Publications of S Dunin-Horkawicz

Coles, M.; Dunin-Horkawicz, S.; Hartmann, M.; Lupas, A.: Revisiting HAMP in the AlphaFold age. In 8th Alpbach Workshop: Coiled Coil, Fibrous and Repeat Proteins, p. 12. 8th Alpbach Workshop: Coiled Coil, Fibrous and Repeat Proteins , Alpbach, Austria, September 04, 2022 - September 09, 2022. (2022)

Lupas, A.; Dunin-Horkawicz, S.; Martinez-Goikoetxea, M.; Hartmann, M.; Hernandez Alvarez, B.: The structural diversity of natural coiled coils. In 8th Alpbach Workshop: Coiled Coil, Fibrous and Repeat Proteins, p. 39. 8th Alpbach Workshop: Coiled Coil, Fibrous and Repeat Proteins , Alpbach, Austria, September 04, 2022 - September 09, 2022. (2022)

Madaj, R.; Kamiński, K.; Wiński, A.; Ludwiczak, J.; Dunin-Horkawicz, S.: Coiled-coil domains and AlphaFold2: friends or foes? In 8th Alpbach Workshop: Coiled Coil, Fibrous and Repeat Proteins, p. 21. 8th Alpbach Workshop: Coiled Coil, Fibrous and Repeat Proteins , Alpbach, Austria, September 04, 2022 - September 09, 2022. (2022)

Ptacek, J.; Albrecht, R.; Dunin-Horkawicz, S.; Schultz, J.; Coles, M.; Hartmann, M.; Lupas, A.: Archaeal receptor Af1503: an ideal model for structural and functional studies of transmembrane signaling. In 8th Alpbach Workshop: Coiled Coil, Fibrous and Repeat Proteins, p. 54. 8th Alpbach Workshop: Coiled Coil, Fibrous and Repeat Proteins , Alpbach, Austria, September 04, 2022 - September 09, 2022. (2022)

Krakowski, K.; Łabędzka-Dmoch, K.; Golik, P.; Dunin-Horkawicz, S.: Functional analysis of prokaryotic homologs of programmed cell death factors. In Meeting of the EMBO Young Investigator Network on Computational Methods in Ecology and Evolutionary Biology of Microbes, p. 15. Meeting of the EMBO Young Investigator Network on Computational Methods in Ecology and Evolutionary Biology of Microbes, Chęciny, Poland, July 07, 2022 - July 09, 2022. (2022)

Kubica, J.; Gront, D.; Dunin-Horkawicz, S.: Modeling of a putative programmed cell death receptor. In Meeting of the EMBO Young Investigator Network on Computational Methods in Ecology and Evolutionary Biology of Microbes, p. 26. Meeting of the EMBO Young Investigator Network on Computational Methods in Ecology and Evolutionary Biology of Microbes, Chęciny, Poland, July 07, 2022 - July 09, 2022. (2022)

Ludwiczak, J.; Winski, A.; Hernandez-Alvarez, B.; Alva, V.; Malicki, M.; Marinho da Silva Neto, A.; Szczepaniak, K.; Dunin-Horkawicz, S.: Machine learning and simulation methods for deciphering sequence-structure relationships in proteins. In BioInformatics in Torun 2019 - BIT19, p. 4. BioInformatics in Torun 2019 (BIT19), Torun, Poland, June 27, 2019 - June 29, 2019. (2019)

Ludwiczak, J.; Wiński, A.; Marinho da Silva Neto, A.; Szczepaniak, K.; Alva, V.; Dunin-Horkawicz, S.: PiPred: a deep-learning method for prediction of pi-helices in protein sequences. In BioInformatics in Torun 2019 - BIT19, p. 61. BioInformatics in Torun 2019 (BIT19), Torun, Poland, June 27, 2019 - June 29, 2019. (2019)

Ludwiczak, J.; Wiński, A.; Szczepaniak, K.; Alva, V.; Dunin-Horkawicz, S.: DeepCoil: a fast and accurate prediction of coiled-coil domains in protein sequences. In BioInformatics in Torun 2019 - BIT19, p. 40. BioInformatics in Torun 2019 (BIT19), Torun, Poland, June 27, 2019 - June 29, 2019. (2019)

Lupas, A.; Ferris, H.; Bassler, J.; Martin, J.; Schultz, J.; Dunin-Horkawicz, S.; Hartmann, M.; Coles, M.: Axial helix rotation in transmembrane signal transduction. In Journal of Bioenergetics and Biomembranes, 50 (6), p. 507. International Conference BIOMEMBRANES 2018 , Dolgoprudny, Russia, October 01, 2018 - October 05, 2018. Plenum Press., New York (2018)

Ludwiczak, J.; Jarmula, A.; Dunin-Horkawicz, S.: Increasing sequence diversity in protein design by combining Rosetta with molecular dynamics. In 7th Alpbach Workshop: Coiled Coil, Fibrous and Repeat Proteins, p. 40. 7th Alpbach Workshop: Coiled Coil, Fibrous and Repeat Proteins , Alpbach, Austria, September 03, 2017 - September 08, 2017. (2017)

Szczepaniak, K.; Ludwiczak, J.; Dunin-Horkawicz, S.: Fine-tuning of coiled coil design. In 7th Alpbach Workshop: Coiled Coil, Fibrous and Repeat Proteins, p. 18. 7th Alpbach Workshop: Coiled Coil, Fibrous and Repeat Proteins , Alpbach, Austria, September 03, 2017 - September 08, 2017. (2017)

Dunin-Horkawicz, S.: What can we learn from incorrect AlphaFold2 models? The case of signal transduction. BioConnect Seminar: Max Planck Institute for Biology, Tübingen, Germany (2024)

Martinez Goikoetxea, M.; Madaj, R.; Ludwiczak, J.; Lupas, A.; Dunin-Horkawicz, S.: Old folds can learn new tricks: Alphafold-driven insights on coiled-coil structure. 3D-BioInfo ICSB 3D-SIG ELIXIR Czech Republic Community Meeting in Structural Bioinformatics, Praha, Czech Republic (2023)

Korycinski, M.; Albrecht, R.; Ursinus, A.; Hartmann, M.; Coles, M.; Martin, J.; Dunin-Horkawicz, S.; Lupas, A.: STAC: A New Domain In Prokaryotic Transmembrane Signalling. 23rd Annual International Conference on Intelligent Systems for Molecular Biology, 14th European Conference on Computational Biology (ISMB ECCB 2015), Dublin, Ireland (2015)

Machnicka, M.; Kaminska, K.; Dunin-Horkawicz, S.; Bujnicki, J.: Phylogenomics and sequence-structure-function relationships in the GmrSD family of Type IV restriction enzymes. (2014)

Dunin-Horkawicz, S.: Coiled-coil proteins and signal transduction. Dissertation, Eberhard-Karls-Universität, Tübingen, Germany (2010)

Kanhema, T.; Parobczak, K.; Patil, S.; Holm-Kaczmarek, D.; Hallin, E.; Ludwiczak, J.; Szczepankiewicz, A.; Pauzin, F.; Szum, A.; Ishizuka, Y. et al.; Dunin-Horkawicz, S.; Kursula, P.; Wilczynski, G.; Magalska, A.; Bramham, C.: Arc/Arg3.1 binds the nuclear polyadenylate-binding protein RRM and regulates neuronal activity-dependent formation of nuclear speckles. (submitted)

Qiu, K.; Dunin-Horkawicz, S.; Lupas, A.: Exploiting protein language model sequence representations for repeat detection. (submitted)

Madaj, R.; Martinez-Goikoetxea, M.; Kaminski, K.; Ludwiczak, J.; Dunin-Horkawicz, S.: Applicability of AlphaFold2 in the modelling of coiled-coil domains. (submitted)