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DNA Sequence Volume 1, 1991 - Issue 3
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Original Article

Occurrence of oligopurine.oligopyrimidine tracts in eukaryotic and prokaryotic genes

Phillip Bucher Department of Cell Biology, The Weizmann Institute of Science, PO Box 26, Rehovot, 76100, Israel; Department of Mathematics, Stanford University, CA, 94305, USA
&
Gad Yagil Department of Cell Biology, The Weizmann Institute of Science, PO Box 26, Rehovot, 76100, Israel
Pages 157-172 | Received 16 Dec 1989, Published online: 11 Jul 2009

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David Häring & Jaroslav Kypr. (1999) Correlations and Anticorrelations Among Nucleotide Distributions Along the Genomes of Various Organisms. Journal of Biomolecular Structure and Dynamics 17:2, pages 267-273.
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Gad Yagil. (1991) Paranemic Structures of DNA and their Role in DNA Unwinding. Critical Reviews in Biochemistry and Molecular Biology 26:5-6, pages 475-559.
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Articles from other publishers (29)

Rodrigo Maldonado & Gernot Längst. (2023) The chromatin – triple helix connection. Biological Chemistry 404:11-12, pages 1037-1049.
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Dana Cohen. (2022) General Designs Reveal a Purine-Pyrimidine Structural Code in Human DNA. Mathematics 10:15, pages 2723.
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Kaku Maekawa, Shintaro Yamada, Rahul Sharma, Jayanta Chaudhuri & Scott Keeney. (2022) Triple-helix potential of the mouse genome. Proceedings of the National Academy of Sciences 119:19.
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Himanshu N. SinghSinghSingh & Moganty R. Rajeswari. (2017) DNA-triplex Forming Purine Repeat Containing Genes in Acinetobacter baumannii and Their Association with Infection and Adaptation. Frontiers in Cellular and Infection Microbiology 7.
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Isabelle T. Holder, Stefanie Wagner, Peiwen Xiong, Malte Sinn, Tancred Frickey, Axel Meyer & Jörg S. Hartig. (2015) Intrastrand triplex DNA repeats in bacteria: a source of genomic instability. Nucleic Acids Research, pages gkv1017.
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M. Cristina de AlmagroNúria MenciaVéronique NoéCarlos J. Ciudad. (2011) Coding Polypurine Hairpins Cause Target-Induced Cell Death in Breast Cancer Cells. Human Gene Therapy 22:4, pages 451-463.
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R. M. CHEN, M. T. HOU, N. W. CHANG, Y. T. CHEN & JEFFREY J. P. TSAI. (2012) CUMULATIVE SPECTRAL REPEAT FINDER (CSRF): A SPECTRAL APPROACH FOR IDENTIFYING THE LENGTH OF REPEATS IN DNA SEQUENCES. International Journal on Artificial Intelligence Tools 20:01, pages 179-194.
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Saptaparni Ghosh, Parijat Majumder, Suman Kalyan Pradhan & Dipak Dasgupta. (2010) Mechanism of interaction of small transcription inhibitors with DNA in the context of chromatin and telomere. Biochimica et Biophysica Acta (BBA) - Gene Regulatory Mechanisms 1799:10-12, pages 795-809.
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R.M. Chen, M.T. Hou & Jeffrey J.P. Tsai. (2009) A Novel Approach for Motif Identification in Unaligned Molecular Sequences. A Novel Approach for Motif Identification in Unaligned Molecular Sequences.
Aklank Jain, Guliang Wang & Karen M. Vasquez. (2008) DNA triple helices: Biological consequences and therapeutic potential. Biochimie 90:8, pages 1117-1130.
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Kathleen E. Mandell, Peter M. Vallone, Richard Owczarzy, Peter V. Riccelli & Albert S. Benight. (2005) Studies of DNA dumbbells VIII. Melting analysis of DNA dumbbells with dinucleotide repeat stem sequences. Biopolymers 82:3, pages 199-221.
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G. Yagil. (2006) DNA tracts composed of only two bases concentrate in gene promoters. Genomics 87:5, pages 591-597.
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Gad Yagil. (2004) The over-representation of binary DNA tracts in seven sequenced chromosomes. BMC Genomics 5:1.
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Rebecca C. Holmberg & H. Holden Thorp. (2004) Electrochemical Determination of Triple Helices:  Electrocatalytic Oxidation of Guanine in an Intramolecular Triplex. Inorganic Chemistry 43:16, pages 5080-5085.
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Paula Rodrigues Hoyne & L.James MaherIIIIII. (2002) Functional Studies of Potential Intrastrand Triplex Elements in the Escherichia coli Genome. Journal of Molecular Biology 318:2, pages 373-386.
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William J. TinerSrSr, Vladimir N. Potaman, Richard R. Sinden & Yuri L. Lyubchenko. (2001) The structure of intramolecular triplex DNA: atomic force microscopy study 1 1Edited by I. Tinoco. Journal of Molecular Biology 314:3, pages 353-357.
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Paula Rodrigues Hoyne, Lindsay M Edwards, Alain Viari & L.James MaherIIIIII. (2000) Searching genomes for sequences with the potential to form intrastrand triple helices. Journal of Molecular Biology 302:4, pages 797-809.
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Carolyn Ashley & Jeremy S. Lee. (2000) A Triplex-Mediated Knot between Separated Polypurine–Polypyrimidine Tracts in Circular DNA Blocks Transcription by Escherichia coli RNA Polymerase . DNA and Cell Biology 19:4, pages 235-241.
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Sowmya Raghavan, Ramesh Hariharan & Samir K. Brahmachari. (2000) Polypurine.polypyrimidine sequences in complete bacterial genomes: preference for polypurines in protein-coding regions. Gene 242:1-2, pages 275-283.
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Gustavo Glusman, Alona Sosinsky, Edna Ben-Asher, Nili Avidan, Dina Sonkin, Anita Bahar, André Rosenthal, Sandra Clifton, Bruce Roe, Concepción Ferraz, Jacques Demaille & Doron Lancet. (2000) Sequence, Structure, and Evolution of a Complete Human Olfactory Receptor Gene Cluster. Genomics 63:2, pages 227-245.
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Richard R. Sinden, Christopher E. Pearson, Vladimir N. Potaman & David W. Ussery. 1998. Genes and Genomes. Genes and Genomes 1 141 .
MARISTELLA COGLIEVINA, RAFFAELLA KLIMA, IRIS BERTANI, DANIELA DELNERI, PAOLO ZACCARIA & CARLO V. BRUSCHI. (1997) Sequencing of a 40·5 kb Fragment Located on the Left Arm of Chromosome VII fromSaccharomyces cerevisiae. Yeast 13:1, pages 55-64.
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Nguan Soon Tan, Toong Jin Lam & Jeak Ling Ding. (1996) The first contiguous estrogen receptor gene from a fish, Oreochromis aureus: evidence for multiple transcripts. Molecular and Cellular Endocrinology 120:2, pages 177-192.
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Vladimir N. Potaman, David W. Ussery & Richard R. Sinden. (1996) Formation of a Combined H-DNA/Open TATA Box Structure in the Promoter Sequence of the Human Na,K-ATPase α2 Gene. Journal of Biological Chemistry 271:23, pages 13441-13447.
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Iris Bertani, Maristella Coglievina, Paolo Zaccaria, Raffaella Klima & Carlo V. Bruschi. (2004) VII . Yeast sequencing reports. The sequence of an 11·1 kb fragment on the left arm of Saccharomyces cerevisiae chromosome VII reveals six open reading frames including NSP49, KEM1 and four putative new genes . Yeast 11:12, pages 1187-1194.
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Maristella Coglievina, Iris Bertani, Raffaella Klima, Paolo Zaccaria & Carlo Vito Bruschi. (2004) The DNA sequence of a 7941 bp fragment of the left arm of chromosome VII of Saccharomyces cerevisiae contains four open reading frames including the multicopy suppressor gene of the pop2 mutation and a putative serine/threonine protein kinase gene . Yeast 11:8, pages 767-774.
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Laurent Mallet, Françloise Bussereau & Michel Jacquet. (2004) II . Yeast sequencing reports. Nucleotide sequence analysis of an 11·7 kb fragment of yeast chromosome II including BEM1 , a new gene of the WD‐40 repeat family and a new member of the KRE2 / MNT1 family . Yeast 10:6, pages 819-831.
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G. Yagil. (2004) The frequency of oligopurine. Oligopyrimidine and other two‐base tracts in yeast chromosome III. Yeast 10:5, pages 603-611.
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G. Yagil. (1993) The frequency of two-base tracts in eukaryotic genomes. Journal of Molecular Evolution 37:2, pages 123-130.
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