Publications

Penghao Xu, Taehwan Yang, Deepali L. Kundnani, Mo Sun, Stefania Marsili, Alli L. Gombolay, Youngkyu Jeon, Gary Newnam, Sathya Balachander, Veronica Bazzani, Umberto Baccarani, Vivian S. Park, Sijia Tao, Adriana Lori, Raymond F. Schinazi, Baek Kim, Zachary F. Pursell, Gianluca Tell, Carlo Vascotto, Francesca Storici (2023). Enriched zones of embedded ribonucleotides are associated with DNA replication and coding sequences in the human mitochondrial genome. bioRxiv.

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Youngkyu Jeon, Margherita Maria Ferrari, Tejasvi Channagiri, Penghao Xu, Sathya Balachander, Vivian S. Park, Stefania Marsili, Zachary F. Pursell, Nataša Jonoska, Francesca Storici (2022). RNA-mediated double-strand break repair in human cells. bioRxiv.

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Penghao Xu, Francesca Storici (2021). RibosePreferenceAnalysis: Analyzing the preference of rNMPs embedded in genomic DNA. Software Impacts.

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Penghao Xu, Francesca Storici (2021). Frequency and patterns of ribonucleotide incorporation around autonomously replicating sequences in yeast reveal the division of labor of replicative DNA polymerases. Nucleic Acids Research.

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Penghao Xu, F. Storici (2021). RESCOT: Restriction enzyme set and combination optimization tools for rNMP capture techniques. Theoretical Computer Science.

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Waleed M. M. El-Sayed, Alli L. Gombolay, Penghao Xu, Taehwan Yang, Youngkyu Jeon, Sathya Balachander, Gary Newnam, Sijia Tao, Nicole E. Bowen, Tomáš Brůna, Mark Borodovsky, Raymond F. Schinazi, Baek Kim, Yongsheng Chen, Francesca Storici (2021). Disproportionate presence of adenosine in mitochondrial and chloroplast DNA of Chlamydomonas reinhardtii. iScience.

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Sathya Balachander, Alli L Gombolay, Taehwan Yang, Penghao Xu, Gary Newnam, Havva Keskin, Waleed M. M. El-Sayed, Anton V Bryksin, Sijia Tao, Nicole E Bowen, Raymond F Schinazi, Baek Kim, Kyung Duk Koh, Fredrik O Vannberg, Francesca Storici (2020). Ribonucleotide incorporation in yeast genomic DNA shows preference for cytosine and guanosine preceded by deoxyadenosine. Nature Communications.

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D. -Y. Song, Z. Wang, Z. -J. Song, C. -C. Zhou, Penghao Xu, J. Yang, B. -R. Lu (2017). Increased novel single nucleotide polymorphisms in weedy rice populations associated with the change of farming styles: Implications in adaptive mutation and evolution. Journal of Systematics and Evolution.

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