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Frederic Chedin

Title(s)Professor, Molecular And Cellular Biology
SchoolUniversity of California, Davis
Phone530-752-1800
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    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help.
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    1. Chedin F, Benham CJ. Emerging roles for R-loop structures in the management of topological stress. J Biol Chem. 2020 02 27. PMID: 32107311.
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    2. Malig M, Hartono SR, Giafaglione JM, Sanz LA, Chedin F. Ultra-Deep Coverage Single-Molecule R-loop Footprinting Reveals Principles of R-loop Formation. J Mol Biol. 2020 Feb 24. PMID: 32105733.
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    3. Jasoliya M, Sacca F, Sahdeo S, Chedin F, Pane C, Brescia Morra V, Filla A, Pook M, Cortopassi G. Dimethyl fumarate dosing in humans increases frataxin expression: A potential therapy for Friedreich's Ataxia. PLoS One. 2019; 14(6):e0217776. PMID: 31158268.
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    4. Sanz LA, Chédin F. High-resolution, strand-specific R-loop mapping via S9.6-based DNA-RNA immunoprecipitation and high-throughput sequencing. Nat Protoc. 2019 06; 14(6):1734-1755. PMID: 31053798.
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    5. Stolz R, Sulthana S, Hartono SR, Malig M, Benham CJ, Chedin F. Interplay between DNA sequence and negative superhelicity drives R-loop structures. Proc Natl Acad Sci U S A. 2019 03 26; 116(13):6260-6269. PMID: 30850542.
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    6. Manzo SG, Hartono SR, Sanz LA, Marinello J, De Biasi S, Cossarizza A, Capranico G, Chedin F. DNA Topoisomerase I differentially modulates R-loops across the human genome. Genome Biol. 2018 07 30; 19(1):100. PMID: 30060749.
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    7. Zhang X, Chiang HC, Wang Y, Zhang C, Smith S, Zhao X, Nair SJ, Michalek J, Jatoi I, Lautner M, Oliver B, Wang H, Petit A, Soler T, Brunet J, Mateo F, Angel Pujana M, Poggi E, Chaldekas K, Isaacs C, Peshkin BN, Ochoa O, Chedin F, Theoharis C, Sun LZ, Curiel TJ, Elledge R, Jin VX, Hu Y, Li R. Author Correction: Attenuation of RNA polymerase II pausing mitigates BRCA1-associated R-loop accumulation and tumorigenesis. Nat Commun. 2018 03 30; 9:16211. PMID: 29600804.
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    8. Hartono SR, Malapert A, Legros P, Bernard P, Chédin F, Vanoosthuyse V. The Affinity of the S9.6 Antibody for Double-Stranded RNAs Impacts the Accurate Mapping of R-Loops in Fission Yeast. J Mol Biol. 2018 02 02; 430(3):272-284. PMID: 29289567.
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    9. Chédin F. Hybrids in the chromatin. Nat Plants. 2017 09; 3(9):692-693. PMID: 28848239.
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    10. Zhang X, Chiang HC, Wang Y, Zhang C, Smith S, Zhao X, Nair SJ, Michalek J, Jatoi I, Lautner M, Oliver B, Wang H, Petit A, Soler T, Brunet J, Mateo F, Angel Pujana M, Poggi E, Chaldekas K, Isaacs C, Peshkin BN, Ochoa O, Chedin F, Theoharis C, Sun LZ, Curiel TJ, Elledge R, Jin VX, Hu Y, Li R. Attenuation of RNA polymerase II pausing mitigates BRCA1-associated R-loop accumulation and tumorigenesis. Nat Commun. 2017 06 26; 8:15908. PMID: 28649985.
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    11. Sagie S, Toubiana S, Hartono SR, Katzir H, Tzur-Gilat A, Havazelet S, Francastel C, Velasco G, Chédin F, Selig S. Telomeres in ICF syndrome cells are vulnerable to DNA damage due to elevated DNA:RNA hybrids. Nat Commun. 2017 01 24; 8:14015. PMID: 28117327.
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    12. Chédin F. Nascent Connections: R-Loops and Chromatin Patterning. Trends Genet. 2016 12; 32(12):828-838. PMID: 27793359.
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    13. Stork CT, Bocek M, Crossley MP, Sollier J, Sanz LA, Chédin F, Swigut T, Cimprich KA. Co-transcriptional R-loops are the main cause of estrogen-induced DNA damage. Elife. 2016 08 23; 5. PMID: 27552054.
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    14. Sanz LA, Hartono SR, Lim YW, Steyaert S, Rajpurkar A, Ginno PA, Xu X, Chédin F. Prevalent, Dynamic, and Conserved R-Loop Structures Associate with Specific Epigenomic Signatures in Mammals. Mol Cell. 2016 07 07; 63(1):167-78. PMID: 27373332.
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    15. Anderson JD, Johansson HJ, Graham CS, Vesterlund M, Pham MT, Bramlett CS, Montgomery EN, Mellema MS, Bardini RL, Contreras Z, Hoon M, Bauer G, Fink KD, Fury B, Hendrix KJ, Chedin F, El-Andaloussi S, Hwang B, Mulligan MS, Lehtiö J, Nolta JA. Comprehensive Proteomic Analysis of Mesenchymal Stem Cell Exosomes Reveals Modulation of Angiogenesis via Nuclear Factor-KappaB Signaling. Stem Cells. 2016 Mar; 34(3):601-13. PMID: 26782178.
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    16. Hartono SR, Korf IF, Chédin F. GC skew is a conserved property of unmethylated CpG island promoters across vertebrates. Nucleic Acids Res. 2015 Nov 16; 43(20):9729-41. PMID: 26253743.
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    17. Lim YW, Sanz LA, Xu X, Hartono SR, Chédin F. Genome-wide DNA hypomethylation and RNA:DNA hybrid accumulation in Aicardi-Goutières syndrome. Elife. 2015 Jul 16; 4. PMID: 26182405.
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    18. Hui-Min Chen, Frederic L. Chedin, Christopher Chang, Patrick S.C. Leung. Chapter 19 Targeting Epigenetics in the Development of New Diagnostic Applications—Lessons from Autoimmune Diseases. 2015 Jan 1; 409-441.
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    19. Loomis EW, Sanz LA, Chédin F, Hagerman PJ. Transcription-associated R-loop formation across the human FMR1 CGG-repeat region. PLoS Genet. 2014 Apr; 10(4):e1004294. PMID: 24743386.
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    20. Yang Y, McBride KM, Hensley S, Lu Y, Chedin F, Bedford MT. Arginine methylation facilitates the recruitment of TOP3B to chromatin to prevent R loop accumulation. Mol Cell. 2014 Feb 06; 53(3):484-97. PMID: 24507716.
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    21. Fagan RL, Wu M, Chédin F, Brenner C. An ultrasensitive high throughput screen for DNA methyltransferase 1-targeted molecular probes. PLoS One. 2013; 8(11):e78752. PMID: 24236046.
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    22. Powell WT, Coulson RL, Gonzales ML, Crary FK, Wong SS, Adams S, Ach RA, Tsang P, Yamada NA, Yasui DH, Chédin F, LaSalle JM. R-loop formation at Snord116 mediates topotecan inhibition of Ube3a-antisense and allele-specific chromatin decondensation. Proc Natl Acad Sci U S A. 2013 Aug 20; 110(34):13938-43. PMID: 23918391.
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    23. Gordon CA, Hartono SR, Chédin F. Inactive DNMT3B splice variants modulate de novo DNA methylation. PLoS One. 2013; 8(7):e69486. PMID: 23894490.
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    24. Ginno PA, Lim YW, Lott PL, Korf I, Chédin F. GC skew at the 5' and 3' ends of human genes links R-loop formation to epigenetic regulation and transcription termination. Genome Res. 2013 Oct; 23(10):1590-600. PMID: 23868195.
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    25. Ginno PA, Lott PL, Christensen HC, Korf I, Chédin F. R-loop formation is a distinctive characteristic of unmethylated human CpG island promoters. Mol Cell. 2012 Mar 30; 45(6):814-25. PMID: 22387027.
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    26. Moarefi AH, Chédin F. ICF syndrome mutations cause a broad spectrum of biochemical defects in DNMT3B-mediated de novo DNA methylation. J Mol Biol. 2011 Jun 24; 409(5):758-72. PMID: 21549127.
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    27. Nady N, Lemak A, Walker JR, Avvakumov GV, Kareta MS, Achour M, Xue S, Duan S, Allali-Hassani A, Zuo X, Wang YX, Bronner C, Chédin F, Arrowsmith CH, Dhe-Paganon S. Recognition of multivalent histone states associated with heterochromatin by UHRF1 protein. J Biol Chem. 2011 Jul 08; 286(27):24300-11. PMID: 21489993.
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    28. Chédin F. The DNMT3 family of mammalian de novo DNA methyltransferases. Prog Mol Biol Transl Sci. 2011; 101:255-85. PMID: 21507354.
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    29. Wienholz BL, Kareta MS, Moarefi AH, Gordon CA, Ginno PA, Chédin F. DNMT3L modulates significant and distinct flanking sequence preference for DNA methylation by DNMT3A and DNMT3B in vivo. PLoS Genet. 2010 Sep 09; 6(9):e1001106. PMID: 20838592.
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    30. El-Maarri O, Kareta MS, Mikeska T, Becker T, Diaz-Lacava A, Junen J, Nüsgen N, Behne F, Wienker T, Waha A, Oldenburg J, Chédin F. A systematic search for DNA methyltransferase polymorphisms reveals a rare DNMT3L variant associated with subtelomeric hypomethylation. Hum Mol Genet. 2009 May 15; 18(10):1755-68. PMID: 19246518.
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    31. Nady N, Min J, Kareta MS, Chédin F, Arrowsmith CH. A SPOT on the chromatin landscape? Histone peptide arrays as a tool for epigenetic research. Trends Biochem Sci. 2008 Jul; 33(7):305-13. PMID: 18538573.
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    32. Kareta MS, Botello ZM, Ennis JJ, Chou C, Chédin F. Reconstitution and mechanism of the stimulation of de novo methylation by human DNMT3L. J Biol Chem. 2006 Sep 08; 281(36):25893-902. PMID: 16829525.
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    33. Chédin F, Handa N, Dillingham MS, Kowalczykowski SC. The AddAB helicase/nuclease forms a stable complex with its cognate chi sequence during translocation. J Biol Chem. 2006 Jul 07; 281(27):18610-7. PMID: 16632468.
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    34. Chen ZX, Mann JR, Hsieh CL, Riggs AD, Chédin F. Physical and functional interactions between the human DNMT3L protein and members of the de novo methyltransferase family. J Cell Biochem. 2005 Aug 01; 95(5):902-17. PMID: 15861382.
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    35. Yu K, Chedin F, Hsieh CL, Wilson TE, Lieber MR. R-loops at immunoglobulin class switch regions in the chromosomes of stimulated B cells. Nat Immunol. 2003 May; 4(5):442-51. PMID: 12679812.
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    36. Chedin F, Lieber MR, Hsieh CL. The DNA methyltransferase-like protein DNMT3L stimulates de novo methylation by Dnmt3a. Proc Natl Acad Sci U S A. 2002 Dec 24; 99(26):16916-21. PMID: 12481029.
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    37. Chédin F, Kowalczykowski SC. A novel family of regulated helicases/nucleases from Gram-positive bacteria: insights into the initiation of DNA recombination. Mol Microbiol. 2002 Feb; 43(4):823-34. PMID: 11929535.
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    38. Chédin F, Ehrlich SD, Kowalczykowski SC. The Bacillus subtilis AddAB helicase/nuclease is regulated by its cognate Chi sequence in vitro. J Mol Biol. 2000 Apr 21; 298(1):7-20. PMID: 10756102.
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    39. Chédin F, Noirot P, Biaudet V, Ehrlich SD. A five-nucleotide sequence protects DNA from exonucleolytic degradation by AddAB, the RecBCD analogue of Bacillus subtilis. Mol Microbiol. 1998 Sep; 29(6):1369-77. PMID: 9781875.
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    40. Pujol C, Chédin F, Ehrlich SD, Jannière L. Inhibition of a naturally occurring rolling-circle replicon in derivatives of the theta-replicating plasmid pIP501. Mol Microbiol. 1998 Aug; 29(3):709-18. PMID: 9723911.
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    41. Chédin F, Seitz EM, Kowalczykowski SC. Novel homologs of replication protein A in archaea: implications for the evolution of ssDNA-binding proteins. Trends Biochem Sci. 1998 Aug; 23(8):273-7. PMID: 9757822.
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    42. Tracy RB, Chédin F, Kowalczykowski SC. The recombination hot spot chi is embedded within islands of preferred DNA pairing sequences in the E. coli genome. Cell. 1997 Jul 25; 90(2):205-6. PMID: 9244294.
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    43. Chédin F, Dervyn R, Ehrlich SD, Noirot P. Apparent and real recombination frequencies in multicopy plasmids: the need for a novel approach in frequency determination. J Bacteriol. 1997 Feb; 179(3):754-61. PMID: 9006030.
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    44. Chédin F, Dervyn E, Dervyn R, Ehrlich SD, Noirot P. Frequency of deletion formation decreases exponentially with distance between short direct repeats. Mol Microbiol. 1994 May; 12(4):561-9. PMID: 7934879.
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