{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,11,3]],"date-time":"2026-11-03T05:12:00Z","timestamp":1793682720234,"version":"4.5.1"},"reference-count":47,"publisher":"Springer Science and Business Media LLC","issue":"2","license":[{"start":{"date-parts":[[2026,1,8]],"date-time":"2026-01-08T00:00:00Z","timestamp":1767830400000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.springernature.com\/gp\/researchers\/text-and-data-mining"},{"start":{"date-parts":[[2026,1,8]],"date-time":"2026-01-08T00:00:00Z","timestamp":1767830400000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/www.springernature.com\/gp\/researchers\/text-and-data-mining"}],"content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":["Nat Struct Mol Biol"],"published-print":{"date-parts":[[2026,2]]},"DOI":"10.1038\/s41594-025-01736-w","type":"journal-article","created":{"date-parts":[[2026,1,8]],"date-time":"2026-01-08T10:02:38Z","timestamp":1767866558000},"page":"293-303","update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":4,"title":["Redox-driven ADAR1 activation promotes Okazaki fragment maturation and DNA replication integrity"],"prefix":"10.1038","volume":"33","author":[{"given":"Bin","family":"Chen","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-3942-6175","authenticated-orcid":false,"given":"Guangchao","family":"Sun","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-6646-564X","authenticated-orcid":false,"given":"Jake A.","family":"Kloeber","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Huaping","family":"Xiao","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yaobin","family":"Ouyang","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Fei","family":"Zhao","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ya","family":"Li","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Shilin","family":"Xu","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Sonja","family":"Dragojevic","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0009-0008-2248-0654","authenticated-orcid":false,"given":"Zheming","family":"Wu","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Shouhai","family":"Zhu","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yiqun","family":"Han","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ping","family":"Yin","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-5845-7968","authenticated-orcid":false,"given":"Xinyi","family":"Tu","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Hongran","family":"Qin","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Xiang","family":"Zhou","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Kuntian","family":"Luo","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Kevin L.","family":"Peterson","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-5956-0905","authenticated-orcid":false,"given":"Jinzhou","family":"Huang","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Taro","family":"Hitosugi","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Haiming","family":"Dai","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-1987-9775","authenticated-orcid":false,"given":"Min","family":"Deng","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-9430-7323","authenticated-orcid":false,"given":"Robert W.","family":"Mutter","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-1938-3091","authenticated-orcid":false,"given":"Zhenkun","family":"Lou","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"297","published-online":{"date-parts":[[2026,1,8]]},"reference":[{"key":"1736_CR1","doi-asserted-by":"crossref","first-page":"640","DOI":"10.1016\/j.tcb.2016.04.012","volume":"26","author":"SA Lujan","year":"2016","unstructured":"Lujan, S. A., Williams, J. S. & Kunkel, T. A. DNA polymerases divide the labor of genome replication. Trends Cell Biol. 26, 640\u2013654 (2016).","journal-title":"Trends Cell Biol."},{"key":"1736_CR2","doi-asserted-by":"crossref","first-page":"127","DOI":"10.1126\/science.1144067","volume":"317","author":"ZF Pursell","year":"2007","unstructured":"Pursell, Z. F., Isoz, I., Lundstrom, E. B., Johansson, E. & Kunkel, T. A. Yeast DNA polymerase epsilon participates in leading-strand DNA replication. Science 317, 127\u2013130 (2007).","journal-title":"Science"},{"key":"1736_CR3","doi-asserted-by":"crossref","first-page":"651","DOI":"10.1016\/0005-2787(66)90088-8","volume":"129","author":"K Sakabe","year":"1966","unstructured":"Sakabe, K. & Okazaki, R. A unique property of the replicating region of chromosomal DNA. Biochim. Biophys. Acta 129, 651\u2013654 (1966).","journal-title":"Biochim. Biophys. Acta"},{"key":"1736_CR4","doi-asserted-by":"crossref","DOI":"10.1101\/cshperspect.a010173","volume":"5","author":"L Balakrishnan","year":"2013","unstructured":"Balakrishnan, L. & Bambara, R. A. Okazaki fragment metabolism. Cold Spring Harb. Perspect. Biol. 5, a010173 (2013).","journal-title":"Cold Spring Harb. Perspect. Biol."},{"key":"1736_CR5","doi-asserted-by":"crossref","first-page":"1180","DOI":"10.1016\/j.bbapap.2009.06.011","volume":"1804","author":"RD Kuchta","year":"2010","unstructured":"Kuchta, R. D. & Stengel, G. Mechanism and evolution of DNA primases. Biochim. Biophys. Acta 1804, 1180\u20131189 (2010).","journal-title":"Biochim. Biophys. Acta"},{"key":"1736_CR6","doi-asserted-by":"crossref","first-page":"45","DOI":"10.1016\/0022-2836(85)90042-7","volume":"184","author":"T Kitani","year":"1985","unstructured":"Kitani, T., Yoda, K., Ogawa, T. & Okazaki, T. Evidence that discontinuous DNA replication in Escherichia coli is primed by approximately 10 to 12 residues of RNA starting with a purine. J. Mol. Biol. 184, 45\u201352 (1985).","journal-title":"J. Mol. Biol."},{"key":"1736_CR7","doi-asserted-by":"crossref","first-page":"10840","DOI":"10.1016\/S0021-9258(19)85159-1","volume":"260","author":"AM Holmes","year":"1985","unstructured":"Holmes, A. M., Cheriathundam, E., Bollum, F. J. & Chang, L. M. Initiation of DNA synthesis by the calf thymus DNA polymerase\u2013primase complex. J. Biol. Chem. 260, 10840\u201310846 (1985).","journal-title":"J. Biol. Chem."},{"key":"1736_CR8","doi-asserted-by":"crossref","first-page":"4777","DOI":"10.1074\/jbc.M116.758599","volume":"292","author":"B Liu","year":"2017","unstructured":"Liu, B., Hu, J., Wang, J. & Kong, D. Direct visualization of RNA\u2013DNA primer removal from Okazaki fragments provides support for flap cleavage and exonucleolytic pathways in eukaryotic cells. J. Biol. Chem. 292, 4777\u20134788 (2017).","journal-title":"J. Biol. Chem."},{"key":"1736_CR9","doi-asserted-by":"crossref","first-page":"221","DOI":"10.1016\/j.tcb.2022.06.014","volume":"33","author":"H Sun","year":"2023","unstructured":"Sun, H. et al. Okazaki fragment maturation: DNA flap dynamics for cell proliferation and survival. Trends Cell Biol. 33, 221\u2013234 (2023).","journal-title":"Trends Cell Biol."},{"key":"1736_CR10","doi-asserted-by":"crossref","first-page":"1061","DOI":"10.1016\/j.molcel.2023.02.008","volume":"83","author":"C Audoynaud","year":"2023","unstructured":"Audoynaud, C. et al. RNA:DNA hybrids from Okazaki fragments contribute to establish the Ku-mediated barrier to replication-fork degradation. Mol. Cell 83, 1061\u20131074 (2023).","journal-title":"Mol. Cell"},{"key":"1736_CR11","doi-asserted-by":"crossref","first-page":"8361","DOI":"10.1128\/MCB.19.12.8361","volume":"19","author":"J Qiu","year":"1999","unstructured":"Qiu, J., Qian, Y., Frank, P., Wintersberger, U. & Shen, B. Saccharomyces cerevisiae RNase H(35) functions in RNA primer removal during lagging-strand DNA synthesis, most efficiently in cooperation with Rad27 nuclease. Mol. Cell. Biol. 19, 8361\u20138371 (1999).","journal-title":"Mol. Cell. Biol."},{"key":"1736_CR12","doi-asserted-by":"crossref","first-page":"3652","DOI":"10.1093\/nar\/gkq980","volume":"39","author":"D Bubeck","year":"2011","unstructured":"Bubeck, D. et al. PCNA directs type 2 RNase H activity on DNA replication and repair substrates. Nucleic Acids Res. 39, 3652\u20133666 (2011).","journal-title":"Nucleic Acids Res."},{"key":"1736_CR13","doi-asserted-by":"crossref","first-page":"541","DOI":"10.1006\/jmbi.2001.4494","volume":"307","author":"BR Chapados","year":"2001","unstructured":"Chapados, B. R. et al. Structural biochemistry of a type 2 RNase H: RNA primer recognition and removal during DNA replication. J. Mol. Biol. 307, 541\u2013556 (2001).","journal-title":"J. Mol. Biol."},{"key":"1736_CR14","doi-asserted-by":"crossref","DOI":"10.1038\/s41467-021-21921-x","volume":"12","author":"Y Shiromoto","year":"2021","unstructured":"Shiromoto, Y., Sakurai, M., Minakuchi, M., Ariyoshi, K. & Nishikura, K. ADAR1 RNA editing enzyme regulates R-loop formation and genome stability at telomeres in cancer cells. Nat. Commun. 12, 1654 (2021).","journal-title":"Nat. Commun."},{"key":"1736_CR15","doi-asserted-by":"crossref","first-page":"988","DOI":"10.1016\/j.bbrc.2007.03.075","volume":"356","author":"J Hou","year":"2007","unstructured":"Hou, J., Liu, X., Pei, D. & Liu, J. RNase HII from Chlamydia pneumoniae discriminates mismatches incorporation into DNA-rN1\u2013DNA\/DNA duplexes. Biochem. Biophys. Res. Commun. 356, 988\u2013992 (2007).","journal-title":"Biochem. Biophys. Res. Commun."},{"key":"1736_CR16","doi-asserted-by":"crossref","first-page":"3689","DOI":"10.1128\/JB.00268-10","volume":"192","author":"S Le Laz","year":"2010","unstructured":"Le Laz, S., Le Goaziou, A. & Henneke, G. Structure-specific nuclease activities of Pyrococcus abyssi RNase HII. J. Bacteriol. 192, 3689\u20133698 (2010).","journal-title":"J. Bacteriol."},{"key":"1736_CR17","doi-asserted-by":"crossref","DOI":"10.1186\/1472-6750-11-80","volume":"11","author":"JR Dobosy","year":"2011","unstructured":"Dobosy, J. R. et al. RNase H-dependent PCR (rhPCR): improved specificity and single nucleotide polymorphism detection using blocked cleavable primers. BMC Biotechnol. 11, 80 (2011).","journal-title":"BMC Biotechnol."},{"key":"1736_CR18","doi-asserted-by":"crossref","first-page":"473","DOI":"10.1038\/s41576-018-0006-1","volume":"19","author":"E Eisenberg","year":"2018","unstructured":"Eisenberg, E. & Levanon, E. Y. A-to-I RNA editing\u2014immune protector and transcriptome diversifier. Nat. Rev. Genet. 19, 473\u2013490 (2018).","journal-title":"Nat. Rev. Genet."},{"key":"1736_CR19","doi-asserted-by":"crossref","first-page":"909","DOI":"10.1152\/physrev.00026.2013","volume":"94","author":"DB Zorov","year":"2014","unstructured":"Zorov, D. B., Juhaszova, M. & Sollott, S. J. Mitochondrial reactive oxygen species (ROS) and ROS-induced ROS release. Physiol. Rev. 94, 909\u2013950 (2014).","journal-title":"Physiol. Rev."},{"key":"1736_CR20","doi-asserted-by":"crossref","first-page":"207","DOI":"10.1007\/s00726-003-0011-2","volume":"25","author":"ER Stadtman","year":"2003","unstructured":"Stadtman, E. R. & Levine, R. L. Free radical-mediated oxidation of free amino acids and amino acid residues in proteins. Amino Acids 25, 207\u2013218 (2003).","journal-title":"Amino Acids"},{"key":"1736_CR21","doi-asserted-by":"crossref","first-page":"192","DOI":"10.4161\/rna.23208","volume":"10","author":"W Garncarz","year":"2013","unstructured":"Garncarz, W., Tariq, A., Handl, C., Pusch, O. & Jantsch, M. F. A high-throughput screen to identify enhancers of ADAR-mediated RNA-editing. RNA Biol 10, 192\u2013204 (2013).","journal-title":"RNA Biol"},{"key":"1736_CR22","doi-asserted-by":"crossref","DOI":"10.1038\/s41467-021-25790-2","volume":"12","author":"S Jimeno","year":"2021","unstructured":"Jimeno, S. et al. ADAR-mediated RNA editing of DNA:RNA hybrids is required for DNA double strand break repair. Nat. Commun. 12, 5512 (2021).","journal-title":"Nat. Commun."},{"key":"1736_CR23","doi-asserted-by":"crossref","first-page":"7958","DOI":"10.1093\/nar\/gkaa532","volume":"48","author":"AS Thuy-Boun","year":"2020","unstructured":"Thuy-Boun, A. S. et al. Asymmetric dimerization of adenosine deaminase acting on RNA facilitates substrate recognition. Nucleic Acids Res. 48, 7958\u20137972 (2020).","journal-title":"Nucleic Acids Res."},{"key":"1736_CR24","doi-asserted-by":"crossref","first-page":"11668","DOI":"10.1093\/nar\/gkad839","volume":"51","author":"B Zhang","year":"2023","unstructured":"Zhang, B. et al. ADAR1 links R-loop homeostasis to ATR activation in replication stress response. Nucleic Acids Res. 51, 11668\u201311687 (2023).","journal-title":"Nucleic Acids Res."},{"key":"1736_CR25","doi-asserted-by":"crossref","first-page":"157","DOI":"10.1146\/annurev-genet-080320-031523","volume":"57","author":"L Goehring","year":"2023","unstructured":"Goehring, L., Huang, T. T. & Smith, D. J. Transcription\u2013replication conflicts as a source of genome instability. Annu Rev Genet 57, 157\u2013179 (2023).","journal-title":"Annu Rev Genet"},{"key":"1736_CR26","doi-asserted-by":"crossref","first-page":"774","DOI":"10.1016\/j.cell.2017.07.043","volume":"170","author":"S Hamperl","year":"2017","unstructured":"Hamperl, S., Bocek, M. J., Saldivar, J. C., Swigut, T. & Cimprich, K. A. Transcription\u2013replication conflict orientation modulates R-loop levels and activates distinct DNA damage responses. Cell 170, 774\u2013786 (2017).","journal-title":"Cell"},{"key":"1736_CR27","doi-asserted-by":"crossref","first-page":"433","DOI":"10.1038\/s41586-024-07217-2","volume":"628","author":"M Petropoulos","year":"2024","unstructured":"Petropoulos, M. et al. Transcription\u2013replication conflicts underlie sensitivity to PARP inhibitors. Nature 628, 433\u2013441 (2024).","journal-title":"Nature"},{"key":"1736_CR28","doi-asserted-by":"crossref","first-page":"1701","DOI":"10.1016\/j.cell.2024.02.028","volume":"187","author":"Y Zhou","year":"2024","unstructured":"Zhou, Y. et al. RNA damage compartmentalization by DHX9 stress granules. Cell 187, 1701\u20131718 (2024).","journal-title":"Cell"},{"key":"1736_CR29","volume":"105","author":"RP Wong","year":"2021","unstructured":"Wong, R. P., Petriukov, K. & Ulrich, H. D. Daughter-strand gaps in DNA replication\u2014substrates of lesion processing and initiators of distress signalling. DNA Repair (Amst.) 105, 103163 (2021).","journal-title":"DNA Repair (Amst.)"},{"key":"1736_CR30","doi-asserted-by":"crossref","first-page":"1695","DOI":"10.1073\/pnas.89.5.1695","volume":"89","author":"DL Grady","year":"1992","unstructured":"Grady, D. L. et al. Highly conserved repetitive DNA sequences are present at human centromeres. Proc. Natl Acad. Sci. USA 89, 1695\u20131699 (1992).","journal-title":"Proc. Natl Acad. Sci. USA"},{"key":"1736_CR31","doi-asserted-by":"crossref","DOI":"10.1038\/s41467-022-34929-8","volume":"13","author":"E Koyanagi","year":"2022","unstructured":"Koyanagi, E. et al. Global landscape of replicative DNA polymerase usage in the human genome. Nat. Commun. 13, 7221 (2022).","journal-title":"Nat. Commun."},{"key":"1736_CR32","doi-asserted-by":"crossref","first-page":"10530","DOI":"10.1074\/jbc.M110.177394","volume":"286","author":"MA Reijns","year":"2011","unstructured":"Reijns, M. A. et al. The structure of the human RNase H2 complex defines key interaction interfaces relevant to enzyme function and human disease. J. Biol. Chem. 286, 10530\u201310539 (2011).","journal-title":"J. Biol. Chem."},{"key":"1736_CR33","doi-asserted-by":"crossref","first-page":"1088","DOI":"10.1038\/s43018-022-00429-3","volume":"3","author":"X Zeng","year":"2022","unstructured":"Zeng, X. et al. METTL16 antagonizes MRE11-mediated DNA end resection and confers synthetic lethality to PARP inhibition in pancreatic ductal adenocarcinoma. Nat. Cancer 3, 1088\u20131104 (2022).","journal-title":"Nat. Cancer"},{"key":"1736_CR34","doi-asserted-by":"crossref","first-page":"31458","DOI":"10.1074\/jbc.M113.511337","volume":"288","author":"BM Sirbu","year":"2013","unstructured":"Sirbu, B. M. et al. Identification of proteins at active, stalled, and collapsed replication forks using isolation of proteins on nascent DNA (iPOND) coupled with mass spectrometry. J. Biol. Chem. 288, 31458\u201331467 (2013).","journal-title":"J. Biol. Chem."},{"key":"1736_CR35","doi-asserted-by":"crossref","first-page":"55","DOI":"10.1016\/bs.mie.2017.03.019","volume":"591","author":"A Quinet","year":"2017","unstructured":"Quinet, A., Carvajal-Maldonado, D., Lemacon, D. & Vindigni, A. DNA fiber analysis: mind the gap! Methods Enzymol. 591, 55\u201382 (2017).","journal-title":"Methods Enzymol."},{"key":"1736_CR36","doi-asserted-by":"crossref","first-page":"1193","DOI":"10.1038\/s41596-020-00454-5","volume":"16","author":"S Kit Leng Lui","year":"2021","unstructured":"Kit Leng Lui, S. et al. Monitoring genome-wide replication fork directionality by Okazaki fragment sequencing in mammalian cells. Nat. Protoc. 16, 1193\u20131218 (2021).","journal-title":"Nat. Protoc."},{"key":"1736_CR37","doi-asserted-by":"crossref","first-page":"1260","DOI":"10.1038\/s41596-022-00793-5","volume":"18","author":"X Wu","year":"2023","unstructured":"Wu, X. et al. Genome-wide measurement of DNA replication fork directionality and quantification of DNA replication initiation and termination with Okazaki fragment sequencing. Nat. Protoc. 18, 1260\u20131295 (2023).","journal-title":"Nat. Protoc."},{"key":"1736_CR38","doi-asserted-by":"crossref","DOI":"10.1038\/ncomms10208","volume":"7","author":"N Petryk","year":"2016","unstructured":"Petryk, N. et al. Replication landscape of the human genome. Nat. Commun. 7, 10208 (2016).","journal-title":"Nat. Commun."},{"key":"1736_CR39","doi-asserted-by":"crossref","first-page":"123","DOI":"10.1016\/0022-1759(86)90040-2","volume":"89","author":"SJ Boguslawski","year":"1986","unstructured":"Boguslawski, S. J. et al. Characterization of monoclonal antibody to DNA\u00b7RNA and its application to immunodetection of hybrids. J. Immunol. Methods 89, 123\u2013130 (1986).","journal-title":"J. Immunol. Methods"},{"key":"1736_CR40","doi-asserted-by":"crossref","first-page":"1849","DOI":"10.1038\/nprot.2007.249","volume":"2","author":"LM Hellman","year":"2007","unstructured":"Hellman, L. M. & Fried, M. G. Electrophoretic mobility shift assay (EMSA) for detecting protein-nucleic acid interactions. Nat. Protoc. 2, 1849\u20131861 (2007).","journal-title":"Nat. Protoc."},{"key":"1736_CR41","volume":"37","author":"Z Li","year":"2018","unstructured":"Li, Z. et al. hDNA2 nuclease\/helicase promotes centromeric DNA replication and genome stability. EMBO J. 37, e96729 (2018).","journal-title":"EMBO J."},{"key":"1736_CR42","doi-asserted-by":"crossref","first-page":"221","DOI":"10.1007\/s10822-013-9644-8","volume":"27","author":"GM Sastry","year":"2013","unstructured":"Sastry, G. M., Adzhigirey, M., Day, T., Annabhimoju, R. & Sherman, W. Protein and ligand preparation: parameters, protocols, and influence on virtual screening enrichments. J. Comput. Aided Mol. Des. 27, 221\u2013234 (2013).","journal-title":"J. Comput. Aided Mol. Des."},{"key":"1736_CR43","first-page":"1","volume":"211","author":"KJ Bowers","year":"2006","unstructured":"Bowers, K. J. et al. Scalable algorithms for molecular dynamics simulations on commodity clusters. J. Comput. Phys. 211, 1\u201321 (2006).","journal-title":"J. Comput. Phys."},{"key":"1736_CR44","doi-asserted-by":"crossref","first-page":"357","DOI":"10.1038\/nmeth.1923","volume":"9","author":"B Langmead","year":"2012","unstructured":"Langmead, B. & Salzberg, S. L. Fast gapped-read alignment with Bowtie 2. Nat. Methods 9, 357\u2013359 (2012).","journal-title":"Nat. Methods"},{"key":"1736_CR45","doi-asserted-by":"crossref","first-page":"W160","DOI":"10.1093\/nar\/gkw257","volume":"44","author":"F Ramirez","year":"2016","unstructured":"Ramirez, F. et al. deepTools2: a next generation web server for deep-sequencing data analysis. Nucleic Acids Res. 44, W160\u2013W165 (2016).","journal-title":"Nucleic Acids Res."},{"key":"1736_CR46","doi-asserted-by":"crossref","first-page":"335","DOI":"10.1007\/978-1-4939-3578-9_16","volume":"1418","author":"F Hahne","year":"2016","unstructured":"Hahne, F. & Ivanek, R. Visualizing genomic data using Gviz and Bioconductor. Methods Mol. Biol. 1418, 335\u2013351 (2016).","journal-title":"Methods Mol. Biol."},{"key":"1736_CR47","doi-asserted-by":"crossref","first-page":"1696","DOI":"10.1093\/bioinformatics\/btr189","volume":"27","author":"P Machanick","year":"2011","unstructured":"Machanick, P. & Bailey, T. L. MEME-ChIP: motif analysis of large DNA datasets. Bioinformatics 27, 1696\u20131697 (2011).","journal-title":"Bioinformatics"}],"container-title":["Nature Structural &amp; Molecular Biology"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/www.nature.com\/articles\/s41594-025-01736-w.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/www.nature.com\/articles\/s41594-025-01736-w","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/www.nature.com\/articles\/s41594-025-01736-w.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2026,2,18]],"date-time":"2026-02-18T15:10:29Z","timestamp":1771427429000},"score":1,"resource":{"primary":{"URL":"https:\/\/www.nature.com\/articles\/s41594-025-01736-w"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2026,1,8]]},"references-count":47,"journal-issue":{"issue":"2","published-print":{"date-parts":[[2026,2]]}},"alternative-id":["1736"],"URL":"https:\/\/doi.org\/10.1038\/s41594-025-01736-w","relation":{},"ISSN":["1545-9993","1545-9985"],"issn-type":[{"value":"1545-9993","type":"print"},{"value":"1545-9985","type":"electronic"}],"subject":[],"published":{"date-parts":[[2026,1,8]]},"assertion":[{"value":"20 January 2025","order":1,"name":"received","label":"Received","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"9 December 2025","order":2,"name":"accepted","label":"Accepted","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"8 January 2026","order":3,"name":"first_online","label":"First Online","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"The authors declare no competing interests.","order":1,"name":"Ethics","group":{"name":"EthicsHeading","label":"Competing interests"}}]}}