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Thomas Hermann

Title(s)Professor, Chemistry and Biochemistry
SchoolVc-academic Affairs
Address9500 Gilman Drive #0358
La Jolla CA 92093
Phone8/5-34--4467
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    2019 RNA Nanotechnology GRC/GRS
    NIH/NCATS R13TR002708Jan 1, 2019 - Dec 31, 2019
    Role: Principal Investigator
    Self-assembling RNA nanosensors
    NSF CHE1608287Jun 1, 2016 - May 31, 2019
    Role: Principal Investigator
    Chemotherapy targeting human thymidylate synthase messenger RNA
    NIH/NCI R01CA132753Jun 1, 2009 - May 31, 2014
    Role: Principal Investigator
    New Antiviral Therapies for Hepatitis C Infection
    NIH/NIAID R01AI072012Apr 15, 2007 - Mar 31, 2012
    Role: Principal Investigator
    Chemotherapy targeting conserved elements of the thymidylate synthase messenger RNA
    American Cancer Society ACS-IRG #70- 002Jun 1, 2006 - May 31, 2007
    Role: Principal Investigator
    Rational Design of Antibiotics Targeted at the Ribosome
    NIH/NIAID R44AI051104Feb 15, 2002 - Nov 30, 2006
    Role: Co-Principal Investigator
    Rational Design of Antibiotics Targeted at the Ribosome
    NIH/NIAID R43AI051104Feb 15, 2002 - Feb 14, 2003
    Role: Principal Investigator

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    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help. to make corrections and additions.
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    Altmetrics Details PMC Citations indicate the number of times the publication was cited by articles in PubMed Central, and the Altmetric score represents citations in news articles and social media. (Note that publications are often cited in additional ways that are not shown here.) Fields are based on how the National Library of Medicine (NLM) classifies the publication's journal and might not represent the specific topic of the publication. Translation tags are based on the publication type and the MeSH terms NLM assigns to the publication. Some publications (especially newer ones and publications not in PubMed) might not yet be assigned Field or Translation tags.) Click a Field or Translation tag to filter the publications.
    1. RNA-DNA hybrid nanoshapes that self-assemble dependent on ligand binding. Nanoscale. 2020 Feb 07; 12(5):3302-3307. Chen S, Hermann T. PMID: 31971536.
      View in: PubMed   Mentions:    Fields:    
    2. Versatile kit of robust nanoshapes self-assembling from RNA and DNA modules. Nat Commun. 2019 02 05; 10(1):608. Monferrer A, Zhang D, Lushnikov AJ, Hermann T. PMID: 30723214.
      View in: PubMed   Mentions: 1     Fields:    Translation:Cells
    3. Design and Crystallography of Self-Assembling RNA Nanostructures. Methods Mol Biol. 2017; 1632:135-149. Boerneke MA, Hermann T. PMID: 28730437.
      View in: PubMed   Mentions:    Fields:    Translation:Cells
    4. Ligand Optimization by Improving Shape Complementarity at a Hepatitis C Virus RNA Target. ACS Chem Biol. 2016 12 16; 11(12):3263-3267. Charrette BP, Boerneke MA, Hermann T. PMID: 27775338.
      View in: PubMed   Mentions: 2     Fields:    Translation:HumansCells
    5. Small molecules targeting viral RNA. Wiley Interdiscip Rev RNA. 2016 11; 7(6):726-743. Hermann T. PMID: 27307213.
      View in: PubMed   Mentions: 19     Fields:    Translation:HumansAnimals
    6. Crystal-Structure-Guided Design of Self-Assembling RNA Nanotriangles. Angew Chem Int Ed Engl. 2016 Mar 14; 55(12):4097-100. Boerneke MA, Dibrov SM, Hermann T. PMID: 26914842.
      View in: PubMed   Mentions: 11     Fields:    Translation:Cells
    7. Structure of the HCV Internal Ribosome Entry Site Subdomain IIa RNA in Complex with a Viral Translation Inhibitor. Methods Mol Biol. 2016; 1320:329-35. Dibrov SM, Hermann T. PMID: 26227053.
      View in: PubMed   Mentions:    Fields:    Translation:Cells
    8. Non-coding RNA: Antibiotic tricks a switch. Nature. 2015 Oct 29; 526(7575):650-1. Hermann T. PMID: 26416738.
      View in: PubMed   Mentions:    Fields:    Translation:AnimalsCells
    9. Conformational flexibility of viral RNA switches studied by FRET. Methods. 2015 Dec; 91:35-39. Boerneke MA, Hermann T. PMID: 26381686.
      View in: PubMed   Mentions: 3     Fields:    Translation:Cells
    10. Ligand-responsive RNA mechanical switches. RNA Biol. 2015; 12(8):780-6. Boerneke MA, Hermann T. PMID: 26158858.
      View in: PubMed   Mentions: 4     Fields:    Translation:Cells
    11. Analysis of mRNA recognition by human thymidylate synthase. Biosci Rep. 2014 Dec 23; 34(6):e00168. Brunn ND, Dibrov SM, Kao MB, Ghassemian M, Hermann T. PMID: 25423174.
      View in: PubMed   Mentions: 7     Fields:    Translation:HumansCells
    12. 2-Aminobenzoxazole ligands of the hepatitis C virus internal ribosome entry site. Bioorg Med Chem Lett. 2014 Aug 01; 24(15):3521-5. Rynearson KD, Charrette B, Gabriel C, Moreno J, Boerneke MA, Dibrov SM, Hermann T. PMID: 24930829.
      View in: PubMed   Mentions: 5     Fields:    Translation:Cells
    13. Aryl-substituted aminobenzimidazoles targeting the hepatitis C virus internal ribosome entry site. Bioorg Med Chem Lett. 2014 Jul 15; 24(14):3113-7. Ding K, Wang A, Boerneke MA, Dibrov SM, Hermann T. PMID: 24856063.
      View in: PubMed   Mentions: 3     Fields:    Translation:Cells
    14. Hepatitis C virus translation inhibitors targeting the internal ribosomal entry site. J Med Chem. 2014 Mar 13; 57(5):1694-707. Dibrov SM, Parsons J, Carnevali M, Zhou S, Rynearson KD, Ding K, Garcia Sega E, Brunn ND, Boerneke MA, Castaldi MP, Hermann T. PMID: 24138284.
      View in: PubMed   Mentions: 18     Fields:    Translation:Cells
    15. Synthesis and crystal structure of a phenazine N-oxide. J Chem Crystallogr. 2013 Oct 01; 43(10):550-553. Ding K, Dibrov SM, Hermann T. PMID: 24159257.
      View in: PubMed   Mentions:
    16. Crystal structure of a benzimidazole hepatitis C virus inhibitor free and in complex with the viral RNA target. J Chem Crystallogr. 2013 May; 43(5):235-239. Dibrov SM, Parker MA, Bergdahl BM, Hermann T. PMID: 23750099.
      View in: PubMed   Mentions:
    17. Screening for inhibitors of the hepatitis C virus internal ribosome entry site RNA. Bioorg Med Chem. 2013 Oct 15; 21(20):6139-44. Zhou S, Rynearson KD, Ding K, Brunn ND, Hermann T. PMID: 23602522.
      View in: PubMed   Mentions: 12     Fields:    Translation:CellsPHPublic Health
    18. Targeting a regulatory element in human thymidylate synthase mRNA. Chembiochem. 2012 Dec 21; 13(18):2738-44. Brunn ND, Garcia Sega E, Kao MB, Hermann T. PMID: 23143777.
      View in: PubMed   Mentions: 4     Fields:    Translation:HumansCells
    19. Structure of a hepatitis C virus RNA domain in complex with a translation inhibitor reveals a binding mode reminiscent of riboswitches. Proc Natl Acad Sci U S A. 2012 Apr 03; 109(14):5223-8. Dibrov SM, Ding K, Brunn ND, Parker MA, Bergdahl BM, Wyles DL, Hermann T. PMID: 22431596.
      View in: PubMed   Mentions: 28     Fields:    Translation:Cells
    20. Self-assembling RNA square. Proc Natl Acad Sci U S A. 2011 Apr 19; 108(16):6405-8. Dibrov SM, McLean J, Parsons J, Hermann T. PMID: 21464284.
      View in: PubMed   Mentions: 39     Fields:    Translation:Cells
    21. Structure of an RNA dimer of a regulatory element from human thymidylate synthase mRNA. Acta Crystallogr D Biol Crystallogr. 2011 Feb; 67(Pt 2):97-104. Dibrov S, McLean J, Hermann T. PMID: 21245530.
      View in: PubMed   Mentions: 6     Fields:    Translation:HumansCells
    22. (3,4-Dihy-droxy-oxolan-2-yl)methyl 4-methyl-benzene-sulfonate. Acta Crystallogr Sect E Struct Rep Online. 2010 Nov 06; 66(Pt 12):o3088. Dibrov S, Carnevali M, Hermann T. PMID: 21589395.
      View in: PubMed   Mentions:
    23. A modular approach to synthetic RNA binders of the hepatitis C virus internal ribosome entry site. Chembiochem. 2010 Jul 05; 11(10):1364-7. Carnevali M, Parsons J, Wyles DL, Hermann T. PMID: 20564282.
      View in: PubMed   Mentions: 10     Fields:    Translation:Cells
    24. A model for the study of ligand binding to the ribosomal RNA helix h44. Nucleic Acids Res. 2010 Jul; 38(13):4458-65. Dibrov SM, Parsons J, Hermann T. PMID: 20215440.
      View in: PubMed   Mentions: 8     Fields:    Translation:Cells
    25. 1,3-Diazepanes of natural product-like complexity from cyanamide-induced rearrangement of epoxy-delta-lactams. Org Lett. 2010 Jan 15; 12(2):360-3. Dutta S, Higginson CJ, Ho BT, Rynearson KD, Dibrov SM, Hermann T. PMID: 20028082.
      View in: PubMed   Mentions: 2     Fields:    Translation:Cells
    26. Conformational inhibition of the hepatitis C virus internal ribosome entry site RNA. Nat Chem Biol. 2009 Nov; 5(11):823-5. Parsons J, Castaldi MP, Dutta S, Dibrov SM, Wyles DL, Hermann T. PMID: 19767736.
      View in: PubMed   Mentions: 49     Fields:    Translation:Cells
    27. 1-Cyclo-hexyl-2-(3-fur-yl)-1H-benzimidazole-5-carboxylic acid. Acta Crystallogr Sect E Struct Rep Online. 2009 Aug 12; 65(Pt 9):o2136. Dibrov S, Dutta S, Hermann T. PMID: 21577546.
      View in: PubMed   Mentions:
    28. Aminoglycoside antibiotics: old drugs and new therapeutic approaches. Cell Mol Life Sci. 2007 Jul; 64(14):1841-52. Hermann T. PMID: 17447006.
      View in: PubMed   Mentions: 41     Fields:    Translation:HumansCells
    29. Apramycin recognition by the human ribosomal decoding site. Blood Cells Mol Dis. 2007 May-Jun; 38(3):193-8. Hermann T, Tereshko V, Skripkin E, Patel DJ. PMID: 17258916.
      View in: PubMed   Mentions: 7     Fields:    Translation:HumansCells
    30. Functional architecture of HCV IRES domain II stabilized by divalent metal ions in the crystal and in solution. Angew Chem Int Ed Engl. 2007; 46(1-2):226-9. Dibrov SM, Johnston-Cox H, Weng YH, Hermann T. PMID: 17131443.
      View in: PubMed   Mentions: 27     Fields:    Translation:Cells
    31. A-site model RNAs. Biochimie. 2006 Aug; 88(8):1021-6. Hermann T. PMID: 16872733.
      View in: PubMed   Mentions: 7     Fields:    Translation:Cells
    32. Molecular recognition of RNA by neomycin and a restricted neomycin derivative. Angew Chem Int Ed Engl. 2005 Aug 19; 44(33):5329-34. Zhao F, Zhao Q, Blount KF, Han Q, Tor Y, Hermann T. PMID: 16037995.
      View in: PubMed   Mentions: 23     Fields:    Translation:Cells
    33. Conformational constraint as a means for understanding RNA-aminoglycoside specificity. J Am Chem Soc. 2005 Jul 13; 127(27):9818-29. Blount KF, Zhao F, Hermann T, Tor Y. PMID: 15998086.
      View in: PubMed   Mentions: 24     Fields:    Translation:Cells
    34. Deciphering RNA recognition: aminoglycoside binding to the hammerhead ribozyme. Chem Biol. 1998 Nov; 5(11):R277-83. Tor Y, Hermann T, Westhof E. PMID: 9831530.
      View in: PubMed   Mentions: 26     Fields:    Translation:Cells
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