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  1. 1.   Noncanonical circRNA biogenesis driven by alpha and gamma herpesviruses
  2. Dremel, Sarah E; Koparde,Vishal; Arbuckle, Jesse H; Hogan, Chad H; Kristie, Thomas M; Krug, Laurie T; Conrad, Nicholas K; Ziegelbauer, Joseph M
  3. The EMBO Journal. 2025, Mar 03;
  1. 2.   Interferon induced circRNAs escape herpesvirus host shutoff and suppress lytic infection
  2. Dremel, Sarah E; Tagawa, Takanobu; Koparde,Vishal; Hernandez-Perez, Carmen; Arbuckle, Jesse H; Kristie, Thomas M; Krug, Laurie T; Ziegelbauer, Joseph M
  3. EMBO Reports. 2024, Mar; 25(3): 1541-1569.
  1. 3.   Whole organism profiling of the Timp gene family
  2. Peeney, David; Fan, Yu; Gurung, Sadeechya; Lazaroff, Carolyn; Ratnayake, Shashikala; Warner,Andrew; Karim,Baktiar; Meerzaman, Daoud; Stetler-Stevenson, William G
  3. Matrix Biology Plus. 2023, Jun; 18: 100132.
  1. 4.   Protocol for using single-cell sequencing to study the heterogeneity of NF1 nerve sheath tumors from clinical biospecimens
  2. Zhang, Xiyuan; Gopalan, Vishaka; Syed,Neeraja; Hannenhalli, Sridhar; Shern, Jack F
  3. STAR Protocols. 2023, May 10; 4(2): 102297.
  1. 5.   A virus-induced circular RNA maintains latent infection of Kaposi's sarcoma herpesvirus
  2. Tagawa, Takanobu; Oh, Daniel; Dremel, Sarah; Mahesh, Guruswamy; Koparde,Vishal; Duncan,Gerard; Andresson,Thorkell; Ziegelbauer, Joseph M
  3. Proceedings of the National Academy of Sciences of the United States of America. 2023, Feb 07; 120(6): e2212864120.
  1. 6.   The C-Terminal Domain of RNase H and the C-Terminus Amino Acid Residue Regulate Virus Release and Autoprocessing of a Defective HIV-1 Possessing M50I and V151I Changes in Integrase
  2. Imamichi,Tomozumi; Chen,Qian; Hao, Ming; Chang,Weizhong; Yang,Jun
  3. Viruses. 2022, Nov 30; 14(12):
  1. 7.   KSHV episome tethering sites on host chromosomes and regulation of latency-lytic switch by CHD4
  2. Kumar, Ashish; Lyu, Yuanzhi; Yanagihashi, Yuichi; Chantarasrivong, Chanikarn; Majerciak,Vladimir; Salemi, Michelle; Wang, Kang-Hsin; Inagaki, Tomoki; Chuang, Frank; Davis, Ryan R; Tepper, Clifford G; Nakano, Kazushi; Izumiya, Chie; Shimoda, Michiko; Nakajima, Ken-Ichi; Merleev, Alexander; Zheng, Zhi-Ming; Campbell, Mel; Izumiya, Yoshihiro
  3. Cell Reports. 2022, May 10; 39(6): 110788.
  1. 8.   Structural basis for Dicer-like function of an engineered RNase III variant and insights into the reaction trajectory of two-Mg2+-ion catalysis
  2. Dharavath,Sudhaker; Shaw,Gary; Ji,Xinhua
  3. RNA Biology. 2022, Jan; 19(1): 908-915.
  1. 9.   Natural Occurring Polymorphisms in HIV-1 Integrase and RNase H Regulate Viral Release and Autoprocessing
  2. Imamichi, Tomozumi; Bernbaum, John G.; Laverdure, Sylvain; Yang, Jun; Chen, Qian; Highbarger, Helene; Hao, Ming; Sui, Hongyan; Dewar, Robin; Chang, Weizhong; Lane, H. Clifford
  3. Journal of Virology . 2021, Dec; 95(23):
  1. 10.   Multiparameter immunohistochemistry analysis of HIV DNA, RNA and immune checkpoints in lymph node tissue
  2. Richardson, Zuwena A; Deleage,Claire; Tutuka, Candani S A; Walkiewicz, Marzena; Del Río-Estrada, Perla M; Pascoe, Rachel D; Evans, Vanessa A; Reyesteran, Gustavo; Gonzales, Michael; Roberts-Thomson, Samuel; González-Navarro, Mauricio; Torres-Ruiz, Fernanda; Estes, Jacob D; Lewin, Sharon R; Cameron, Paul U
  3. Journal of Immunological Methods. 2021, Dec 01; 113198.
  1. 11.   Characterizing Expression and Regulation of Gamma-Herpesviral Circular RNAs
  2. Tagawa, Takanobu; Oh, Daniel; Santos, Jerico; Dremel, Sarah; Mahesh, Guruswamy; Uldrick, Thomas S; Yarchoan, Robert; Koparde,Vishal; Ziegelbauer, Joseph M
  3. Frontiers in microbiology. 2021, Jun 30; 12: 670542.
  1. 12.   Reverse-transcribed SARS-CoV-2 RNA can integrate into the genome of cultured human cells and can be expressed in patient-derived tissues
  2. Zhang, Liguo; Richards, Alexsia; Barrasa, M Inmaculada; Hughes,Stephen; Young, Richard A; Jaenisch, Rudolf
  3. Proceedings of the National Academy of Sciences of the United States of America. 2021, May 25; 118(21):
  1. 13.   An Integrated Epigenomic and Transcriptomic Map of Mouse and Human aß T Cell Development
  2. Chopp, Laura B; Gopalan, Vishaka; Ciucci, Thomas; Ruchinskas,Allison; Rae, Zachary; Lagarde, Manon; Gao, Yayi; Li, Caiyi; Bosticardo, Marita; Pala, Francesca; Livak, Ferenc; Kelly,Michael; Hannenhalli, Sridhar; Bosselut, Rémy
  3. Immunity. 2020, Dec 15; 53(6): 1182-1201.e8.
  1. 14.   Scaffold hopping and optimisation of 3',4'-dihydroxyphenyl- containing thienopyrimidinones: synthesis of quinazolinone derivatives as novel allosteric inhibitors of HIV-1 reverse transcriptase-associated ribonuclease H
  2. Tocco, Graziella; Esposito, Francesca; Caboni, Pierluigi; Laus, Antonio; Beutler,John; Wilson,Jennifer; Corona, Angela; Le Grice,Stuart; Tramontano, Enzo
  3. Journal of enzyme inhibition and medicinal chemistry. 2020, Dec; 35(1): 1953-1963.
  1. 15.   Integrated analysis of genome-wide miRNAs and targeted gene expression in esophageal squamous cell carcinoma (ESCC) and relation to prognosis
  2. Yang, Howard; Su, Hua; Hu, Nan; Wang, Chaoyu; Wang, Lemin; Giffen, Carol; Goldstein, Alisa M; Lee, Maxwell P; Taylor, Philip R
  3. BMC cancer. 2020, May 06; 20(1): 388.
  1. 16.   KSHV RNA-binding protein ORF57 inhibits P-body formation to promote viral multiplication by interaction with Ago2 and GW182
  2. Sharma, Nishi R; Majerciak,Vladimir; Kruhlak, Michael J; Yu,Lulu; Kang, Jeong Gu; Yang,Acong; Gu,Shuo; Fritzler, Marvin J; Zheng,Zhi-Ming
  3. Nucleic acids research. 2019, SEP 26; 47(17): 9368-9385.
  1. 17.   QuagmiR: a cloud-based application for isomiR big data analytics
  2. Bofill De Ros,Xavier; Chen, Kevin; Chen, Susanna; Tesic, Nikola; Randjelovic, Dusan; Skundric, Nikola; Nesic, Svetozar; Varjacic, Vojislav; Williams, Elizabeth H.; Malhotra, Raunaq; Jiang, Minjie; Gu,Shuo
  3. BIOINFORMATICS. 2019, MAY 1; 35(9): 1576-1578.
  1. 18.   Synthetic ligands for PreQ(1) riboswitches provide structural and mechanistic insights into targeting RNA tertiary structure
  2. Connelly,Colleen; Numata, Tomoyuki; Boer, Robert E.; Moon, Michelle H.; Sinniah, Ranu S.; Barchi,Joe; Ferre-D'Amare, Adrian R.; Schneekloth,Jay
  3. Nature communications. 2019, Apr 2; 10(1):
  1. 19.   Genome-Wide Profiling of Cervical RNA-Binding Proteins Identifies Human Papillomavirus Regulation of RNASEH2A Expression by Viral E7 and E2F1
  2. Xu, Junfen; Liu, Habin; Yang, Yanqin; Wang, Xiaohong; Liu, Poching; Li, Yang; Meyers, Craig; Banerjee, Nilam Sanjib; Wang, Hsu-Kun; Cam, Maggie; Lu, Weiguo; Chow, Louise T.; Xie, Xing; Zhu, Jun; Zheng,Zhi-Ming
  3. MBIO. 2019, Jan-Feb; 10(1):
  1. 20.   Structure and function of Rnt1p: An alternative to RNAi for targeted RNA degradation
  2. Abou Elela, Sherif; Ji,Xinhua
  3. Wiley interdisciplinary reviews. RNA. 2019, May-Jun; 10(3):
  1. 21.   Developing and Evaluating Inhibitors against the RNase H Active Site of HIV-1 Reverse Transcriptase
  2. Boyer, Paul; Smith, Steven; Zhao, Xue Zhi; Das, Kalyan; Gruber, Kevin; Arnold, Eddy; Burke, Terrence; Hughes, Stephen
  3. Journal of Virology. 2018, Jul; 92(13): e02203-17.
  1. 22.   A G3BP1-Interacting lncRNA Promotes Ferroptosis and Apoptosis in Cancer via Nuclear Sequestration of p53
  2. Mao, Chao; Wang, Xiang; Liu, Yating; Wang, Min; Jiang, Yiqun; Shi, Ying; Shen, Yi; Liu, Xiaoli; Lai, Weiwei; Yang, Rui; Xiao, Desheng; Cheng, Yan; Liu, Shuang; Zhou, Hu; Cao, Ya; Yu, Weishi; Muegge, Kathrin; Yu, Herbert; Tao, Yongguang
  3. CANCER RESEARCH. 2018, Jul 1; 78(13): 3484-3496.
  1. 23.   A mutational comparison of adult and adolescent and young adult (AYA) colon cancer
  2. Tricoli, James V; Boardman, Lisa A; Patidar, Rajesh; Sindiri, Sivasish; Jang, Jin S; Walsh, William; McGregor, Paul M; Camalier, Corinne; Mehaffey, Michele G; Furman, Wayne L; Bahrami, Armita; Williams, Mickey; Lih, Chih-Jian; Conley, Barbara A; Khan, Javed
  3. Cancer. 2018, Mar 1; 124(5): 1070-1082.
  1. 24.   Recruitment of 7SL RNA to assembling HIV-1 virus-like particles
  2. Itano, Michelle S.; Arnion, Helene; Wolin, Sandra; Simon, Sanford M.
  3. Traffic. 2018, Jan; 19(1): 36-43.
  1. 25.   Viral DNA Replication Orientation and hnRNPs Regulate Transcription of the Human Papillomavirus 18 Late Promoter
  2. Wang, Xiaohong; Liu, Haibin; Ge, Hui; Ajiro, Masahiko; Sharma, Nishi R; Meyers, Craig; Morozov, Pavel; Tuschl, Thomas; Klar, Amar; Court, Don; Zheng, Zhi-Ming
  3. mBio. 2017, May 30; 8(3): pii: e00713-17.
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