi, T Wada, A Watanabe, M Yamada, M Yasuda, S Tabata (1996), "Sequence analysis of the genome of the unicellular cyanobacterium Synechocystis sp. strain PCC6803. II. Sequence determination of the entire genome and assignment of potential protein-coding regions", DNA Research, 3:109-136.
repeats

V Kapitonov, J Jurka (1996), "The age of Alu subfamilies", Journal of Molecular Evolution, 42(1):59-65.
dna-music

Ross D King, Colin G Angus (1996), "PM - protein music", Computer Applications in Biosciences, 12(3):251-252.
MY Leung, GM March, TP Speed (1996), "Over and under representation of short oligonucleotides in herpes virus genomes", Journal of Computational Biology, 3(3):345-360.
Pietro Liò, Antonio Politi, Stefano Ruffo, Marcello Buiatti (1996), "Analysis of genomic patchiness of Haemophilus influenzae and Saccharomyces cerevisiae chromosomes", Journal of Theoretical Biology, 183(4):455-469 (Dec 21)
[abstract]
a/symmetry

JR Lobry (1996) "Asymmetric substitution patterns in the two DNA strands of bacteria", Molecular Biology and Evolution, 13:660-665.
[ abstract] [ Medline entry ]
a/symmetry

JR Lobry (1996) "Origin of replication of Mycoplasma genitalium", Science, 272:745-746.
V Ju Makeev, GK Frank, VG Tumanyan (1996), "Statistics of periodic patterns in the sequences of human introns", Biophysics, 41(1):263-268.
V Ju Makeev, VG Tumanyan (1996), "Search of periodicities in primary structure of biopolymers: a general Fourier approach", Computer Applications in Biosciences, 12(1):49-54.
A Nandy (1996), "Graphical analysis of DNA sequence structure: III. indications of evolutionary distinctions and characteristics of introns and exons", Current Science, 70(7):661-668.
bending

WK Olson, VB Zhurkin (1996), "Twenty years of DNA bending", in {\sl Biological Structure and Dynamics. Proceedings of the Ninth Conversation, 1995. Vol. II}, eds. RH Sarma, MH Sarma (Adenine Press).
protein

O Popov, DM Segal, EN Trifonov (1996), "Linguistic complexity of protein sequences as compared to texts of human languages", Biosystems, 38(1):65-74.
K Quandt, K Grote, T Werner (1996), "Genomelnspector: a new approach to detect correlation patterns of elements on genomic sequences", Computer Applications in Biosciences, 12(5):405-413 (Oct).
[ GenomeInspector]
K Quandt, K Grote, T Werner (1996), ``GenomeInspector: basic software tools for analysis of spatial correlations between genomic structures within megabase sequences", Genomics, 33:301-304.
[ GenomeInspector]
AO Schmitt, W Ebeling, and H Herzel (1996), "The modular structure of informational sequences", Biosystems, 37:199-210.
[ abstract]
protein

Meeta Rani, Chanchal K Mitra (1996), "Pair-preferences: a quantitative measure of regularities in protein sequences", Journal of Biomolecular Structure and Dynamics, 13(6):935-944.
[ abstract] [Also by the same authors, J. Biosci.(??) 18:213-220 (1993); 19:255-266 (1994); 20:7-15 (1995); 20:579-590 (1995)]
R Roman-Roldan, P Bernaola-Galvan, JL Oliver (1996), "Application of information theory to DNA sequence analysis. A review", Pattern Recognition, 29(7):1187-1194.
repeats

AF Smit (1996), "The origin of interspersed repeats in the human genome", Current Opinion in Genetics & Development, 6(6):743-748.
repeats

AF Smit, AD Riggs (1996), "Tiggers and DNA transposon fossils in the human genome", Proceedings of the National Academy of Sciences, 93(4):1443-1448.
Michael Teitelman and Frank H. Eeckman (1996), "Principal component analysis and large-scale correlations in non-coding sequences of human DNA", Journal of Computational Biology, 3(4):573-576.
[ abstract] [ PDF ]
AA Tsonis, P Kumar, JB Elsner, PA Tsonis (1996), "Wavelet analysis of DNA sequences", Physical Review E, 53(2):1828-1834.
period:10-11

J Widom (1996), "Short-range order in two eukaryotic genomes: relation to chromosome structure", Journal of Molecular Biology, 259:579-588.
[abstract] [abstract] [PDF]
TL Yu, KW Yu (1996), "Study of long-range correlations in PC binary files", Information Sciences, 89(3-4):157-163.
S Zoubak, O Clay, G Bernardi (1996), "The gene distribution of the human genome", Gene, 174(1):95-102.