Zefeng Wang, Ph.D. - Related publications

2002 Johns Hopkins University, Baltimore, MD 
Biochemistry and molecular biology of parasitic protozoa
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50 most relevant papers in past 60 days:
Year Citation  Score
2021 Xu Y, Zhang W, Shen F, Yang X, Liu H, Dai S, Sun X, Huang J, Guo Q. YTH Domain Proteins: A Family of mA Readers in Cancer Progression. Frontiers in Oncology. 11: 629560. PMID 33692959 DOI: 10.3389/fonc.2021.629560   
2021 Back S, Manfredi JJ. Knockdown of Target Genes by siRNA In Vitro. Methods in Molecular Biology (Clifton, N.J.). 2267: 159-163. PMID 33786790 DOI: 10.1007/978-1-0716-1217-0_10   
2021 Kurkowiak M, Arcimowicz Ł, Chruściel E, Urban-Wójciuk Z, Papak I, Keegan L, O'Connell M, Kowalski J, Hupp T, Marek-Trzonkowska N. The effects of RNA editing in cancer tissue at different stages in carcinogenesis. Rna Biology. 1-16. PMID 33593231 DOI: 10.1080/15476286.2021.1877024   
2021 Dodbele S, Mutlu N, Wilusz JE. Best practices to ensure robust investigation of circular RNAs: pitfalls and tips. Embo Reports. 22: e52072. PMID 33629517 DOI: 10.15252/embr.202052072   
2021 Ho JJD, Man JHS, Schatz JH, Marsden PA. Translational remodeling by RNA-binding proteins and noncoding RNAs. Wiley Interdisciplinary Reviews. Rna. e1647. PMID 33694288 DOI: 10.1002/wrna.1647   
2021 Yeom KH, Pan Z, Lin CH, Lim HY, Xiao W, Xing Y, Black DL. Tracking pre-mRNA maturation across subcellular compartments identifies developmental gene regulation through intron retention and nuclear anchoring. Genome Research. PMID 33832989 DOI: 10.1101/gr.273904.120   
2021 Ruan X. Targeting Human lncRNAs for Treating Cardiometabolic Diseases. Cardiovascular Drugs and Therapy. PMID 33608863 DOI: 10.1007/s10557-021-07158-2   
2021 Tong C, Yin Y. Localization of RNAs in the nucleus: - and - regulation. Rna Biology. 1-14. PMID 33682620 DOI: 10.1080/15476286.2021.1894025   
2021 Sun R, Brogan D, Buchman A, Yang T, Akbari OS. Ubiquitous and Tissue-specific RNA Targeting in Drosophila Melanogaster using CRISPR/CasRx. Journal of Visualized Experiments : Jove. PMID 33616113 DOI: 10.3791/62154   
2021 Mattay J, Dittmar M, Rentmeister A. Chemoenzymatic strategies for RNA modification and labeling. Current Opinion in Chemical Biology. 63: 46-56. PMID 33690011 DOI: 10.1016/j.cbpa.2021.01.008   
2021 Li Z, Tang J, Bassham DC, Howell SH. Daily temperature cycles promote alternative splicing of RNAs encoding SR45a, a splicing regulator in maize. Plant Physiology. PMID 33705553 DOI: 10.1093/plphys/kiab110   
2021 Xue W, Ma XK, Yang L. Fast and furious: insights of back splicing regulation during nascent RNA synthesis. Science China. Life Sciences. PMID 33580425 DOI: 10.1007/s11427-020-1881-1   
2021 Shi J, Zhang Y, Tan D, Zhang X, Yan M, Zhang Y, Franklin R, Shahbazi M, Mackinlay K, Liu S, Kuhle B, James ER, Zhang L, Qu Y, Zhai Q, et al. PANDORA-seq expands the repertoire of regulatory small RNAs by overcoming RNA modifications. Nature Cell Biology. PMID 33820973 DOI: 10.1038/s41556-021-00652-7   
2021 Gamini R, Nakashima R, He W, Huang Y, Zhang Y, Zhao S. QuickIsoSeq for Isoform Quantification in Large-Scale RNA Sequencing. Methods in Molecular Biology (Clifton, N.J.). 2284: 135-145. PMID 33835441 DOI: 10.1007/978-1-0716-1307-8_8   
2021 Zaghlool A, Niazi A, Björklund ÅK, Westholm JO, Ameur A, Feuk L. Characterization of the nuclear and cytosolic transcriptomes in human brain tissue reveals new insights into the subcellular distribution of RNA transcripts. Scientific Reports. 11: 4076. PMID 33603054 DOI: 10.1038/s41598-021-83541-1   
2021 Guo SK, Nan F, Liu CX, Yang L, Chen LL. Mapping circular RNA structures in living cells by SHAPE-MaP. Methods (San Diego, Calif.). PMID 33571668 DOI: 10.1016/j.ymeth.2021.01.011   
2021 Yang J, Cao Y, Ma L. Co-Transcriptional RNA Processing in Plants: Exploring from the Perspective of Polyadenylation. International Journal of Molecular Sciences. 22. PMID 33804866 DOI: 10.3390/ijms22073300   
2021 Yu G, Zhu H, Chen X, Yang JR. Specificity of RNA Folding and Its Association with Evolutionarily Adaptive mRNA Secondary Structures. Genomics, Proteomics & Bioinformatics. PMID 33607297 DOI: 10.1016/j.gpb.2019.11.013   
2021 Gerovac M, Wicke L, Chihara K, Schneider C, Lavigne R, Vogel J. A Grad-seq View of RNA and Protein Complexes in Pseudomonas aeruginosa under Standard and Bacteriophage Predation Conditions. Mbio. 12. PMID 33563827 DOI: 10.1128/mBio.03454-20   
2021 Rabani M. Massively Parallel Analysis of Regulatory RNA Sequences. Methods in Molecular Biology (Clifton, N.J.). 2218: 355-365. PMID 33606245 DOI: 10.1007/978-1-0716-0970-5_28   
2021 Blumberg A, Zhao Y, Huang YF, Dukler N, Rice EJ, Chivu AG, Krumholz K, Danko CG, Siepel A. Characterizing RNA stability genome-wide through combined analysis of PRO-seq and RNA-seq data. Bmc Biology. 19: 30. PMID 33588838 DOI: 10.1186/s12915-021-00949-x   
2021 Hung YH, Slotkin RK. The initiation of RNA interference (RNAi) in plants. Current Opinion in Plant Biology. 61: 102014. PMID 33657510 DOI: 10.1016/j.pbi.2021.102014   
2021 Sousa-Luís R, Dujardin G, Zukher I, Kimura H, Weldon C, Carmo-Fonseca M, Proudfoot NJ, Nojima T. POINT technology illuminates the processing of polymerase-associated intact nascent transcripts. Molecular Cell. PMID 33735606 DOI: 10.1016/j.molcel.2021.02.034   
2021 Wu P, Zhang M, Webster NJG. Alternative RNA Splicing in Fatty Liver Disease. Frontiers in Endocrinology. 12: 613213. PMID 33716968 DOI: 10.3389/fendo.2021.613213   
2021 Jacq A, Becquet D, Guillen S, Boyer B, Bello-Goutierrez MM, Franc JL, François-Bellan AM. Direct RNA-RNA interaction between Neat1 and RNA targets, as a mechanism for RNAs paraspeckle retention. Rna Biology. PMID 33573434 DOI: 10.1080/15476286.2021.1889253   
2021 Sun YH, Wang A, Song C, Shankar G, Srivastava RK, Au KF, Li XZ. Single-molecule long-read sequencing reveals a conserved intact long RNA profile in sperm. Nature Communications. 12: 1361. PMID 33649327 DOI: 10.1038/s41467-021-21524-6   
2021 Singha M, Spitalny L, Nguyen K, Vandewalle A, Spitale RC. Chemical methods for measuring RNA expression with metabolic labeling. Wiley Interdisciplinary Reviews. Rna. e1650. PMID 33738981 DOI: 10.1002/wrna.1650   
2021 Chen J, Liu Y, Min J, Wang H, Li F, Xu C, Gong A, Xu M. Alternative splicing of lncRNAs in human diseases. American Journal of Cancer Research. 11: 624-639. PMID 33791145   
2021 Miano V, Codino A, Pandolfini L, Barbieri I. The non-coding epitranscriptome in cancer. Briefings in Functional Genomics. PMID 33564819 DOI: 10.1093/bfgp/elab003   
2021 Torma G, Tombácz D, Csabai Z, Göbhardter D, Deim Z, Snyder M, Boldogkői Z. An Integrated Sequencing Approach for Updating the Pseudorabies Virus Transcriptome. Pathogens (Basel, Switzerland). 10. PMID 33672563 DOI: 10.3390/pathogens10020242   
2021 Chowdhary V, Biswas P, Ghoshal K. Role of Non-coding RNA in Acetaminophen-induced Liver Injury. Gene Expression. PMID 33757622 DOI: 10.3727/105221621X16165282414118   
2021 Nisar S, Bhat AA, Singh M, Karedath T, Rizwan A, Hashem S, Bagga P, Reddy R, Jamal F, Uddin S, Chand G, Bedognetti D, El-Rifai W, Frenneaux MP, Macha MA, et al. Insights Into the Role of CircRNAs: Biogenesis, Characterization, Functional, and Clinical Impact in Human Malignancies. Frontiers in Cell and Developmental Biology. 9: 617281. PMID 33614648 DOI: 10.3389/fcell.2021.617281   
2021 Huertas-Rosales Ó, Romero M, Chan KG, Hong KW, Cámara M, Heeb S, Barrientos-Moreno L, Molina-Henares MA, Travieso ML, Ramos-González MI, Espinosa-Urgel M. Genome-Wide Analysis of Targets for Post-Transcriptional Regulation by Rsm Proteins in . Frontiers in Molecular Biosciences. 8: 624061. PMID 33693029 DOI: 10.3389/fmolb.2021.624061   
2021 Saldi T, Riemondy K, Erickson B, Bentley DL. Alternative RNA structures formed during transcription depend on elongation rate and modify RNA processing. Molecular Cell. PMID 33631106 DOI: 10.1016/j.molcel.2021.01.040   
2021 Zhang H, Zhong H, Wang X, Zhang S, Shao X, Hu H, Yu Z, Cai Z, Chen X, Xia Y. Use of NAD tagSeq II to identify growth phase-dependent alterations in RNA NAD capping. Proceedings of the National Academy of Sciences of the United States of America. 118. PMID 33782135 DOI: 10.1073/pnas.2026183118   
2021 Zoabi Y, Shomron N. Processing and Analysis of RNA-seq Data from Public Resources. Methods in Molecular Biology (Clifton, N.J.). 2243: 81-94. PMID 33606253 DOI: 10.1007/978-1-0716-1103-6_4   
2021 Seki M, Oka M, Xu L, Suzuki A, Suzuki Y. Transcript Identification Through Long-Read Sequencing. Methods in Molecular Biology (Clifton, N.J.). 2284: 531-541. PMID 33835462 DOI: 10.1007/978-1-0716-1307-8_29   
2021 Li Y, Liu S, Cao L, Luo Y, Du H, Li S, Zhang Z, Guo X, Tian W, Wong CC, You F. CBRPP: a new RNA-centric method to study RNA-protein interactions. Rna Biology. 1-14. PMID 33596778 DOI: 10.1080/15476286.2021.1873620   
2021 Verosloff MS, Corcoran WK, Dolberg TB, Bushhouse DZ, Leonard JN, Lucks JB. RNA sequence and structure determinants of Pol III transcriptional termination in human cells. Journal of Molecular Biology. 166978. PMID 33811918 DOI: 10.1016/j.jmb.2021.166978   
2021 Rodriguez PD, Paculova H, Kogut S, Heath J, Schjerven H, Frietze S. Non-Coding RNA Signatures of B-Cell Acute Lymphoblastic Leukemia. International Journal of Molecular Sciences. 22. PMID 33799946 DOI: 10.3390/ijms22052683   
2021 Goldfarb CN, Waxman DJ. Global analysis of expression, maturation and subcellular localization of mouse liver transcriptome identifies novel sex-biased and TCPOBOP-responsive long non-coding RNAs. Bmc Genomics. 22: 212. PMID 33761883 DOI: 10.1186/s12864-021-07478-5   
2021 Ariel FD, Manavella PA. When junk DNA turns functional: transposon-derived noncoding RNAs in plants. Journal of Experimental Botany. PMID 33606874 DOI: 10.1093/jxb/erab073   
2021 Kropocheva E, Kuzmenko A, Aravin AA, Esyunina D, Kulbachinskiy A. A programmable pAgo nuclease with universal guide and target specificity from the mesophilic bacterium Kurthia massiliensis. Nucleic Acids Research. PMID 33744962 DOI: 10.1093/nar/gkab182   
2021 Richards J, Belasco JG. Riboswitch control of bacterial RNA stability. Molecular Microbiology. PMID 33797153 DOI: 10.1111/mmi.14723   
2021 Ma J, Zhang L, Chen S, Liu H. A brief review of RNA modification related database resources. Methods (San Diego, Calif.). PMID 33705860 DOI: 10.1016/j.ymeth.2021.03.003   
2021 Gao Y, Cao D, Pawnikar S, Akhter S, Miao Y, Liang B. Efficient purification and assembly of ribonucleoprotein complex for interaction analysis by MST assay coupled with GaMD simulations. Star Protocols. 2: 100315. PMID 33659898 DOI: 10.1016/j.xpro.2021.100315   
2021 Ke J, Liu F, Tu Y, Cai Z, Luo Y, Wu X. PARP1-RNA interaction analysis: PARP1 regulates the expression of extracellular matrix-related genes in HK-2 renal proximal tubular epithelial cells. Febs Letters. PMID 33641169 DOI: 10.1002/1873-3468.14065   
2021 Su K, Wang N, Shao Q, Liu H, Zhao B, Ma S. The role of a ceRNA regulatory network based on lncRNA MALAT1 site in cancer progression. Biomedicine & Pharmacotherapy = Biomedecine & Pharmacotherapie. 137: 111389. PMID 33601150 DOI: 10.1016/j.biopha.2021.111389   
2021 Kim J, Quijano JF, Kim J, Yeung E, Murray RM. Synthetic logic circuits using RNA aptamer against T7 RNA polymerase. Biotechnology Journal. e2000449. PMID 33813787 DOI: 10.1002/biot.202000449   
2021 Wang Y, Yu Y, Pang Y, Yu H, Zhang W, Zhao X, Yu J. The Distinct Roles of Zinc Finger CCHC-type (ZCCHC) Superfamily Proteins in the Regulation of RNA Metabolism. Rna Biology. PMID 33787465 DOI: 10.1080/15476286.2021.1909320