Publications

Publications 2025

Guidelines for minimal reporting requirements, design and interpretation of experiments involving the use of eukaryotic dual gene expression reporters (MINDR) (Kopie 1) (external link, opens in a new window)

Loughran G, Andreev DE, Terenin IM, Namy O, Mikl M, Yordanova MM, McManus CJ, Firth AE, Atkins JF, Fraser CS, Ignatova Z, Iwasaki S, Kufel J, Larsson O, Leidel SA, Mankin AS, Mariotti M, Tanenbaum ME, Topisirovic I, Vázquez-Laslop N, Viero G, Caliskan N, Chen Y, Clark PL, Dinman JD, Farabaugh PJ, Gilbert WV, Ivanov P, Kieft JS, Mühlemann O, Sachs MS, Shatsky IN, Sonenberg N, Steckelberg AL, Willis AE, Woodside MT, Valasek LS, Dmitriev SE, Baranov PV.
Nat Struct Mol Biol. 2025
The translational landscape of HIV-1 infected cells reveals key gene regulatory principles (Kopie 1) (external link, opens in a new window)

Kibe A, Buck S, Gribling-Burrer AS, Gilmer O, Bohn P, Koch T, Mireisz CN, Schlosser A, Erhard F, Smyth RP, Caliskan N.
Nat Struct Mol Biol. 2025
AcrVIB1 inhibits CRISPR-Cas13b immunity by promoting unproductive crRNA binding accessible to RNase attack (Kopie 1) (external link, opens in a new window)

Wandera KG, Schmelz S, Migur A, Kibe A, Lukat P, Achmedov T, Caliskan N, Blankenfeldt W, Beisel CL.
Mol Cell. 2025
Giant RNA genomes: Roles of host, translation elongation, genome architecture, and proteome in nidoviruses (Kopie 1) (external link, opens in a new window)

Neuman BW, Smart A, Gilmer O, Smyth RP, Vaas J, Böker N, Samborskiy DV, Bartenschlager R, Seitz S, Gorbalenya AE, Caliskan N, Lauber C.
Proc Natl Acad Sci USA. 2025

Guidelines for minimal reporting requirements, design and interpretation of experiments involving the use of eukaryotic dual gene expression reporters (MINDR) (Kopie 1) (external link, opens in a new window)

Loughran G, Andreev DE, Terenin IM, Namy O, Mikl M, Yordanova MM, McManus CJ, Firth AE, Atkins JF, Fraser CS, Ignatova Z, Iwasaki S, Kufel J, Larsson O, Leidel SA, Mankin AS, Mariotti M, Tanenbaum ME, Topisirovic I, Vázquez-Laslop N, Viero G, Caliskan N, Chen Y, Clark PL, Dinman JD, Farabaugh PJ, Gilbert WV, Ivanov P, Kieft JS, Mühlemann O, Sachs MS, Shatsky IN, Sonenberg N, Steckelberg AL, Willis AE, Woodside MT, Valasek LS, Dmitriev SE, Baranov PV.
Nat Struct Mol Biol. 2025

The translational landscape of HIV-1 infected cells reveals key gene regulatory principles (Kopie 1) (external link, opens in a new window)

Kibe A, Buck S, Gribling-Burrer AS, Gilmer O, Bohn P, Koch T, Mireisz CN, Schlosser A, Erhard F, Smyth RP, Caliskan N.
Nat Struct Mol Biol. 2025

AcrVIB1 inhibits CRISPR-Cas13b immunity by promoting unproductive crRNA binding accessible to RNase attack (Kopie 1) (external link, opens in a new window)

Wandera KG, Schmelz S, Migur A, Kibe A, Lukat P, Achmedov T, Caliskan N, Blankenfeldt W, Beisel CL.
Mol Cell. 2025

Giant RNA genomes: Roles of host, translation elongation, genome architecture, and proteome in nidoviruses (Kopie 1) (external link, opens in a new window)

Neuman BW, Smart A, Gilmer O, Smyth RP, Vaas J, Böker N, Samborskiy DV, Bartenschlager R, Seitz S, Gorbalenya AE, Caliskan N, Lauber C.
Proc Natl Acad Sci USA. 2025

Publications 2025

Designing the Aplysia punctata Arginine-Depleting Enzyme for Tumor Targeting (Kopie 1) (external link, opens in a new window)

Wolkersdorfer AM, Endo Y, Kehrein J, Kappus M, Hattori S, Gutmann M, Rudel T, Caliskan N, Lühmann T, Kato Y, Meinel L.
Mol Pharm.2025
Optimization of Structure-Guided Development of Chemical Probes for the Pseudoknot RNA of the Frameshift Element in SARS-CoV-2 (Kopie 1) (external link, opens in a new window)

Ceylan B, Adam J, Toews S, Kaiser F, Dörr J, Scheppa D, Tants JN, Smart A, Schoth J, Philipp S, Stirnal E, Ferner J, Richter C, Sreeramulu S, Caliskan N, Schlundt A, Weigand JE, Göbel M, Wacker A, Schwalbe H.
Angew Chem Int Ed Engl.2025

Designing the Aplysia punctata Arginine-Depleting Enzyme for Tumor Targeting (Kopie 1) (external link, opens in a new window)

Wolkersdorfer AM, Endo Y, Kehrein J, Kappus M, Hattori S, Gutmann M, Rudel T, Caliskan N, Lühmann T, Kato Y, Meinel L.
Mol Pharm.2025

Optimization of Structure-Guided Development of Chemical Probes for the Pseudoknot RNA of the Frameshift Element in SARS-CoV-2 (Kopie 1) (external link, opens in a new window)

Ceylan B, Adam J, Toews S, Kaiser F, Dörr J, Scheppa D, Tants JN, Smart A, Schoth J, Philipp S, Stirnal E, Ferner J, Richter C, Sreeramulu S, Caliskan N, Schlundt A, Weigand JE, Göbel M, Wacker A, Schwalbe H.
Angew Chem Int Ed Engl.2025

Publications 2024

Translation Inhibition Mediated by Interferon-Stimulated Genes during Viral Infections (Kopie 1) (external link, opens in a new window)

Smart A, Gilmer O, Caliskan N (2024)
Viruses 16 (7)

Publications 2023

Cis-mediated interactions of the SARS-CoV-2 frameshift RNA alter its conformations and affect function (Kopie 1) (external link, opens in a new window)

Pekarek L, Zimmer MM, Gribling-Burrer AS, Buck S, Smyth RP, Caliskan N (2023)
Nucleic Acids Research 51 (2): 728–743
SND1 binds SARS-CoV-2 negative-sense RNA and promotes viral RNA synthesis through NSP9 (Kopie 1) (external link, opens in a new window)

Schmidt N, Ganskih S, Wei Y, Gabel A, Zielinski S, Keshishian H, Lareau CA, Zimmermann L, Makroczyova J, Pearce C, …, Erhard F, Munschauer M (2023)
Cell 186 (22): 4834-4850.e23
Mouse Liver-Expressed Shiftless Is an Evolutionarily Conserved Antiviral Effector Restricting Human and Murine Hepaciviruses (Kopie 1) (external link, opens in a new window)

Zhang Y, Kinast V, Sheldon J, Frericks N, Todt D, Zimmer M, Caliskan N, Brown RJP, Steinmann E, Pietschmann T (2023)
Microbiology Spectrum 11 (4): e0128423

Cis-mediated interactions of the SARS-CoV-2 frameshift RNA alter its conformations and affect function (Kopie 1) (external link, opens in a new window)

Pekarek L, Zimmer MM, Gribling-Burrer AS, Buck S, Smyth RP, Caliskan N (2023)
Nucleic Acids Research 51 (2): 728–743

SND1 binds SARS-CoV-2 negative-sense RNA and promotes viral RNA synthesis through NSP9 (Kopie 1) (external link, opens in a new window)

Schmidt N, Ganskih S, Wei Y, Gabel A, Zielinski S, Keshishian H, Lareau CA, Zimmermann L, Makroczyova J, Pearce C, …, Erhard F, Munschauer M (2023)
Cell 186 (22): 4834-4850.e23

Mouse Liver-Expressed Shiftless Is an Evolutionarily Conserved Antiviral Effector Restricting Human and Murine Hepaciviruses (Kopie 1) (external link, opens in a new window)

Zhang Y, Kinast V, Sheldon J, Frericks N, Todt D, Zimmer M, Caliskan N, Brown RJP, Steinmann E, Pietschmann T (2023)
Microbiology Spectrum 11 (4): e0128423

Publications 2022

Short- and long-range interactions in the HIV-1 5′ UTR regulate genome dimerization and packaging (Kopie 1) (external link, opens in a new window)

Ye L, Gribling-Burrer AS, Bohn P, Kibe A, Börtlein C, Ambi UB, Ahmad S, Olguin-Nava M, Smith M, Caliskan N, von Kleist M, Smyth RP (2022)
Nature Structural & Molecular Biology 29 (4): 306-319
Spacer prioritization in CRISPR–Cas9 immunity is enabled by the leader RNA (Kopie 1) (external link, opens in a new window)

Liao C, Sharma S, Svensson SL, Kibe A, Weinberg Z, Alkhnbashi OS, Bischler T, Backofen R, Caliskan N, Sharma CM, Beisel CL (2022)
Nature Microbiology 7 (4): 530-541
Editorial: mRNA Translational Control as a Mechanism of Post-transcriptional Gene Regulation (Kopie 1) (external link, opens in a new window)

Kiss DL, Vasudevan D, Ho CK, Caliskan N (2022)
Frontiers in Molecular Biosciences 9: 947516

Short- and long-range interactions in the HIV-1 5′ UTR regulate genome dimerization and packaging (Kopie 1) (external link, opens in a new window)

Ye L, Gribling-Burrer AS, Bohn P, Kibe A, Börtlein C, Ambi UB, Ahmad S, Olguin-Nava M, Smith M, Caliskan N, von Kleist M, Smyth RP (2022)
Nature Structural & Molecular Biology 29 (4): 306-319

Spacer prioritization in CRISPR–Cas9 immunity is enabled by the leader RNA (Kopie 1) (external link, opens in a new window)

Liao C, Sharma S, Svensson SL, Kibe A, Weinberg Z, Alkhnbashi OS, Bischler T, Backofen R, Caliskan N, Sharma CM, Beisel CL (2022)
Nature Microbiology 7 (4): 530-541

Editorial: mRNA Translational Control as a Mechanism of Post-transcriptional Gene Regulation (Kopie 1) (external link, opens in a new window)

Kiss DL, Vasudevan D, Ho CK, Caliskan N (2022)
Frontiers in Molecular Biosciences 9: 947516

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