Scientific publications


Underlined: corresponding author

# Artikel
19 René Staritzbichler ; Emily Yaklich; Edoardo Sarti; Nikola Ristic; Peter W Hildebrand; Lucy Forrest
AlignMe: an update of the web server for alignment of membrane protein sequences
Accecpted for publication at Nucleic Acids Research, NAR-00675-2022
18 René Staritzbichler, Michelle Kampfrath, Guillermo Pérez Hernández, Alexander S. Rose, Johanna K.S. Tiemann, Gerik Scheuermann, Daniel Wiegreffe, Peter W. Hildebrand
MDsrv -- visual sharing and analysis of molecular dynamics simulations
Accepted for publication at Nucleic Acids Research, arXiv:2203.13658 https://doi.org/10.48550/arXiv.2203.13658
17 Sebastian Canzler, Markus Fischer, David Ulbricht, Nikola Ristic, Peter W. Hildebrand, René Staritzbichler
ProteinPrompt: a webserver for predicting protein-protein interactions
bioRxiv 2021.09.03.458859; doi: https://doi.org/10.1101/2021.09.03.458859
16 Staritzbichler R , Ristic N, Goede A, Preissner R, Hildebrand PW.
Voronoia 4-ever.
Nucleic Acids Res. 2021 Jul 2;49(W1):W685-W690. doi: 10.1093/nar/gkab466. PMID: 34107038; PMCID: PMC8265189.
15 Staritzbichler R , Sarti E, Yaklich E, Aleksandrova A, Stamm M, Khafizov K, Forrest LR.
Refining pairwise sequence alignments of membrane proteins by the incorporation of anchors.
PLoS One. 2021 Apr 30;16(4):e0239881. doi: 10.1371/journal.pone.0239881. PMID: 33930031; PMCID: PMC8087094.
14 Staritzbichler R , Hunold P, Estrela-Lopis I, Hildebrand PW, Isermann B, Kaiser T.
Raman spectroscopy on blood serum samples of patients with end-stage liver disease.
PLoS One. 2021 Sep 7;16(9):e0256045. doi: 10.1371/journal.pone.0256045. PMID: 34492024; PMCID: PMC8423274.
13 Schumacher J, Bacic T, Staritzbichler R, Daneschdar M, Klamp T, Arnold P, Jägle S, Türeci Ö, Markl J, Sahin U.
Enhanced stability of a chimeric hepatitis B core antigen virus-like-particle (HBcAg-VLP) by a C-terminal linker- hexahistidine-peptide.
J Nanobiotechnology. 2018 Apr 13;16(1):39. doi: 10.1186/s12951-018-0363-0. PMID: 29653575; PMCID: PMC5897928.
12 Staritzbichler R, Stamm M, Khafizov K, Forrest LR.
AlignMe--a membrane protein sequence alignment web server.
Nucleic Acids Res. 2014 Jul;42(Web Server issue):W246-51. doi: 10.1093/nar/gku291. Epub 2014 Apr 21. PMID: 24753425; PMCID: PMC4086118.
11 Staritzbichler R, Stamm M, Khafizov K, Forrest LR.
Alignment of helical membrane protein sequences using AlignMe.
PLoS One. 2013;8(3):e57731. doi: 10.1371/journal.pone.0057731. Epub 2013 Mar 4. PMID: 23469223; PMCID: PMC3587630.
10 Karakaş M, Woetzel N, Staritzbichler R, Alexander N, Weiner BE, Meiler J.
BCL::Fold--de novo prediction of complex and large protein topologies by assembly of secondary structure elements.
PLoS One. 2012;7(11):e49240. doi: 10.1371/journal.pone.0049240. Epub 2012 Nov 16. PMID: 23173050; PMCID: PMC3500284.
9 Woetzel N, Karakaş M, Staritzbichler R, Müller R, Weiner BE, Meiler J.
BCL::Score--knowledge based energy potentials for ranking protein models represented by idealized secondary structure elements.
PLoS One. 2012;7(11):e49242. doi: 10.1371/journal.pone.0049242. Epub 2012 Nov 16. PMID: 23173051; PMCID: PMC3500277.
8 Staritzbichler R, Anselmi C, Forrest LR, Faraldo-Gómez JD.
GRIFFIN: A versatile methodology for optimization of protein-lipid interfaces for membrane protein simulations.
J Chem Theory Comput. 2011 Apr 12;7(4):1167-1176. doi: 10.1021/ct100576m. PMID: 24707227; PMCID: PMC3972769.
7 Staritzbichler R, Khafizov K, Stamm M, Forrest LR.
A study of the evolution of inverted-topology repeats from LeuT-fold transporters using AlignMe.
Biochemistry. 2010 Dec 21;49(50):10702-13. doi: 10.1021/bi101256x. Epub 2010 Nov 23. PMID: 21073167.
6 Lindert S, Staritzbichler R, Wötzel N, Karakaş M, Stewart PL, Meiler J.
EM- fold: De novo folding of alpha-helical proteins guided by intermediate- resolution electron microscopy density maps.
Structure. 2009 Jul 15;17(7):990-1003. doi: 10.1016/j.str.2009.06.001. PMID: 19604479; PMCID: PMC3760413.
5 Koehler J, Woetzel N, Staritzbichler R, Sanders CR, Meiler J.
A unified hydrophobicity scale for multispan membrane proteins.
Proteins. 2009 Jul;76(1):13-29. doi: 10.1002/prot.22315. PMID: 19089980; PMCID: PMC2761718.
4 Durham E, Dorr B, Woetzel N, Staritzbichler R, Meiler J.
Solvent accessible surface area approximations for rapid and accurate protein structure prediction.
J Mol Model. 2009 Sep;15(9):1093-108. doi: 10.1007/s00894-009-0454-9. Epub 2009 Feb 21. PMID: 19234730; PMCID: PMC2712621.
3 Staritzbichler R, Gu W, Helms V.
Are solvation free energies of homogeneous helical peptides additive?
J Phys Chem B. 2005 Oct 13;109(40):19000-7. doi: 10.1021/jp052403x. PMID: 16853446.
2 Park Y, Elsner M, Staritzbichler R, Helms V.
Novel scoring function for modeling structures of oligomers of transmembrane alpha-helices.
Proteins. 2004 Nov 15;57(3):577-85. doi: 10.1002/prot.20229. PMID: 15382237.
1 Bartels J, Ewerz C, Staritzbichler R
Effect of the charm quark mass on the BFKL γ∗ γ∗ total cross section at LEP
Physics Letters B 492.1-2 (2000): 56-62. doi: 10.1016/S0370-2693(00)01080-7