Hofacker I - Search Results

1

Avirulent phenotype promotes Bordetella pertussis adaptation to the intramacrophage environment.

Farman MR, Petráčková D, Kumar D, Držmíšek J, Saha A, Čurnová I, Čapek J, Hejnarová V, Amman F, Hofacker I, Večerek B. Farman MR, et al. Among authors: hofacker i. Emerg Microbes Infect. 2023 Dec;12(1):e2146536. doi: 10.1080/22221751.2022.2146536. Emerg Microbes Infect. 2023. PMID: 36357372 Free PMC article.

2

Modified RNAs and predictions with the ViennaRNA Package.

Varenyk Y, Spicher T, Hofacker IL, Lorenz R. Varenyk Y, et al. Among authors: hofacker il. Bioinformatics. 2023 Nov 1;39(11):btad696. doi: 10.1093/bioinformatics/btad696. Bioinformatics. 2023. PMID: 37971965 Free PMC article.

3

3D feasibility of 2D RNA-RNA interaction paths by stepwise folding simulations.

Beckmann IK, Waldl M, Will S, Hofacker IL. Beckmann IK, et al. Among authors: hofacker il. RNA. 2024 Jan 16;30(2):113-123. doi: 10.1261/rna.079756.123. RNA. 2024. PMID: 38071473 Free PMC article.

4

MicroRNA-Mediated Obstruction of Stem-loop Alternative Splicing (MIMOSAS): a global mechanism for the regulation of alternative splicing.

Zhai R, Ruan K, Perez GF, Kubat M, Liu J, Hofacker I, Wuchty S. Zhai R, et al. Among authors: hofacker i. Res Sq [Preprint]. 2023 Jul 28:rs.3.rs-2977025. doi: 10.21203/rs.3.rs-2977025/v1. Res Sq. 2023. PMID: 37546804 Free PMC article. Preprint.

5

Local RNA folding revisited.

Waldl M, Spicher T, Lorenz R, Beckmann IK, Hofacker IL, Löhneysen SV, Stadler PF. Waldl M, et al. Among authors: hofacker il. J Bioinform Comput Biol. 2023 Aug;21(4):2350016. doi: 10.1142/S0219720023500166. Epub 2023 Jul 28. J Bioinform Comput Biol. 2023. PMID: 37522173

6

Mono-valent salt corrections for RNA secondary structures in the ViennaRNA package.

Yao HT, Lorenz R, Hofacker IL, Stadler PF. Yao HT, et al. Among authors: hofacker il. Algorithms Mol Biol. 2023 Jul 29;18(1):8. doi: 10.1186/s13015-023-00236-0. Algorithms Mol Biol. 2023. PMID: 37516881 Free PMC article.

7

MicroRNA-Mediated Obstruction of Stem-loop Alternative Splicing (MIMOSAS): a global mechanism for the regulation of alternative splicing.

Ruan K, Perez GF, Liu J, Kubat M, Hofacker I, Wuchty S, Zhai RG. Ruan K, et al. Among authors: hofacker i. bioRxiv [Preprint]. 2023 Jun 28:2023.04.14.536877. doi: 10.1101/2023.04.14.536877. bioRxiv. 2023. PMID: 37425843 Free PMC article. Preprint.

8

Investigating RNA-RNA interactions through computational and biophysical analysis.

Mrozowich T, Park SM, Waldl M, Henrickson A, Tersteeg S, Nelson CR, De Klerk A, Demeler B, Hofacker IL, Wolfinger MT, Patel TR. Mrozowich T, et al. Among authors: hofacker il. Nucleic Acids Res. 2023 May 22;51(9):4588-4601. doi: 10.1093/nar/gkad223. Nucleic Acids Res. 2023. PMID: 36999609 Free PMC article.

9

DrTransformer: heuristic cotranscriptional RNA folding using the nearest neighbor energy model.

Badelt S, Lorenz R, Hofacker IL. Badelt S, et al. Among authors: hofacker il. Bioinformatics. 2023 Jan 1;39(1):btad034. doi: 10.1093/bioinformatics/btad034. Bioinformatics. 2023. PMID: 36655786 Free PMC article.

10

Caveats to Deep Learning Approaches to RNA Secondary Structure Prediction.

Flamm C, Wielach J, Wolfinger MT, Badelt S, Lorenz R, Hofacker IL. Flamm C, et al. Among authors: hofacker il. Front Bioinform. 2022 Jul 11;2:835422. doi: 10.3389/fbinf.2022.835422. eCollection 2022. Front Bioinform. 2022. PMID: 36304289 Free PMC article.

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