Multi-Approach Analysis for the Identification of Proteases within Birch Pollen. McKenna OE, Posselt G, Briza P, Lackner P, Schmitt AO, Gadermaier G, Wessler S, Ferreira F. Int J Mol Sci. 2017 Jul 4;18(7). pii: E1433. PMID:  28677627
Identification of Proteases and Protease Inhibitors in Allergenic and Non-Allergenic Pollen. Höllbacher B, Schmitt AO, Hofer H, Ferreira F, Lackner P. Int J Mol Sci. 2017 Jun 5;18(6). pii: E1199. PMID:  28587253
Allergens of Blomia tropicalis: An Overview of Recombinant Molecules. Santos da Silva E, Asam C, Lackner P, Hofer H, Wallner M, Silva Pinheiro C, Alcântara-Neves NM, Ferreira F. Int Arch Allergy Immunol. 2017 Apr 29;172(4):203-214. PMID:  28456805
Influence of protein fold stability on immunogenicity and its implications for vaccine design. Scheiblhofer S, Laimer J, Machado Y, Weiss R, Thalhamer J. Expert Rev Vaccines 2017 May;16(5):479-489. PMID:  28290225


Tackling Bet v 1 and associated food allergies with a single hybrid protein. Hofer H, Asam C, Hauser M, Nagl B, Laimer J, Himly M, Briza P, Ebner C, Lang R, Hawranek T, Bohle B, Lackner P, Ferreira F, Wallner M. J Allergy Clin Immunol. 2016 Dec 7. pii: S0091-6749(16)31441-5. PMID:  27939703
MAESTROweb: a web server forstructure-based protein stability prediction. Laimer J, Hiebl-Flach J, Lengauer D, Lackner P. Bioinformatics. 2016 Jan 6. pii:btv769.
PMID: 26743508


Fold stability duringendolysosomal acidification is a key factor for allergenicity and immunogenicity of the major birch pollen allergen. Machado Y, Freier R, Scheiblhofer S, Thalhamer T, Mayr M, Briza P, Grutsch S, Ahammer L, Fuchs JE, Wallnoefer HG, Isakovic A, Kohlbauer V, Hinterholzer A,Steiner M, Danzer M, Horejs-Hoeck J, Ferreira F, Liedl KR, Tollinger M, LacknerP, Johnson CM, Brandstetter H, Thalhamer J, Weiss R. J Allergy Clin Immunol. 2015 Nov 11. pii:S0091-6749(15)01366-4. doi: 10.1016/j.jaci.2015.09.026.
PMID:  26559323
MAESTRO – multi agent stability prediction upon point mutations. Laimer J, Hofer H, Fritz M, Wegenkittl S, Lackner P. BMC Bioinformatics 2015, 16:116 doi:10.1186/s12859-015-0548-6. PMID:  25885774


Differences in the intrinsic immunogenicity and allergenicity of Bet v 1 and related food allergens revealed by site-directed mutagenesis. Roulias A, Pichler U, Hauser M, Himly M, Hofer H, Lackner P, Ebner C, Briza P, Bohle B, Egger M, Wallner M, Ferreira F. Allergy. 2013 Nov 14. doi: 10.1111/all.12306.
PMID:  24224690
D-Light on promoters: a client-server system for the analysis and visualization of cis-regulatory elements. Laimer J, Zuzan CJ, Ehrenberger T, Freudenberger M, Gschwandtner S, Lebherz C, Lackner P. BMC Bioinformatics. 2013 Apr 24;14:140. doi: 10.1186/1471-2105-14-140.
PMID:  23617301


Nitration of the pollen allergen bet v 1.0101 enhances the presentation of bet v 1-derived peptides by HLA-DR on human dendritic cells. Karle AC, Oostingh GJ, Mutschlechner S, Ferreira F, Lackner P, Bohle B, Fischer GF, Vogt AB, Duschl A. PLoS One. 2012;7(2):e31483. doi: 10.1371/journal.pone.0031483. Epub 2012 Feb 14.
PMID:  22348091


Thalhamer T, Dobias H, Stepanoska T, Pröll M, Stutz H, Dissertori O, Lackner P, Ferreira F, Wallner M, Thalhamer J, Hartl A. Designing hypoallergenic derivatives for allergy treatment by means of in silico mutation and screening. J Allergy Clin Immunol. 2010 Apr;125(4):926-934.e10.
PMID:  20371399
Mutschlechner S, Egger M, Briza P, Wallner M, Lackner P, Karle A, Vogt AB, Fischer GF, Bohle B, Ferreira F. Naturally processed T cell-activating peptides of the major birch pollen allergen. J Allergy Clin Immunol. 2010 Mar;125(3):711-8, 718.e1-718.e2. Epub 2010 Feb 4.
PMID:  20132976


Bindreither D, Lackner P. Structural diversity of calcium binding sites. In: General physiology and biophysics. Gen. Physiol. Biophys. 2009; Vol.28, Focus Issue.
Berbalk C, Schwaiger CS, Lackner P. Accuracy analysis of multiple structure alignments. Protein Sci 2009 Oct;18(10):2027-35.
PMID:  19621383
Pöll V, Denk U, Shen HD, Panzani RC, Dissertori O, Lackner P, Hemmer W, Mari A, Crameri R, Lottspeich F, Rid R, Richter K, Breitenbach M, Simon-Nobbe B. The vacuolar serine protease, a cross-reactive allergen from Cladosporium herbarum. Mol Immunol. 2009 Apr;46(7):1360-73. Epub 2009 Jan 21.
PMID:  19162325
Klinglmayr E, Hauser M, Zimmermann F, Dissertori O, Lackner P, Wopfner N, Ferreira F, Wallner M. Identification of B-cell epitopes of Bet v 1 involved in cross-reactivity with food allergens. Allergy 2009 Apr;64(4):647-51. Epub 2009 Jan 9.
PMID:  19154550


Mayr G,Lepperdinger G, Lackner P. Automated quantitative assessment of proteins’ biological function in protein knowledge bases. Hindawi Publishing Corporation, Adv Bioinformatics. 2008:897019. Epub 2008 Jun 30.
HINDAWI AIP:  897019
PMID:  19920991
Radauer C, Lackner P, Breiteneder H. The Bet v 1 fold: an ancient, versatile scaffold for binding of large, hydrophobic ligands. BMC Evolutionary Biology 2008 Oct 15;8:286.
PMID:  18922149


Mayr G, Domingues FS, Lackner P.Comparative analysis of protein structure alignments. BMC Struct Biol. 2007 Jul 26;7:50.
PMID:  17672887 [PubMed – indexed for MEDLINE]
Wallner M, Stöcklinger A, Thalhamer T, Bohle B, Vogel L, Briza P, Breiteneder H, Vieths S, Hartl A, Mari A, Ebner C, Lackner P, Hammerl P, Thalhamer J, Ferreira F. Allergy multivaccines created by DNA shuffling of tree pollen allergens. J Allergy Clin Immunol. 2007 Aug;120(2):374-80. Epub 2007 Jul 10.
PMID:  17624416 [PubMed – indexed for MEDLINE]
Wopfner N, Dissertori O, Ferreira F, Lackner P. Calcium-binding proteins and their role in allergic diseases. Immunol Allergy Clin North Am. 2007 Feb;27(1):29-44.
PMID:  17276877 [PubMed – in process]


Henn IH, Gostner JM, Lackner P, Tatzelt J, Winklhofer KF. Pathogenic mutations inactivate parkin by distinct mechanisms. J Neurochem. 2005 Jan;92(1):114-22.
PMID:  15606901 [PubMed – indexed for MEDLINE]


Prlic A, Domingues FS, Lackner P, Sippl MJ. WILMA-automated annotation of protein sequences. Bioinformatics. 2004 Jan 1;20(1):127-8.
PMID:  14693821 [PubMed – indexed for MEDLINE]
Wiederstein M., Lackner P., Kienberger F., Sippl M. (2004) Directed in silico Mutagenesis. Evolutionary Methods in Biotechnology: Wiley-VCH, 153-175 . Brakmann S. & Schwienhorst A. (eds)


Amberger A, Schneeberger S, Hernegger G, Brandacher G, Obrist P, Lackner P, Margreiter R, Mark W. Gene expression profiling of prolonged cold ischemia and reperfusion in murine heart transplants. Transplantation. 2002 Nov 27;74(10):1441-9.
PMID:  12451246 [PubMed – indexed for MEDLINE]
Lackner P. (2002) Tailor-made recombinant proteins: from computational analysis to practical application. Recent Research Developments. Proteins, Volume 1.Transworld Research Network. 2002, Trivandrum, India

2000 and earlier

Domingues F., Lackner P., Andreeva A., Sippl M. (2000) Structure based evaluation of sequence comparison and fold recognition alignment accuracy. The Journal of Molecular Biology 297(4), 1003-1013, London
Lackner P., Koppensteiner W., Sippl M., Domingues F. (2000) ProSup: a refined tool for protein structure alignment. Protein Engineering 13(11): 745-752
Domingues FS, Koppensteiner WA, Jaritz M, Prlic A, Weichenberger C, Wiederstein M, Floeckner H, Lackner P, Sippl MJ. Sustained performance of knowledge-based potentials in fold recognition. Proteins. 1999;Suppl 3:112-20.
PMID:  10526359
Lackner P, Koppensteiner WA, Domingues FS, Sippl MJ. Automated large scale evaluation of protein structure predictions. Proteins. 1999;Suppl 3:7-14.
PMID:  10526347
Sippl MJ, Ortner M, Jaritz M, Lackner P, Flockner H. Helmholtz free energies of atom pair interactions in proteins. Fold Des. 1996;1(4):289-98.
PMID:  9079391
Flockner H, Braxenthaler M, Lackner P, Jaritz M, Ortner M, Sippl MJ. Progress in fold recognition. Proteins. 1995 Nov;23(3):376-86.
PMID:  8710830
Sippl MJ, Hendlich M, Lackner P. Assembly of polypeptide and protein backbone conformations from low energy ensembles of short fragments: development of strategies and construction of models for myoglobin, lysozyme, and thymosin beta 4. Protein Sci. 1992 May;1(5):625-40.
PMID:  1304362
Hendlich M, Lackner P, Weitckus S, Floeckner H, Froschauer R, Gottsbacher K, Casari G, Sippl MJ. Identification of native protein folds amongst a large number of incorrect models. The calculation of low energy conformations from potentials of mean force. J Mol Biol. 1990 Nov 5;216(1):167-80.
PMID:  2121999