Mechanisms of transcription-coupled DNA repair

Cited by (378)

Items 201–300 of 378

1. Nucleotide excision repair in chromatin: The shape of things to come
   Simon Huw Reed · 2005 · DNA repair
2. Spontaneous mutation rates come into focus in Escherichia coli
   Ashley B. Williams · 2014 · DNA repair
3. Assembly of the Elongin A Ubiquitin Ligase Is Regulated by Genotoxic and Other Stresses
   Juston C. Weems, Brian D. Slaughter, Jay R. Unruh, Shawn M. Hall, Merry B. McLaird, Joshua M. Gilmore, Michael P. Washburn, Laurence A. Florens, Takashi Yasukawa, Teijiro Aso et al. · 2015 · Journal of Biological Chemistry
4. CKN1 (MIM 216400): mutations in Cockayne syndrome type A and a new common polymorphism
   Henian Cao, Christina Williams, Monica Carter, Robert Alexander Hegele · 2003 · Journal of Human Genetics
5. Transcription stress at telomeres leads to cytosolic DNA release and paracrine senescence
   Athanasios Siametis, Kalliopi Stratigi, Despoina Giamaki, Georgia Chatzinikolaou, Alexia Akalestou-Clocher, Evi Goulielmaki, Brian Luke, Björn Schumacher, George A. Garinis · 2024 · Nature Communications
6. The mutagenic potential of a single DNA double-strand break in a mammalian chromosome is not influenced by transcription
   Chris Allen · 2003 · DNA repair
7. Review of Cisplatin and Oxaliplatin in Current Immunogenic and Monoclonal Antibodies Perspective
   Rao Khalid Mehmood · 2014 · World Journal of Oncology
8. Nucleotide Excision Repair and Transcription-coupled DNA Repair Abrogate the Impact of DNA Damage on Transcription
   Aditi Nadkarni, John A. Burns, Alberto Gandolfi, Moinuddin A. Chowdhury, Laura Cartularo, Christian Berens, Nicholas E. Geacintov, David A. Scicchitano · 2015 · Journal of Biological Chemistry
9. Homologous recombination is involved in transcription‐coupled repair of UV damage in Saccharomyces cerevisiae
   Abdelilah Aboussekhra, Ibtehaj S Al-Sharif · 2005 · The EMBO Journal
10. Multiple roles of ubiquitination in the control of nucleotide excision repair
    Thierry P. Nouspikel · 2011 · Mechanisms of Ageing and Development
11. The evolution of transcription-associated biases of mutations across vertebrates
    Paz P Polak, Robert Querfurth, Peter F. Arndt · 2010 · BMC Evolutionary Biology
12. Wavelet-based method to disentangle transcription- and replication-associated strand asymmetries in mammalian genomes
    Antoine Baker, Samuel Nicolay, Lamia Zaghloul, Yves d’Aubenton-Carafa, Claude Thermes, Benjamin Audit, A. Arnéodo · 2009 · Applied and Computational Harmonic Analysis
13. The Transcript-Centric Mutations in Human Genomes
    Peng Cui, Qiang Lin, Feng Hua Ding, Songnian Hu, Jun Myoung Yu · 2012 · Genomics Proteomics & Bioinformatics
14. Lack of Strand-specific Repair of UV-induced DNA Lesions in Three Genes of the Archaeon Sulfolobus solfataricus
    Vincenza Romano, Alessandra Napoli, Vincenzo Salerno, Anna Valenti, Mosé Rossi, Maria Ciaramella · 2006 · Journal of Molecular Biology
15. The current evidence for defective repair of oxidatively damaged DNA in Cockayne syndrome
    Guido Fròsina · 2007 · Free Radical Biology and Medicine
16. Schizosaccharomyces pombe Ddb1 Recruits Substrate-Specific Adaptor Proteins through a Novel Protein Motif, the DDB-Box
    Yasunori Fukumoto, Naoshi Dohmae, Fumio Hanaoka · 2008 · Molecular and Cellular Biology
17. RecA-Mediated, Targeted Mutagenesis in Zebrafish
    Zongbin Cui, Ying Yang, Christopher D. Kaufman, Dritan Agalliu, Perry B. Hackett · 2003 · Marine Biotechnology
18. Transcription Arrest at a Lesion in the Transcribed DNA Strand in Vitro Is Not Affected by a Nearby Lesion in the Opposite Strand
    Virginia S. Kalogeraki, Silvia Tornaletti, Philip C. Hanawalt · 2003 · Journal of Biological Chemistry
19. Effects of DNA lesions on the transcription reaction of mitochondrial RNA polymerase: implications for bypass RNA synthesis on oxidative DNA lesions
    Nozomi Nakanishi, Atsushi Fukuoh, Dongchon Kang, Shigenori Iwai, Isao Kuraoka · 2012 · Mutagenesis
20. Distinct Properties of Hexameric but Functionally Conserved Mycobacterium tuberculosis Transcription-Repair Coupling Factor
    Swayam Prabha, Desirazu Narasimha Rao, Valakunja Nagaraja · 2011 · PLoS ONE
21. Roles for Gcn5p and Ada2p in transcription and nucleotide excision repair at the Saccharomyces cerevisiae MET16 gene
    José Antonio Ferreiro · 2006 · Nucleic Acids Research
22. Light‐dependent mutagenesis by benzo[a]pyrene is mediated via oxidative DNA damage
    Su-Ryang Kim, Kiyoko Kokubo, Keiko Matsui, Noriyo Yamada, Yusuke Kanke, Masamichi Fukuoka, Masami Yamada, Takehiko Nohmi · 2005 · Environmental and Molecular Mutagenesis
23. A Role for Checkpoint Kinase-Dependent Rad26 Phosphorylation in Transcription-Coupled DNA Repair in <i>Saccharomyces cerevisiae</i>
    Taschner, Michael, Harreman, Michelle, Teng, Yumin, Gill, Hefin, Anindya, Roy, Maslen, Sarah L., Skehel, J. Mark, Waters, Raymond, Svejstrup, Jesper Q. · 2010 · Molecular and Cellular Biology
24. cAMP-mediated regulation of melanocyte genomic instability: A melanoma-preventive strategy
    Nathaniel Holcomb, Robert‐Marlo Bautista, Stuart Gordon Jarrett, Katharine Marie Carter, Madeline Krentz, John August D'Orazio · 2018 · Advances in protein chemistry and structural biology
25. USP7-mediated deubiquitination differentially regulates CSB but not UVSSA upon UV radiation-induced DNA damage
    Qianzheng Zhu, Nan Ding, Shengcai Wei, Ping Li, Gulzar Wani, Jinshan He, Altaf A. Wani · 2019 · Cell Cycle
26. Efficient repair of bleomycin-induced double-strand breaks in barley ribosomal genes
    Vasilissa I. Manova, Kostadin Gecheff, L. Stoilov · 2006 · Mutation research. Fundamental and molecular mechanisms of mutagenesis
27. Functional interplay between Mediator and RNA polymerase II in Rad2/XPG loading to the chromatin
    Adrien B. Georges, Diyavarshini Gopaul, Cyril Denby Wilkes, Nathalie Giordanengo Aiach, Elizaveta Novikova, Marie‐Bénédicte Barrault, Olivier Alibert, Julie Soutourina · 2019 · Nucleic Acids Research
28. Timely upstream events regulating nucleotide excision repair by ubiquitin-proteasome system: ubiquitin guides the way
    Anil K. Chauhan, Yingming Sun, Qianzheng Zhu, Altaf A. Wani · 2021 · DNA repair
29. Abnormalities of DNA repair mechanisms in common hematological malignancies
    Panagiota Economopoulou, Vasiliki Pappa, Sotirios G. Papageorgiou, John Dervenoulas, Theofanis Economopoulos · 2011 · Leukemia & lymphoma/Leukemia and lymphoma
30. Isolation and Molecular Evolution of the Selenocysteine tRNA (Cf TRSP) and RNase P RNA (Cf RPPH1) Genes in the Dog Family, Canidae
    Carolyne Bardeleben, Rachael L. Moore, Robert K. Wayne · 2004 · Molecular Biology and Evolution
31. Association of purine asymmetry, strand-biased gene distribution and PolC within Firmicutes and beyond: a new appraisal
    Sanjoy Kumar Saha, Aranyak Goswami, Chitra Dutta · 2014 · BMC Genomics
32. Cockayne Syndrome: Varied Requirement of Transcription-Coupled Nucleotide Excision Repair for the Removal of Three Structurally Different Adducts from Transcribed DNA
    Nataliya Kitsera, Karola L. Gasteiger, Bork Lühnsdorf, Julia Allgayer, Bernd Epe, Thomas Carell, Andriy Khobta · 2014 · PLoS ONE
33. Decreased expression of germinal center–associated nuclear protein is involved in chromosomal instability in malignant gliomas
    Kazutaka Ohta, K. Kuwahara, Zhenhuan Zhang, Keishi Makino, Yoshihiro Komohara, Hideo Nakamura, Jun‐ichi Kuratsu, Nobuo Sakaguchi · 2009 · Cancer Science
34. Linking the DNA strand asymmetry to the spatio-temporal replication program
    Antoine Baker, Hanna Julienne, Chun-Long Chen, Benjamin Audit, Yves d’Aubenton-Carafa, Claude Thermes, A. Arnéodo · 2012 · The European Physical Journal E
35. A Novel Mutation in ERCC8 Gene Causing Cockayne Syndrome
    Maryam Taghdiri, Hassan Dastsooz, Majid Fardaei, Sanaz Mohammadi, Mohammad Ali Farazi Fard, Mohammad Ali Faghihi · 2017 · Frontiers in Pediatrics
36. Transcription of a Donor Enhances Its Use during Double-Strand Break-Induced Gene Conversion in Human Cells
    Ezra Schildkraut, Cheryl A. Miller, Jac A. Nickoloff · 2006 · Molecular and Cellular Biology
37. Molecular basis of chromatin remodeling by Rhp26, a yeast CSB ortholog
    Wei Wang, Jun Xu, Oliver Limbo, Jia Fei, George A. Kassavetis, Jenny P C Chong, James T. Kadonaga, Paul R. Russell, Bing Li, Dong Wang · 2019 · Proceedings of the National Academy of Sciences
38. Nucleotide excision repair genes shaping embryonic development
    Sofia Jorge Araújo, Isao Kuraoka · 2019 · Open Biology
39. Construction and purification of site-specifically modified DNA templates for transcription assays
    Rebecca A. Perlow · 2003 · Nucleic Acids Research
40. Transcription-Dependent Polyubiquitination of RNA Polymerase II Requires Lysine 63 of Ubiquitin
    Keng Boon Lee, Phillip A. Sharp · 2004 · Biochemistry
41. DNA polymerase ε associates with the elongating form of RNA polymerase II and nascent transcripts
    Anna K. Rytkönen, Tomi Hillukkala, Markku Vaara, Miiko Sokka, Maarit Jokela, Raija T. Sormunen, Heinz‐Peter Nasheuer, Tamar Nethanel, Gabriel Kaufmann, Helmut Pospiech et al. · 2006 · FEBS Journal
42. SnapShot: Nucleotide Excision Repair
    Caixia Guo, Tie-Shan Tang, Errol C. Friedberg · 2010 · Cell
43. A Molecular Basis for Damage Recognition in Eukaryotic Nucleotide Excision Repair
    Orlando D. Schärer · 2007 · ChemBioChem
44. Comparative insight into nucleotide excision repair components of Plasmodium falciparum
    Leila Tajedin, Masroor Anwar, Dinesh Kumar Gupta, Renu Tuteja · 2015 · DNA repair
45. Methods to Study Transcription-Coupled Repair in Chromatin
    Hélène Gaillard, Ralf Erik Wellinger, Andrés Aguilera · 2009 · Methods in molecular biology
46. Binding of Zinc Finger Protein Transcription Factor IIIA to Its Cognate DNA Sequence with Single UV Photoproducts at Specific Sites and Its Effect on DNA Repair
    Youngho Kwon, Michael J. Smerdon · 2003 · Journal of Biological Chemistry
47. Conservation of Neutral Substitution Rate and Substitutional Asymmetries in Mammalian Genes
    Carina F. Mugal, Jochen B. W. Wolf, H. H. von Grünberg, Hans Ellegren · 2010 · Genome Biology and Evolution
48. Effects of DNA Lesions on Transcription Elongation by RNA Polymerases
    Isao Kuraoka · 2008 · Genes and Environment
49. Transcription coupled nucleotide excision repair in Escherichia coli can be affected by changing the arginine at position 529 of the β subunit of RNA polymerase
    Ann K. Ganesan, Abigail J. Smith, Nigel J. Savery, Portia Zamos, Philip C. Hanawalt · 2007 · DNA repair
50. Nucleotide Excision Repair in Cellular Chromatin: Studies with Yeast from Nucleotide to Gene to Genome
    Raymond Waters, Katie Ellen Evans, Mark Bennett, Shirong Yu, Simon Huw Reed · 2012 · International Journal of Molecular Sciences
51. Global genome removal of thymine glycol in Escherichia coli requires endonuclease III but the persistence of processed repair intermediates rather than thymine glycol correlates with cellular sensitivity to high doses of hydrogen peroxide
    Mohammad A. Alanazi · 2002 · Nucleic Acids Research
52. UV-induced de novo protein synthesis enhances nucleotide excision repair efficiency in a transcription-dependent manner in S. cerevisiae
    Al-Moghrabi, Nisreen M, Al-Sharif, Ibtehaj S, Aboussekhra, Abdelilah · 2003 · DNA Repair
53. Evidence that Natural Selection is the Primary Cause of the Guanine‐cytosine Content Variation in Rice Genes
    Xiaoli Shi, Xiyin Wang, Zhe Li, Qihui Zhu, Ji Young Yang, Song Ge, Jingchu Luo · 2007 · Journal of Integrative Plant Biology
54. Protein Coevolution and Isoexpression in Yeast Macromolecular Complexes
    Laurence M. Ettwiller, Reiner A. Veitia · 2007 · Comparative and Functional Genomics
55. The Involvement of Mismatch Repair in Transcription Coupled Nucleotide Excision Repair
    Katsutoshi Kobayashi, Peter Karran, Shinya Oda, Katsuhiko K. Yanaga · 2008 · Human Cell
56. Modulation of Cytotoxicity by Transcription-Coupled Nucleotide Excision Repair Is Independent of the Requirement for Bioactivation of Acylfulvene
    Claudia Otto, Graciela Spivak, Claudia M. N. Aloisi, Mirco Menigatti, Hanspeter Naegeli, Philip C. Hanawalt, Marina Tanasova, Shana J. Sturla · 2017 · Chemical Research in Toxicology
57. Machine Learning Techniques for Classifying the Mutagenic Origins of Point Mutations
    Yicheng Zhu, Cheng Soon Ong, Gavin A. Huttley · 2020 · Genetics
58. Tfb5 is partially dispensable for Rad26 mediated transcription coupled nucleotide excision repair in yeast
    Baojin Ding, Christine Ruggiero, Xuefeng Chen, Shisheng Li · 2007 · DNA repair
59. 8-Oxoguanine DNA Glycosylase (OGG1) Cys326 Variant: Increased Risk for Worse Outcome of Patients with Locally Advanced Rectal Cancer after Multimodal Therapy
    Martin Leu, Theresa Riebeling, Leif H. Dröge, Laura Hubert, Manuel Guhlich, Hendrik A. Wolff, Jürgen Brockmöller, Jochen Gaedcke, Stefan Rieken, Markus Schirmer · 2021 · Cancers
60. Nucleotide Excision Repair in S. cerevisiae
    Danielle M. Tatum, Shisheng Li · 2011 · InTech eBooks
61. The XPD subunit of TFIIH is required for transcription-associated but not DNA double-strand break-induced recombination in mammalian cells
    L. Savolainen, Tobias N. Cassel, Thomas Helleday · 2010 · Mutagenesis
62. A method for detecting genetic toxicity using the RNA synthesis response to DNA damage
    Yoko Morita, Shigenori Iwai, Isao Kuraoka · 2011 · The Journal of Toxicological Sciences
63. Subtelomeric Regions Promote Evolutionary Innovation of Gene Families in Yeast
    Tim Snoek, Karin Voordeckers, Kevin J. Verstrepen · 2013 · Springer eBooks
64. Tissue-Predisposition to Cancer Driver Mutations
    Luriano Peters, Avanthika Venkatachalam, Yinon Ben‐Neriah · 2024 · Cells
65. Transcription-Associated Compositional Skews in Drosophila Genes
    Juraj Bergman, Andrea J. Betancourt, Claus Vogl · 2017 · Genome Biology and Evolution
66. Base Pair Opening in a Deoxynucleotide Duplex Containing a cis-syn Thymine Cyclobutane Dimer Lesion
    Belinda B. Wenke, Leah N. Huiting, Elisa B. Frankel, Benjamin F. Lane, Megan E. Núñez · 2013 · Biochemistry
67. A non-isotopic assay uses bromouridine and RNA synthesis to detect DNA damage responses
    Mayu Hasegawa, Shigenori Iwai, Isao Kuraoka · 2010 · Mutation Research/Genetic Toxicology and Environmental Mutagenesis
68. Targeting DNA damage response: Threshold, chromatin landscape and beyond
    Stefania Gonfloni · 2013 · Pharmacology & Therapeutics
69. An in vitro method for detecting genetic toxicity based on inhibition of RNA synthesis by DNA lesions
    Yuina Sonohara, Shigenori Iwai, Isao Kuraoka · 2015 · Genes and Environment
70. Low-level illegitimate transcription of genes may be to silence the genes
    Deng‐Ke Niu · 2005 · Biochemical and Biophysical Research Communications
71. Rad26, the Transcription-Coupled Repair Factor in Yeast, Is Required for Removal of Stalled RNA Polymerase-II following UV Irradiation
    Sounak Ghosh Roy, Dhiman Das, Debarati Chowdhury, Michael J. Smerdon, Ronita Nag Chaudhuri · 2013 · PLoS ONE
72. Hepatitis B virus X protein does not influence essential steps of nucleotide excision repair effected by human liver extracts
    Alexio Capovilla, Patrick B. Arbuthnot · 2003 · Biochemical and Biophysical Research Communications
73. The genome-wide landscape of small insertion and deletion mutations in Monopterus albus
    Feng Chen, Fengling Lai, Majing Luo, Yu‐San Han, Hanhua Cheng, Rongjia Zhou · 2019 · Journal of genetics and genomics/Journal of Genetics and Genomics
74. Chromatin-Associated Periodicity in Genetic Variation Downstream of Transcriptional Start Sites
    Shin Sasaki, Cecilia C. Mello, Atsuko Shimada, Yoichiro Nakatani, Shinichi Hashimoto, Masako Ogawa, Kouji Matsushima, Sam Guoping Gu, Masahiro Kasahara, Budrul Ahsan et al. · 2011 · Springer eBooks
75. 17β-Estradiol alters oxidative damage and oxidative stress response protein expression in the mouse mammary gland
    Lisi Yuan, Alicia K. Dietrich, Yvonne Ziegler, Ann M. Nardulli · 2016 · Molecular and Cellular Endocrinology
76. Genetic instability associated with loop or stem–loop structures within transcription units can be independent of nucleotide excision repair
    John A. Burns, Moinuddin A. Chowdhury, Laura Cartularo, Christian Berens, David A. Scicchitano · 2018 · Nucleic Acids Research
77. Intronic AT Skew is a Defendable Proxy for Germline Transcription but does not Predict Crossing-Over or Protein Evolution Rates in Drosophila melanogaster
    Claudia C. Weber, Laurence D. Hurst · 2010 · Journal of Molecular Evolution
78. Unifying concept of DNA repair: The polymerase scanning hypothesis
    John A. Heddle, Jason H. Bielas · 2005 · Environmental and Molecular Mutagenesis
79. The RAD9-dependent gene trans-activation is required for excision repair of active genes but not for repair of non-transcribed DNA
    Al-Moghrabi, Nisreen M., Al-Sharif, Ibtehaj S., Aboussekhra, Abdelilah · 2009 · Mutation Research - Fundamental and Molecular Mechanisms of Mutagenesis
80. How Do Yeast and Other Fungi Recognize and Respond to Genome Perturbations?
    Adrianna Skoneczna, Kamil Król, Marek Skoneczny · 2018 · Springer eBooks
81. Whole exome sequencing identifies a novel variant causing cockayne syndrome type I in a consanguineous Pakistani family
    Shumaila Zulfiqar, Abubakar Moawia, Syeda Seema Waseem, Zafar Ali, Shafaq Ramzan, Iram Anjum, Shahid Mahmood Baig, Muhammad Tariq · 2022 · International Journal of Neuroscience
82. Strand‐biased gene distribution, purine assymetry and environmental factors influence protein evolution in Bacillus
    Aranyak Goswami, Anindya Roy Chowdhury, Munmun Sarkar, Sanjoy Kumar Saha, Sandip Paul, Chitra Dutta · 2015 · FEBS Letters
83. Chromatin Dynamics and DNA Repair
    P. Agarwal, Kyle M. Miller · 2016 · Elsevier eBooks
84. DNA damage repair and transcription
    Assam El‐Osta · 2004 · Cellular and Molecular Life Sciences
85. Xeroderma Pigmentosum, Cockayne Syndrome, Trichothiodystrophy – Defects in DNA Repair and Carcinogenesis
    Steffen Emmert · 2008 · Wiley eBooks
86. Associations between nucleosome phasing, sequence asymmetry, and tissue-specific expression in a set of inbred Medaka species
    Yoichiro Nakatani, Cecilia C. Mello, Shinichi Hashimoto, Atsuko Shimada, Ryohei Nakamura, Tatsuya Tsukahara, Wei Qü, Jun Yoshimura, Yutaka Suzuki, Sumio Sugano et al. · 2015 · BMC Genomics
87. The role of Mfd in Mycobacterium tuberculosis physiology and underlying regulatory network
    Shuang Han, Zhen Hui Gong, Tian Liang, Yu Chen, Jianping Xie · 2021 · Microbiological Research
88. A panorama of transcription-coupled repair in yeast chromatin
    Dong Wang · 2020 · Proceedings of the National Academy of Sciences
89. RNAPII Degradation Factor Def1 Is Required for Development, Stress Response, and Full Virulence of Magnaporthe oryzae
    Xinrong Zhang, Dong Li, Jun Zhu, Jing Zheng, Hongye Li, Qixuan He, Jun Peng, Shen Chen, Xiaolin Chen, Weixiang Wang · 2023 · Journal of Fungi
90. Molecular biology of sarcomas: update-the cell cycle paradigm
    Robert Lor Randall, Stephen L. Lessnick, Brian Johnson, David E. Joyner · 2004 · Current Opinion in Orthopedics
91. Nucleotide excision repair in higher eukaryotes: Mechanism of primary damage recognition
    Nadejda I. Rechkunova, Ekaterina A. Maltseva, Olga I. Lavrik · 2008 · Molecular Biology
92. DNA repair and malignant hematopoiesis
    Lieneke R. van Veelen, Roland Kanaar, Dik C. van Gent · 2004 · CRC Press eBooks
93. Fractals and Wavelets: What Can We Learn on Transcription and Replication from Wavelet-Based Multifractal Analysis of DNA Sequences?
    A. Arnéodo, Benjamin Audit, E. Brodie, Samuel Nicolay, Marie Touchon, Yves d’Aubenton-Carafa, Maxime Huvet, Claude Thermes · 2009 · Springer eBooks
94. Method for assessment of nucleotide excision repair system efficiency ex vivo
    Aleksei A. Popov, Кonstantin E. Orishchenko, Konstantin N. Naumenko, A. N. Evdokimov, Irina O. Petruseva, Olga I. Lavrik · 2021 · Acta Naturae
95. Self-complementary sequences induce the formation of double-stranded filamentous phages
    Yanet Prieto, Oliberto Sánchez · 2007 · Biochimica et Biophysica Acta (BBA) - General Subjects
96. In Silico Construction of a Protein Interaction Landscape for Nucleotide Excision Repair
    Nancy Tran, Ping-Ping Qu, Dennis A. Simpson, Laura A. Lindsey‐Boltz, Xiaojun Guan, Charles Schmitt, Joseph G. Ibrahim, William K. Kaufmann · 2009 · Cell Biochemistry and Biophysics
97. Avaliação do dano radioinduzido, capacidade de reparo e morte cecular em células humanas tumorais (T-47D e MCF-7) e não tumorais (MCF-10) de mama
    Flávia Gomes Silva Valgôde · 2008
98. Molecular Mechanisms of Asbestos- and Silica-Induced Lung Cancer
    Fei Chen, Val Vallyathan · 2004 · CRC series in modern nutrition science
99. Characterization of the multifunctional XPG protein during Nucleotide-excision-repair
    Steffen Schubert · 2014
100. Transcription-Coupled DNA Repair, Overview
     Isabel Mellon · 2004 · Elsevier eBooks