Publications

Postdoctoral Fellow
Ing. Ivana Borovská, PhD.

Publications for year 2026

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Publications

  • BOROVSKÁ, Ivana* - ZHANG, Chundan* - DÜLK, Sarah-Luisa J. - MORANDI, Edoardo - CARDOSO, Marta F. S. - BOURKIA, Billal M. - VAN DEN HOMBERG, Daphne A. L. - WOLFINGER, Michael T. - VELEMA, Willem A. - INCARNATO, Danny**. Identification of conserved RNA regulatory switches in living cells using RNA secondary structure ensemble mapping and covariation analysis. In Nature Biotechnology, 2026, vol. 44, p. 989-1001. (2025: 44.5 - IF, Q1 - JCR, 23.109 - SJR, Q1 - SJR). ISSN 1087-0156. Dostupné na: https://doi.org/10.1038/s41587-025-02739-0 Typ: ADCA
    Citations:
    [1.1] DAI, Yi-Han. Advances in RNA Synthetic Biology: Gene Circuit Design and Application in Precision Medicine. In PROGRESS IN BIOCHEMISTRY AND BIOPHYSICS. ISSN 1000-3282, FEB 2026, vol. 53, no. 2, p. 309-326. Dostupné na: https://doi.org/10.3724/j.pibb.2025.0395, Registrované v: WOS
    [1.1] GENG, Ainan - ROY, Rohit - KEN, Megan - LI, Linshu - CHIME, Alicia - ABOU ASSI, Hala - LIU, Bei - BOU-NADER, Charles - LEE, Yeongjoon - ZHANG, Jinwei - HERSCHLAG, Daniel - GOFF, Stephen P. - AL-HASHIMI, Hashim M. Thermodynamic prediction of RNA cellular activity from sequence via conformational ensembles. In CELL. ISSN 0092-8674, MAY 14 2026, vol. 189, no. 10, p. 2934-2954. Dostupné na: https://doi.org/10.1016/j.cell.2026.02.021, Registrované v: WOS
    [1.1] HERTZ, Laura M. - ARCE, Anibal - RIVAS, Elena - LUCKS, Julius B. High-throughput functional profiling and evolutionary covariation analysis of entire riboswitch sequences. In NUCLEIC ACIDS RESEARCH. ISSN 0305-1048, JUN 24 2026, vol. 54, no. 11, art. no. gkag542. Dostupné na: https://doi.org/10.1093/nar/gkag542, Registrované v: WOS
    [1.1] LIANG, Jialu - WANG, Yanfei - FAN, Xiao - XIE, Mingyi - SONG, Qianqian. VIRSE: a variational Bayesian framework for RNA structural ensemble inference. In BRIEFINGS IN BIOINFORMATICS. ISSN 1467-5463, MAY 2026, vol. 27, no. 3, art. no. bbag301. Dostupné na: https://doi.org/10.1093/bib/bbag301, Registrované v: WOS
    [1.1] MILLS, Madelyn N. - PACHEO, Gabriel - TONG, Alina Y. - TONG, Elisha L. - HANNANI, Michael A. - HEGANOVIC, Lana - FLEARY, Kiana - SHAFFER, Samantha N. - VAIRAVAN, Mallika S. - FERRE-D'AMARE, Adrian R. - PASSALACQUA, Luiz F. M. - ABDELSAYED, Michael M. The RNA thermometer motif ROSE-G regulates ABC transporter gene expression in bacteria. In JOURNAL OF BIOLOGICAL CHEMISTRY. ISSN 0021-9258, FEB 2026, vol. 302, no. 2, art. no. 111119. Dostupné na: https://doi.org/10.1016/j.jbc.2025.111119, Registrované v: WOS
    [1.1] MOYON, Lambert - MARSICO, Annalisa. Machine learning and language models for RNA structure prediction: Progress and perspectives. In CURRENT OPINION IN STRUCTURAL BIOLOGY. ISSN 0959-440X, OCT 2026, vol. 100, art. no. 103339. Dostupné na: https://doi.org/10.1016/j.sbi.2026.103339, Registrované v: WOS
    [1.1] WANG, Jiaxu - HAN, Jian - TAN, Wen Ting - CHENG, Anthony Youzhi - AW, Jong Ghut Ashley - WANG, Yue - ZENG, Guisheng - NAGARAJAN, Niranjan - WAN, Yue. Direct RNA sequencing and signal alignment reveal RNA structure ensembles in a eukaryotic cell. In NATURE METHODS. ISSN 1548-7091, MAY 2026, vol. 23, no. 5, art. no. 42032065. Dostupné na: https://doi.org/10.1038/s41592-026-03069-y, Registrované v: WOS
    [1.1] YARSHOVA, Maryana - ZHAO, Jieyu - KWOK, Chun Kit. Recent Advances in Chemical Probing Strategies for RNA Structure Determination in Vivo. In CHEMISTRY-A EUROPEAN JOURNAL. ISSN 0947-6539, MAR 23 2026, vol. 32, no. 12, art. no. 9513783. Dostupné na: https://doi.org/10.1002/chem.202503291, Registrované v: WOS
    [1.1] ZHANG, Bi-Han - YANG, Lei - TIE, Jun - LI, Yan-Li - LU, Hao-Qi - DENG, Chao-Wen - LI, Xiao-Liang - LAN, Jun - REN, Yong-Xiang. Efficient nitrogen removal performance and its cold adaptation mechanism of a psychrotolerant bacterium Pseudomonas umsongensis YL-1. In JOURNAL OF WATER PROCESS ENGINEERING. ISSN 2214-7144, NOV 2026, vol. 93, art. no. 110938. Dostupné na: https://doi.org/10.1016/j.jwpe.2026.110938, Registrované v: WOS
    [1.1] ZHANG, Ya - QIU, Fanghang - LI, Weiwei - ZHAO, Runshen - LI, Xiuting - SUN, Baoguo. Bidirectional regulation strategies of food microorganisms based on mechanistic insights into temperature, osmotic, and acid stresses. In FOOD RESEARCH INTERNATIONAL. ISSN 0963-9969, FEB 28 2026, vol. 226, art. no. 118045. Dostupné na: https://doi.org/10.1016/j.foodres.2025.118045, Registrované v: WOS
    [1.1] ZHU, Zhi-Min - WU, Xiao-Mei - HU, Yan - BIAN, Xiao-Lan - WANG, Ya-Qin - ZHU, Qiong-Ni. Alternative Splicing: Molecular Mechanisms, Biological Functions, Diseases, and Potential Therapeutic Targets. In MEDCOMM. DEC 14 2025, vol. 6, no. 12, art. no. e70545. Dostupné na: https://doi.org/10.1002/mco2.70545, Registrované v: WOS
  • BOROVSKÁ, Ivana - PELEGRINOVÁ, Lívia - HUČKO, Milan - KĽUČÁR, Ľuboš - KRÁLOVIČOVÁ, Jana. Structural Features of Alu RNA that Guide ADAR-Mediated Editing. In 3rd RNA Horizons Conference, September 16-18, 2026, Munich, Germany : Unlocking the RNA's Potential in Medicine. - Munich, 2026, p. no. 8. Dostupné na internete: http://rnahorizons.com/wp-content/uploads/2026/09/I.-Borovska.pdf (RNA Horizons Conference. APD0140 : ADARs in Action: Unveiling RNA Editing Mechanisms in Mobile Element-Rich Transcripts. VEGA 2/0016/22 : Štrukturálne usporiadanie pre-mRNA nevyhnutné pre exonizáciu Alu. VEGA 2/0022/26 : Vplyv konformácie RNA na editáciu Alu sekvencií sprostredkovanú ADAR deaminázami. APVV-24-0054 : Konformačná dynamika Alu RNA, šedá eminencia ADAR-sprostredkovaného editingu?.) Typ: GII
  • PELEGRINOVÁ, Lívia - BOROVSKÁ, Ivana - HUČKO, Milan - KĽUČÁR, Ľuboš - KRÁLOVIČOVÁ, Jana. Alu RNA conformational dynamics and their impact on ADAR-mediated RNA editing. In 20th Microsymposium on RNA Biology : Vienna BioCenter, June 17th - 19th 2026. - Vienna, 2026, p. 23. (Microsymposium on RNA Biology. VEGA 2/0016/22 : Štrukturálne usporiadanie pre-mRNA nevyhnutné pre exonizáciu Alu. VEGA 2/0022/26 : Vplyv konformácie RNA na editáciu Alu sekvencií sprostredkovanú ADAR deaminázami. APVV-24-0054 : Konformačná dynamika Alu RNA, šedá eminencia ADAR-sprostredkovaného editingu?. APD0140 : ADARs in Action: Unveiling RNA Editing Mechanisms in Mobile Element-Rich Transcripts.) Typ: GII
  • ZHANG, Chundan* - BOROVSKÁ, Ivana* - IOBASHVILI, Teona - MORANDI, Edoardo - LIONNEZ, Marta - OLAYINKA, Oluwatosin S. - DE BOER, Rinse - CLAMER, Massimiliano - WITTE, Martin D. - PORS, Klaus - SCHNEEKLOTH JR., John S. - INCARNATO, Danny**. RNA functional modulation by Mitoxantrone via RNA structural ensemble repartitioning. In Nature Communications, 2026, vol. 17, no. 1, art. no. 4315. (2025: 18.1 - IF, Q1 - JCR, 4.904 - SJR, Q1 - SJR). ISSN 2041-1723. Dostupné na: https://doi.org/10.1038/s41467-026-70801-9 Typ: ADCA
    Citations:
    [1.1] ALLEN, Timothy E. H. - BOYD, Susan M. - BONNET, Maurinne - KHAN, Rabia T. Generative Chemistry Platform for Small Molecules Targeting RNA: A Case Study for Chemical Optimization. In COMPUTATIONAL AND STRUCTURAL BIOTECHNOLOGY JOURNAL. ISSN 2001-0370, SEP 10 2026, vol. 35, no. 1, art. no. 0218. Dostupné na: https://doi.org/10.34133/csbj.0218, Registrované v: WOS
    [1.1] MOYON, Lambert - MARSICO, Annalisa. Machine learning and language models for RNA structure prediction: Progress and perspectives. In CURRENT OPINION IN STRUCTURAL BIOLOGY. ISSN 0959-440X, OCT 2026, vol. 100, art. no. 103339. Dostupné na: https://doi.org/10.1016/j.sbi.2026.103339, Registrované v: WOS
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