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1

New Elements of the Termination of Transcription in Prokaryotes

Hosid, Sergey, Bolshoy, Alexander

Journal:

Journal of Biomolecular Structure and Dynamics

Year:

2004

Language:

english

File:

PDF, 767 KB

english, 2004

2

Sequence complexity profiles of prokaryotic genomic sequences: A fast algorithm for calculating linguistic complexity

Troyanskaya, O. G., Arbell, O., Koren, Y., Landau, G. M., Bolshoy, A.

Journal:

Year:

2002

Language:

english

File:

PDF, 1.63 MB

english, 2002

3

Activity of Serratia plymuthica IC1270 gene chiA promoter region in Escherichia coli mutants deficient in global regulators of transcription

I. A. Khmel, M. I. Ovadis, A. V. Mayatskaya, A. M. Veselovskii, I. A. Bass, V. A. Lipasova, A. Bolshoy, I. Chet, L. S. Chernin

Journal:

Journal of Basic Microbiology

Year:

2005

Language:

english

File:

PDF, 323 KB

english, 2005

4

Large-scale genome clustering across life based on a linguistic approach

Valery Kirzhner, Alexander Bolshoy, Zeev Volkovich, Abraham Korol, Eviatar Nevo

Journal:

Year:

2005

Language:

english

File:

PDF, 920 KB

english, 2005

5

Revisiting the relationship between compositional sequence complexity and periodicity

Alexander Bolshoy

Journal:

Computational Biology and Chemistry

Year:

2008

Language:

english

File:

PDF, 1.41 MB

english, 2008

6

Upstream curved sequences in E. coli are related to the regulation of transcription initiation

Tamar Nov Klaiman, Sergey Hosid, Alexander Bolshoy

Journal:

Computational Biology and Chemistry

Year:

2009

Language:

english

File:

PDF, 850 KB

english, 2009

7

Prokaryote clustering based on DNA curvature distributions

L. Kozobay-Avraham, S. Hosid, Z. Volkovich, A. Bolshoy

Journal:

Discrete Applied Mathematics

Year:

2009

Language:

english

File:

PDF, 1.07 MB

english, 2009

8

Whole-genome prokaryotic clustering based on gene lengths

A. Bolshoy, Z. Volkovich

Journal:

Discrete Applied Mathematics

Year:

2009

Language:

english

File:

PDF, 869 KB

english, 2009

9

The method of -grams in large-scale clustering of DNA texts

Z. Volkovich, V. Kirzhner, A. Bolshoy, E. Nevo, A. Korol

Journal:

Pattern Recognition

Year:

2005

Language:

english

File:

PDF, 251 KB

english, 2005

10

Sequence complexity and DNA curvature

Andrei Gabrielian, Alexander Bolshoy

Journal:

Computers & Chemistry

Year:

1999

Language:

english

File:

PDF, 319 KB

english, 1999

11

Compositional spectrum—revealing patterns for genomic sequence characterization and comparison

Valery M. Kirzhner, Abraham B. Korol, Alexander Bolshoy, Eviatar Nevo

Journal:

Physica A: Statistical Mechanics and its Applications

Year:

2002

Language:

english

File:

PDF, 217 KB

english, 2002

12

Sequence periodicity ofEscherichia coliis concentrated in intergenic regions

Sergey Hosid, Edward N Trifonov, Alexander Bolshoy

Journal:

BMC Molecular Biology

Year:

2004

Language:

english

File:

PDF, 1.02 MB

english, 2004

13

Overlapping Messages and Survivability

Ofer Peleg, Valery Kirzhner, Edward Trifonov, Alexander Bolshoy

Journal:

Journal of Molecular Evolution

Year:

2004

Language:

english

File:

PDF, 260 KB

english, 2004

14

Adaptive microclimatic structural and expressional dehydrin 1 evolution in wild barley, Hordeum spontaneum, at ‘Evolution Canyon’, Mount Carmel, Israel

ZUJUN YANG, TAO ZHANG, ALEXANDER BOLSHOY, ALEXANDER BEHARAV, EVIATAR NEVO

Journal:

Molecular Ecology

Year:

2009

Language:

english

File:

PDF, 2.59 MB

english, 2009

15

CC dinucleotides contribute to the bending of DNA in chromatin

Bolshoy, Alexander

Journal:

Natural Structural Biology

Year:

1995

File:

PDF, 367 KB

1995

16

Determination of the DNA helical repeat by cryo-electron microscopy

Dubochet, Jacques, Bednar, Jan, Furrer, Patrick, Stasiak, Alicja Z., Stasiak, Andrzej, Bolshoy, Alexander A.

Journal:

Natural Structural Biology

Year:

1994

File:

PDF, 380 KB

1994

17

CURVATURE: software for the analysis of curved DNA

Shpigelman, E.S., Trifonov, E.N., Bolshoy, A.

Journal:

Year:

1993

Language:

english

File:

PDF, 3.91 MB

english, 1993

18

Nucleosome DNA Sequence Pattern Revealed by Multiple Alignment of Experimentally Mapped Sequences

Ilya Ioshikhes, Alex Bolshoy, Konstantin Derenshteyn, Mark Borodovsky, Edward N. Trifonov

Journal:

Journal of Molecular Biology

Year:

1996

Language:

english

File:

PDF, 199 KB

english, 1996

19

Dinucleosome DNA of Human K562 Cells: Experimental and Computational Characterizations

Megumi Kato, Yoshiaki Onishi, Yuko Wada-Kiyama, Takashi Abe, Toshimichi Ikemura, Simon Kogan, Alex Bolshoy, Edward N. Trifonov, Ryoiti Kiyama

Journal:

Journal of Molecular Biology

Year:

2003

Language:

english

File:

PDF, 1.79 MB

english, 2003

20

Robust classifying of prokaryotic genomes

Korenblat, Katerina, Volkovich, Zeev, Bolshoy, Alexander

Journal:

Computational Biology and Chemistry

Year:

2012

Language:

english

File:

PDF, 1.16 MB

english, 2012

21

miRNA and tropism of human parvovirus B19

Berillo, Olga, Khailenko, Vladimir, Ivashchenko, Anatoly, Perlmuter-Shoshany, Lior, Bolshoy, Alexander

Journal:

Computational Biology and Chemistry

Year:

2012

Language:

english

File:

PDF, 309 KB

english, 2012

22

Poisonings with mercury—A lasting problem

D.V. Bolshoy, E.G. Pykhteeva, L.M. Shafran, G.F. Burlak

Journal:

Toxicology Letters

Year:

2006

Language:

english

File:

PDF, 73 KB

english, 2006

23

Modeling of DNA curvature

Bolshoy, Alexander

Journal:

Physics of Life Reviews

Year:

2013

Language:

english

File:

PDF, 67 KB

english, 2013

24

Environmental Influences on DNA Curvature

Ussery, David W., Higgins, Christopher F., Bolshoy, Alexander

Journal:

Journal of Biomolecular Structure and Dynamics

Year:

1999

Language:

english

File:

PDF, 975 KB

english, 1999

25

RNA Secondary Structure and Sequence Conservation in C1 Region of Human Immunodeficiency Virus Type 1 env Gene

Peleg, Ofer, Brunak, Søren, Trifonov, Edward N., Nevo, Eviatar, Bolshoy, Alexander

Journal:

AIDS Research and Human Retroviruses

Year:

2002

Language:

english

File:

PDF, 497 KB

english, 2002

26

Preferred Positions of AA and TT Dinucleotides in Aligned Nucleosomal DNA Sequences

Ioshikhes, I., Bolshoy, A., Trifonov, E. N.

Journal:

Journal of Biomolecular Structure and Dynamics

Year:

1992

Language:

english

File:

PDF, 354 KB

english, 1992

27

Curved DNA without A-A: experimental estimation of all 16 DNA wedge angles.

Bolshoy, A., McNamara, P., Harrington, R. E., Trifonov, E. N.

Journal:

Proceedings of the National Academy of Sciences

Year:

1991

Language:

english

File:

PDF, 1.05 MB

english, 1991

28

Sequence-Dependent Kinks Induced in Curved DNA

McNamara, Peter T., Bolshoy, Alexander, Trifonov, Edward N., Harrington, Rodney E.

Journal:

Journal of Biomolecular Structure and Dynamics

Year:

1990

Language:

english

File:

PDF, 638 KB

english, 1990

29

Ecologic Genomics of DNA: Upstream Bending in Prokaryotic Promoters

Journal:

Genome Research

Year:

2000

Language:

english

File:

PDF, 2.23 MB

english, 2000

30

[Studies in Computational Intelligence] Genome Clustering Volume 286 || Genome as a Bag of Genes – The Whole-Genome Phylogenetics

Bolshoy, Alexander, Volkovich, Zeev (Vladimir), Kirzhner, Valery, Barzily, Zeev

Year:

2010

Language:

english

File:

PDF, 387 KB

english, 2010

31

[Studies in Computational Intelligence] Genome Clustering Volume 286 || Mathematical Models for the Analysis of Natural-Language Documents

Bolshoy, Alexander, Volkovich, Zeev (Vladimir), Kirzhner, Valery, Barzily, Zeev

Year:

2010

Language:

english

File:

PDF, 298 KB

english, 2010

32

[Studies in Computational Intelligence] Genome Clustering Volume 286 || N-Gram Spectra of the DNA Text

Bolshoy, Alexander, Volkovich, Zeev (Vladimir), Kirzhner, Valery, Barzily, Zeev

Year:

2010

Language:

english

File:

PDF, 657 KB

english, 2010

33

[Studies in Computational Intelligence] Genome Clustering Volume 286 || Biological Classification

Bolshoy, Alexander, Volkovich, Zeev (Vladimir), Kirzhner, Valery, Barzily, Zeev

Year:

2010

Language:

english

File:

PDF, 244 KB

english, 2010

34

[Studies in Computational Intelligence] Genome Clustering Volume 286 || Application of Compositional Spectra to DNA Sequences

Bolshoy, Alexander, Volkovich, Zeev (Vladimir), Kirzhner, Valery, Barzily, Zeev

Year:

2010

Language:

english

File:

PDF, 479 KB

english, 2010

35

[Studies in Computational Intelligence] Genome Clustering Volume 286 ||

Bolshoy, Alexander, Volkovich, Zeev (Vladimir), Kirzhner, Valery, Barzily, Zeev

Year:

2010

Language:

english

File:

PDF, 244 KB

english, 2010

36

[Studies in Computational Intelligence] Genome Clustering Volume 286 || DNA Texts

Bolshoy, Alexander, Volkovich, Zeev (Vladimir), Kirzhner, Valery, Barzily, Zeev

Year:

2010

Language:

english

File:

PDF, 280 KB

english, 2010

37

[Studies in Computational Intelligence] Genome Clustering Volume 286 || Marker-Function Profile-Based Clustering

Bolshoy, Alexander, Volkovich, Zeev (Vladimir), Kirzhner, Valery, Barzily, Zeev

Year:

2010

Language:

english

File:

PDF, 977 KB

english, 2010

38

[Studies in Computational Intelligence] Genome Clustering Volume 286 || Biological Background

Bolshoy, Alexander, Volkovich, Zeev (Vladimir), Kirzhner, Valery, Barzily, Zeev

Year:

2010

Language:

english

File:

PDF, 331 KB

english, 2010

39

Methods of Combinatorial Optimization to Reveal Factors Affecting Gene Length

Bolshoy,, Bolshoy,, Tatiana Tatarinova,

Journal:

Bioinformatics and Biology Insights

Year:

2012

Language:

english

File:

PDF, 752 KB

english, 2012

40

Algorithms of Ancestral Gene Length Reconstruction

Bolshoy, Alexander, Kirzhner, Valery M.

Journal:

BioMed Research International

Year:

2013

Language:

english

File:

PDF, 462 KB

english, 2013

41

The mysterious orphans of Mycoplasmataceae

Tatarinova, Tatiana V., Lysnyansky, Inna, Nikolsky, Yuri V., Bolshoy, Alexander

Journal:

Year:

2016

Language:

english

File:

PDF, 1.68 MB

english, 2016

42

Curved DNA Without A-A: Experimental Estimation of All 16 DNA Wedge Angles

A. Bolshoy, P. McNamara, R. E. Harrington and E. N. Trifonov

Journal:

Proceedings of the National Academy of Sciences

Year:

1991

Language:

english

File:

PDF, 966 KB

english, 1991

43

Lengths of Orthologous Prokaryotic Proteins Are Affected by Evolutionary Factors

Tatarinova, Tatiana, Salih, Bilal, Dien Bard, Jennifer, Cohen, Irit, Bolshoy, Alexander

Journal:

BioMed Research International

Year:

2015

Language:

english

File:

PDF, 1.24 MB

english, 2015

44

Gene-Family Extension Measures and Correlations

Carmi, Gon, Bolshoy, Alexander

Journal:

Year:

2016

Language:

english

File:

PDF, 984 KB

english, 2016

45

Ranking of Prokaryotic Genomes Based on Maximization of Sortedness of Gene Lengths

Salih, Bolshoy A

Journal:

Journal of Data Mining in Genomics & Proteomics

Year:

2014

Language:

english

File:

PDF, 639 KB

english, 2014

46

Statistical analysis of exon lengths in various eukaryotes

Bolshoy, Alexander, Kaplunovsky Alexander,, Ivashchenko Anatoliy,

Journal:

Open Access Bioinformatics

Year:

2011

Language:

english

File:

PDF, 356 KB

english, 2011

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