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Relevant bibliographies by topics / Repeat sequences

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Academic literature on the topic 'Repeat sequences'

Author: Grafiati

Published: 4 June 2021

Last updated: 25 July 2025

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Journal articles on the topic "Repeat sequences"

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Russ, Brendan, Friedhelm Pfeiffer, and Mike Dyall-Smith. "Halovirus HF2 Intergenic Repeat Sequences Carry Promoters." Viruses 13, no. 12 (2021): 2388. http://dx.doi.org/10.3390/v13122388.

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Halovirus HF2 was the first member of the Haloferacalesvirus genus to have its genome fully sequenced, which revealed two classes of intergenic repeat (IR) sequences: class I repeats of 58 bp in length, and class II repeats of 29 bp in length. Both classes of repeat contain AT-rich motifs that were conjectured to represent promoters. In the present study, nine IRs were cloned upstream of the bgaH reporter gene, and all displayed promoter activity, providing experimental evidence for the previous conjecture. Comparative genomics showed that IR sequences and their relative genomic positions were

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Baum, Bernard R., and D. A. Johnson. "The molecular diversity of the 5S rRNA gene in barley (Hordeum vulgare)." Genome 37, no. 6 (1994): 992–98. http://dx.doi.org/10.1139/g94-140.

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The 5S rDNA genes from several accessions of cultivated barley, Hordeum vulgare L., were amplified by the polymerase chain reaction, cloned, and sequenced. Analysis of the aligned sequences, followed by principal coordinate analysis, support the recognition of at least two distinct classes of 5S rDNA genes. The short repeat class corresponds to the 300-bp tandem repeat defined by E.V. Ananiev as containing several TAG repeating units. The long repeat class contains long tandem repeats and lacks the TAG repeating unit. Sequences in each class can be further subdivided, with the long repeat clas

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Whiteford, Nava E., Niall J. Haslam, Gerald Weber, Adam Prügel-Bennett, Jonathan W. Essex, and Cameron Neylon. "Visualizing the Repeat Structure of Genomic Sequences." Complex Systems 17, no. 4 (2008): 381–98. http://dx.doi.org/10.25088/complexsystems.17.4.381.

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Repeats are a common feature of genomic sequences and much remains to be understood of their origin and structure. The identification of repeated strings in genomic sequences is therefore of importance for a variety of applications in biology. In this paper a new method for finding all repeats and visualizing them in a two-dimensional plot is presented. The method is first applied to a set of constructed sequences in order to develop a comparative framework. Several complete genomes are then analyzed, including the whole human genome. The technique reveals the complex repeat structure of genom

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Hannan, Anthony J. "Expanding horizons of tandem repeats in biology and medicine: Why ‘genomic dark matter’ matters." Emerging Topics in Life Sciences 7, no. 3 (2023): 239–47. http://dx.doi.org/10.1042/etls20230075.

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Approximately half of the human genome includes repetitive sequences, and these DNA sequences (as well as their transcribed repetitive RNA and translated amino-acid repeat sequences) are known as the repeatome. Within this repeatome there are a couple of million tandem repeats, dispersed throughout the genome. These tandem repeats have been estimated to constitute ∼8% of the entire human genome. These tandem repeats can be located throughout exons, introns and intergenic regions, thus potentially affecting the structure and function of tandemly repetitive DNA, RNA and protein sequences. Over m

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ZHU, YONG, JOAN E. STRASSMANN, and DAVID C. QUELLER. "Insertions, substitutions, and the origin of microsatellites." Genetical Research 76, no. 3 (2000): 227–36. http://dx.doi.org/10.1017/s001667230000478x.

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This paper uses data from the Human Gene Mutation Database to contrast two hypotheses for the origin of short DNA repeats: substitutions and insertions that duplicate adjacent sequences. Because substitutions are much more common than insertions, they are the dominant source of new 2-repeat loci. Insertions are rarer, but over 70% of the 2–4 base insertion mutations are duplications of adjacent sequences, and over half of these generate new repeat regions. Insertions contribute fewer new repeat loci than substitutions, but their relative importance increases rapidly with repeat number so that

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Luo, Xiaomei, Charlene P. Wight, Yonghong Zhou, and Nicholas A. Tinker. "Characterization of chromosome-specific genomic DNA from hexaploid oat." Genome 55, no. 4 (2012): 265–68. http://dx.doi.org/10.1139/g2012-011.

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We have sequenced, assembled, and characterized a set of complexity-reduced genomic clones derived from a chromosome 18D-specific library from hexaploid oat ( Avena sativa L.). Sequences from 314 clones were assembled into 99 contigs of identical or nearly identical sequence. The Censor tool was used to identify similarity to known and characterized repeat sequences in RepBase. Eight repeat classes were scattered throughout 50 contigs, with most repeats belonging to seven transposon and retrotransposon classes. After accounting for known repeats, additional matches to orthologous genes from ot

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Yu, Xue-jie, Jere W. McBride, C. Marcela Diaz, and David H. Walker. "Molecular Cloning and Characterization of the 120-Kilodalton Protein Gene of Ehrlichia canis and Application of the Recombinant 120-Kilodalton Protein for Serodiagnosis of Canine Ehrlichiosis." Journal of Clinical Microbiology 38, no. 1 (2000): 369–74. http://dx.doi.org/10.1128/jcm.38.1.369-374.2000.

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ABSTRACT The 120-kDa outer membrane protein (p120) is a potential adhesin of Ehrlichia chaffeensis , and recombinant p120 is very useful for serodiagnosis of human monocytotropic ehrlichiosis. The analogous gene of p120 in Ehrlichia canis was cloned, sequenced, and expressed. Like the E. chaffeensis p120, the E. canis p120 contains tandem repeat units. However, neither the repeat number nor the amino acid sequences in the repeats are identical in the two Ehrlichia species. The repeat units are hydrophilic and by probability analysis are predicted to be surface exposed in both species. The repe

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Franck, Jens P. C., and Jonathan M. Wright. "Conservation of a satellite DNA sequence (SATB) in the tilapiine and haplochromine genome (Pisces: Cichlidae)." Genome 36, no. 1 (1993): 187–94. http://dx.doi.org/10.1139/g93-025.

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We have cloned and sequenced a 1900-bp EcoRI fragment (SATB) from the tilapiine fish Oreochromis niloticus. The SATB sequence is highly reiterated in the tilapiine genome and organized in long tandem arrays. A 760-bp HindIII fragment, an internal component of SATB, has also been cloned and sequenced from the related tilapiine species Oreochromis hornorum. Hybridization of the radiolabeled 760-bp HindIII repeat detected the presence of the SATB repeat in the genomes of several tilapiine species as well as the haplochromine species Haplochromis (Protomelas) similis. The 760-bp HindIII fragment d

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Ojkic, Davor, and éva Nagy. "The complete nucleotide sequence of fowl adenovirus type 8." Microbiology 81, no. 7 (2000): 1833–37. http://dx.doi.org/10.1099/0022-1317-81-7-1833.

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The fowl adenovirus type 8 (FAdV-8) genome was sequenced and found to be 45063 nucleotides in length, the longest adenovirus (AdV) genome for which the complete nucleotide sequence has been determined so far. No regions homologous to early regions 1, 3 and 4 (E1, E3 and E4) of mastadenoviruses were recognized. Gene homologues for early region 2 (E2) proteins, intermediate protein IVa2 and late proteins were found by their similarities to protein sequences from other AdVs. However, sequences homologous to intermediate protein IX and late protein V could not be identified. Sequences for virus-as

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Biessmann, Harald, and James M. Mason. "Telomeric repeat sequences." Chromosoma 103, no. 3 (1994): 154–61. http://dx.doi.org/10.1007/s004120050019.

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Dissertations / Theses on the topic "Repeat sequences"

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Arner, Erik. "Solving repeat problems in shotgun sequencing /." Stockholm, 2006. http://diss.kib.ki.se/2006/91-7140-996-3/.

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Asefifeyzabadi, Narges. "DNA INTERFACES FOR ELECTROCHEMICAL DETECTION OF NEURODEGENERATIVE REPEAT SEQUENCES." OpenSIUC, 2021. https://opensiuc.lib.siu.edu/dissertations/1931.

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TITLE: DNA INTERFACES FOR ELECTROCHEMICAL DETECTION OF NEURODEGENERATIVE REPEAT SEQUENCES DNA repeat sequences in the human genome possess unique biophysical properties due to their sequence-directed structural flexibility. It has been assumed that unique helical flexibility of these sequences forms non-canonical structures inside the cell that disrupts transcription/translation functions and can lead to variety of fatal diseases such as neurodegenerative disorders. Neorodegenerative diseases are caused by certain types of mutations called repeat expansions. Expansion of certain trinucleotide

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Hau, Peter P. C. "Minisatellite variant repeat mapping of the D1S7 locus (MS1)." Thesis, University of Strathclyde, 2003. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.273450.

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Rehm, Charlotte [Verfasser]. "G-Quadruplex Forming Repeat Sequences In Bacterial Genomes / Charlotte Rehm." Konstanz : Bibliothek der Universität Konstanz, 2015. http://d-nb.info/1115726609/34.

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Stevens, Hannah Clare. "Potential mechanisms by which herpes virus tandem repeat sequences modulate latency and reactivation." Thesis, University of Liverpool, 2009. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.533921.

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Whiteford, Nava. "String matching in DNA sequences : implications for short read sequencing and repeat visualisation." Thesis, University of Southampton, 2007. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.438668.

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Meloney, Kathleen Ann. "A dynamical systems approach to estimating the sequences of repeat regions in the genome." College Park, Md. : University of Maryland, 2004. http://hdl.handle.net/1903/1355.

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Thesis (M.A.) -- University of Maryland, College Park, 2004.<br>Thesis research directed by: Dept. of Mathematics. Title from t.p. of PDF. Includes bibliographical references. Published by UMI Dissertation Services, Ann Arbor, Mich. Also available in paper.

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Brind'Amour, Julie. "Flow cytometry analysis and sorting of chromosomes following hybridization with fluorescent probes that target specific DNA repeat sequences." Thesis, University of British Columbia, 2011. http://hdl.handle.net/2429/35973.

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Traditional cytogenetic approaches allow analysis of the chromosomal composition (karyotype) of mitotic cells fixed on slides cells by microscopy. The combination of karyotyping and Fluorescence In Situ Hybridization (FISH) enables the detection of specific target sequences on individual chromosomes. Disadvantages are that traditional cytogenetic approaches are very labor and time consuming and that chromosome specific information from only a few dozen cells has poor statistical power. An alternative is flow karyotyping, a method to analyze chromosomes in suspension by flow cytometry. For flow

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Kathuria, Sagar V. "Sequence Determinants of the Folding Free-Energy Landscape of beta alpha-Repeat Proteins: A Dissertation." eScholarship@UMMS, 2010. https://escholarship.umassmed.edu/gsbs_diss/480.

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The most common structural platform in biology, the βα-repeat classes of proteins, are represented by the (βα)8TIM barrel topology and the α/β/α sandwich, CheY-like topology. Previous studies on the folding mechanisms of several members of these proteins have suggested that the initial event during refolding involves the formation of a kinetically trapped species that at least partially unfolds before the native conformation can be accessed. The simple topologies of these proteins are thought to permit access to locally folded regions that may coalesce in non-native ways to form stable interac

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Shelton, Catherine L. "Conserved Variation in Tandem Repeat Sequences Tunes the Self-Assembly and Stability Characteristics of the Staphylococcus epidermidis Biofilm Protein Aap." University of Cincinnati / OhioLINK, 2016. http://rave.ohiolink.edu/etdc/view?acc_num=ucin1470741409.

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Books on the topic "Repeat sequences"

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N. Uversky, Vladimir, and Munishwar Nath Gupta. Repeat Amino Acid Sequences in Proteins. CRC Press, 2025. https://doi.org/10.1201/9781003509967.

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Hannan, Anthony J., and Danny M. Hatters. Tandem repeats in genes, proteins, and disease: Methods and protocols. Humana Press, 2013.

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3

Lee, David. Repeated sequences in the pea genome. University of East Anglia, 1990.

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West, Rinda. Myself among others: A sequenced approach to writing. Scott, Foresman/Little, Brown Higher Education, 1990.

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Donnelly, Rory. Sequence: A basic writing course. 3rd ed. Harcourt Brace Jovanovich College Publishers, 1993.

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Donnelly, Rory. Sequence: A basic writing course. 4th ed. Harcourt Brace Jovanovich College Publishers, 1996.

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Donnelly, Rory. Sequence: A basic writing course. 2nd ed. Holt, Rinehart, and Winston, 1986.

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David, Bartholomae, Petrosky Tony, and Bartholomae David, eds. Reading the lives of others: A sequence for writers. Bedford Books of St. Martin's Press, 1995.

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Evans, Paul. Measured effects of repeater jamming on direct-sequence spread spectrum receivers that use envelope detectors. Naval Postgraduate School, 1989.

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Kathleen, McCormick, ed. Reading our histories, understanding our cultures: A sequenced approach to thinking, reading, and writing. 2nd ed. Custom Pub., 2008.

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Book chapters on the topic "Repeat sequences"

1

Tinkham, Matthew. "Repeat Sequences." In Encyclopedia of Animal Cognition and Behavior. Springer International Publishing, 2017. http://dx.doi.org/10.1007/978-3-319-47829-6_208-1.

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Tinkham, Matthew. "Repeat Sequences." In Encyclopedia of Animal Cognition and Behavior. Springer International Publishing, 2022. http://dx.doi.org/10.1007/978-3-319-55065-7_208.

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Fujino, Yuzo, and Yoshitaka Nagai. "Pathogenic Role of Repeat Polypeptides in Repeat Expansion Diseases." In Repeat Amino Acid Sequences in Proteins. CRC Press, 2025. https://doi.org/10.1201/9781003509967-1.

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Bernasconi, Anna. "Viral Sequences Data Management Resources." In Model, Integrate, Search... Repeat. Springer Nature Switzerland, 2023. http://dx.doi.org/10.1007/978-3-031-44907-9_8.

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Parlato, Raffaella, and Patrick C. A. van der Wel. "Pathologies Due to PolyQ Sequences." In Repeat Amino Acid Sequences in Proteins. CRC Press, 2025. https://doi.org/10.1201/9781003509967-2.

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Chiusano, Maria Luisa, and Chiara Colantuono. "Repeat Sequences in the Tomato Genome." In Compendium of Plant Genomes. Springer Berlin Heidelberg, 2016. http://dx.doi.org/10.1007/978-3-662-53389-5_10.

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Khan, Nadeem, Hamna Shazadee, Frank M. You, and Sylvie Cloutier. "Repeat DNA Sequences in Flax Genomes." In The Flax Genome. Springer International Publishing, 2023. http://dx.doi.org/10.1007/978-3-031-16061-5_2.

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Nose, Takeru, and Keitaro Suyama. "Recent Advances and Applications in Self-Assembling Short-Chain Elastin-Like Peptide Analogs." In Repeat Amino Acid Sequences in Proteins. CRC Press, 2025. https://doi.org/10.1201/9781003509967-7.

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Vijayan, Vishnu N., Karthika Kannan, and Sushabhan Sadhukhan. "Unconventional Fluorescence Properties of Non-aromatic Amino Acids: Material and Biological Applications." In Repeat Amino Acid Sequences in Proteins. CRC Press, 2025. https://doi.org/10.1201/9781003509967-8.

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Phong, Ngoc Hai Trieu, Mohammed A. Kamal, Duy Binh Tran, and Tohru Yamada. "Cell Penetrating Peptides with Repeat Sequences of Amino Acids." In Repeat Amino Acid Sequences in Proteins. CRC Press, 2025. https://doi.org/10.1201/9781003509967-6.

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Conference papers on the topic "Repeat sequences"

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Yusaf, Hassan, Arooj Khan, Tariq Ullah, Muhammad Rehan Khalid, and Fayyaz Ahmad Siddiqui. "Analysis of Chaotic Sequences Based Radar ECCM Scheme Against DRFM Repeat Jammers." In 2024 International Conference on Frontiers of Information Technology (FIT). IEEE, 2024. https://doi.org/10.1109/fit63703.2024.10838349.

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Qi, Biqing, Junqi Gao, Kaiyan Zhang, et al. "SMR: State Memory Replay for Long Sequence Modeling." In Findings of the Association for Computational Linguistics ACL 2024. Association for Computational Linguistics, 2024. http://dx.doi.org/10.18653/v1/2024.findings-acl.483.

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Pan, Yizhi, Kai Li, Jinghao Wu, et al. "Sequence-Integrated Radiology Report Generation Leveraging Positional Encoding for Text and Images." In 2024 IEEE Cyber Science and Technology Congress (CyberSciTech). IEEE, 2024. https://doi.org/10.1109/cyberscitech64112.2024.00085.

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Rani, Pratibha, and Vikram Pudi. "RBNBC: Repeat Based Naive Bayes Classifier for Biological Sequences." In 2008 Eighth IEEE International Conference on Data Mining (ICDM). IEEE, 2008. http://dx.doi.org/10.1109/icdm.2008.66.

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Padole, Mamta C. "Recognizing Short Tandem Repeat Regions in Genomic Sequences Using Wavelet." In 2014 International Conference on Mathematics and Computers in Sciences and in Industry (MCSI). IEEE, 2014. http://dx.doi.org/10.1109/mcsi.2014.50.

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Lopez, J. A., D. W. Chung, K. Fujikawa, F. S. Hagen, T. Papavannopoulou, and G. J. Roth. "MOLECULAR CLONING OF HUMAN PLATELET GLYCOPROTEIN Ib." In XIth International Congress on Thrombosis and Haemostasis. Schattauer GmbH, 1987. http://dx.doi.org/10.1055/s-0038-1642927.

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Glycoprotein Ib (GPIb) mediates von Willebrand factor-dependent platelet adhesion and participates in the resulting platelet activation process. In the present investigation, the primary structure of human platelet GPIb was studied. GPIb and its proteolytic fragment glycocalicin were purified to near homogeneity from human platelets by affinity chromatography using wheat germ agglutinin and anti-GPIb monoclonal antibody (D. Nugent, University of Washington) coupled to Sepharose. GPIba chain, β chain, and glycocalicin were isolated, reduced and carboxymethylated, and then fragmented by trypsin

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Butrak, Tida, and Supaporn Chairungsee. "A Linear Time Algorithm for Finding Tandem Repeat in DNA Sequences." In ICIT 2019: IoT and Smart City. ACM, 2019. http://dx.doi.org/10.1145/3377170.3377203.

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Zhou, Hong-Xia, and Hong Yan. "A Fast Method for Determining the Repeat Pattern Size in DNA Sequences." In 2007 International Conference on Machine Learning and Cybernetics. IEEE, 2007. http://dx.doi.org/10.1109/icmlc.2007.4370720.

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Singh, Abanish, Cedric Feschotte, and Nikola Stojanovic. "Micro-repetitive Structure of Genomic Sequences and the Identification of Ancient Repeat Elements." In 2007 IEEE International Conference on Bioinformatics and Biomedicine (BIBM 2007). IEEE, 2007. http://dx.doi.org/10.1109/bibm.2007.56.

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Collins, Corolyn J., Richard B. Levene, Christina P. Ravera, Marker J. Dombalagian, David M. Livingston, and Dennis C. Lynch. "MOLECULAR CLONING OF THE HUMAN GENE FOR VON WILLEBRAND FACTOR AND IDENTIFICATION OF THE TRANSCRIPTION INITIATION SITE." In XIth International Congress on Thrombosis and Haemostasis. Schattauer GmbH, 1987. http://dx.doi.org/10.1055/s-0038-1642830.

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Most patients with von Willebrand's disease appear to have a defect affecting the level of expression of the von Willebrand factor (vWf) gene. Thus, an understanding of the pathogenesis of von Willebrand's disease will require an analysis of the structure and function of the vWf gene in normals and in patients. To begin such analyses, we have screened a human genomic cosmid library with probes obtained from vWf cDNA and isolated a colinear segment spanning ≈175 kb in five overlapping clones. This segment extends ≈25 kb upstream and ≈5 kb downstream of the transcription start and stop sites for

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Reports on the topic "Repeat sequences"

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Hansch, Heidi. Designing and Assessing the Efficacy of Protein Inhibitors of IscB Endonucleases. Montana State University, 2025. https://doi.org/10.15788/1751903932.

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Many bacteria and archaea possess Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) and CRISPR-associated (Cas) proteins, forming a CRISPR-Cas system that defends against viral infection. These microbes incorporate fragments of viral DNA as spacers between short DNA repeats, then transcribe these regions of alternating spacers and repeat units into guide RNA (gRNA) sequences that form complexes with Cas proteins. Upon subsequent viral attack, the gRNA sequences bind regions of complementary viral DNA, and the Cas proteins act as endonucleases, cleaving the DNA to curb the infe

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Steffenson, B. J., I. Mayrose, Gary J. Muehlbauer, and A. Sharon. ing and comparative sequence analysis of powdery mildew and leaf rust resistance gene complements in wild barley. United States-Israel Binational Agricultural Research and Development Fund, 2021. http://dx.doi.org/10.32747/2021.8134173.bard.

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Our overall, long-term goal is to exploit the genetic diversity present in cereal wild relatives for the development of cultivars with durable disease resistance. Our specific objectives for this proposal were to: 1) Utilize Association Genetics Resistance Gene Enrichment Sequencing (AgRenSeq) to identify and clone powdery mildew and leaf rust resistance gene complements in wild barley and 2) Conduct comparative sequence analyses of the cloned resistance genes to elucidate the basis of their specificity and evolution. The deployment of resistant cultivars is the most effective, economically ef

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Churchill, G. A. Accurate restoration of DNA sequences. Progress report. Office of Scientific and Technical Information (OSTI), 1994. http://dx.doi.org/10.2172/10149735.

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Davidson, Irit, Hsing-Jien Kung, and Richard L. Witter. Molecular Interactions between Herpes and Retroviruses in Dually Infected Chickens and Turkeys. United States Department of Agriculture, 2002. http://dx.doi.org/10.32747/2002.7575275.bard.

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Tumors in commercial poultry are caused mainly by infection with avian herpes and retroviruses, the herpesvirus Marek's disease virus (MDV) and the retroviruses, reticuloendotheliosis (REV), lymphoid leukosis, subgroups A-I and J (ALV and ALV-J) in chickens, or Iymphoprolipherative disease (LPDV) in turkeys. Infection with one virus aggravates the clinical outcome of birds that are already infected by another oncogenic virus. As these viruses do not interfere for infection, MDV and one or more retroviruses can infect the same flock, the same bird and the same cell. While infecting the same cel

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George M. Church. Genomic Sequence Comparisons, 1987-2003 Final Report. Office of Scientific and Technical Information (OSTI), 2004. http://dx.doi.org/10.2172/827024.

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Pinson, Margaret, and Lucjan Janowski. AGH/NTIA: A Video Quality Subjective Test with Repeated Sequences. Institute for Telecommunication Sciences, 2014. https://doi.org/10.70220/tdhzfhsl.

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Zhang, Hongbin B., David J. Bonfil, and Shahal Abbo. Genomics Tools for Legume Agronomic Gene Mapping and Cloning, and Genome Analysis: Chickpea as a Model. United States Department of Agriculture, 2003. http://dx.doi.org/10.32747/2003.7586464.bard.

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The goals of this project were to develop essential genomic tools for modern chickpea genetics and genomics research, map the genes and quantitative traits of importance to chickpea production and generate DNA markers that are well-suited for enhanced chickpea germplasm analysis and breeding. To achieve these research goals, we proposed the following research objectives in this period of the project: 1) Develop an ordered BAC library with an average insert size of 150 - 200 kb (USA); 2) Develop 300 simple sequence repeat (SSR) markers with an aid of the BAC library (USA); 3) Develop SSR marker

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Heidelberg, John F. Complete genome sequence of Shewanella putrefaciens. Final report. Office of Scientific and Technical Information (OSTI), 2001. http://dx.doi.org/10.2172/811383.

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Stormo, G. D. New approaches to recognizing functional domains in biological sequences. Progress report. Office of Scientific and Technical Information (OSTI), 1993. http://dx.doi.org/10.2172/10111498.

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Ostersetzer-Biran, Oren, and Jeffrey Mower. Novel strategies to induce male sterility and restore fertility in Brassicaceae crops. United States Department of Agriculture, 2016. http://dx.doi.org/10.32747/2016.7604267.bard.

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Abstract Mitochondria are the site of respiration and numerous other metabolic processes required for plant growth and development. Increased demands for metabolic energy are observed during different stages in the plants life cycle, but are particularly ample during germination and reproductive organ development. These activities are dependent upon the tight regulation of the expression and accumulation of various organellar proteins. Plant mitochondria contain their own genomes (mtDNA), which encode for rRNAs, tRNAs and some mitochondrial proteins. Although all mitochondria have probably evo

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