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Bioinformatics tools and challenges in structural analysis of lipidomics MS/MS data.
Hartler J, Tharakan R, Köfeler HC, Graham DR, Thallinger GG. Hartler J, et al. Brief Bioinform. 2013 May;14(3):375-90. doi: 10.1093/bib/bbs030. Epub 2012 Jul 3. Brief Bioinform. 2013. PMID: 22764120
MASPECTRAS: a platform for management and analysis of proteomics LC-MS/MS data.
Hartler J, Thallinger GG, Stocker G, Sturn A, Burkard TR, Körner E, Rader R, Schmidt A, Mechtler K, Trajanoski Z. Hartler J, et al. BMC Bioinformatics. 2007 Jun 13;8:197. doi: 10.1186/1471-2105-8-197. BMC Bioinformatics. 2007. PMID: 17567892 Free PMC article.
Lipid Data Analyzer: unattended identification and quantitation of lipids in LC-MS data.
Hartler J, Trötzmüller M, Chitraju C, Spener F, Köfeler HC, Thallinger GG. Hartler J, et al. Bioinformatics. 2011 Feb 15;27(4):572-7. doi: 10.1093/bioinformatics/btq699. Epub 2010 Dec 17. Bioinformatics. 2011. PMID: 21169379
The mzTab data exchange format: communicating mass-spectrometry-based proteomics and metabolomics experimental results to a wider audience.
Griss J, Jones AR, Sachsenberg T, Walzer M, Gatto L, Hartler J, Thallinger GG, Salek RM, Steinbeck C, Neuhauser N, Cox J, Neumann S, Fan J, Reisinger F, Xu QW, Del Toro N, Pérez-Riverol Y, Ghali F, Bandeira N, Xenarios I, Kohlbacher O, Vizcaíno JA, Hermjakob H. Griss J, et al. Mol Cell Proteomics. 2014 Oct;13(10):2765-75. doi: 10.1074/mcp.O113.036681. Epub 2014 Jun 30. Mol Cell Proteomics. 2014. PMID: 24980485 Free PMC article.
Lipidomics: Prospects from a technological perspective.
Triebl A, Hartler J, Trötzmüller M, C Köfeler H. Triebl A, et al. Biochim Biophys Acta Mol Cell Biol Lipids. 2017 Aug;1862(8):740-746. doi: 10.1016/j.bbalip.2017.03.004. Epub 2017 Mar 22. Biochim Biophys Acta Mol Cell Biol Lipids. 2017. PMID: 28341148 Free PMC article. Review.
Lipidomics by ultrahigh performance liquid chromatography-high resolution mass spectrometry and its application to complex biological samples.
Triebl A, Trötzmüller M, Hartler J, Stojakovic T, Köfeler HC. Triebl A, et al. J Chromatogr B Analyt Technol Biomed Life Sci. 2017 May 15;1053:72-80. doi: 10.1016/j.jchromb.2017.03.027. Epub 2017 Mar 24. J Chromatogr B Analyt Technol Biomed Life Sci. 2017. PMID: 28415015 Free PMC article.
Deciphering lipid structures based on platform-independent decision rules.
Hartler J, Triebl A, Ziegl A, Trötzmüller M, Rechberger GN, Zeleznik OA, Zierler KA, Torta F, Cazenave-Gassiot A, Wenk MR, Fauland A, Wheelock CE, Armando AM, Quehenberger O, Zhang Q, Wakelam MJO, Haemmerle G, Spener F, Köfeler HC, Thallinger GG. Hartler J, et al. Nat Methods. 2017 Dec;14(12):1171-1174. doi: 10.1038/nmeth.4470. Epub 2017 Oct 23. Nat Methods. 2017. PMID: 29058722 Free PMC article.
Proposal for a common nomenclature for fragment ions in mass spectra of lipids.
Pauling JK, Hermansson M, Hartler J, Christiansen K, Gallego SF, Peng B, Ahrends R, Ejsing CS. Pauling JK, et al. Among authors: hartler j. PLoS One. 2017 Nov 21;12(11):e0188394. doi: 10.1371/journal.pone.0188394. eCollection 2017. PLoS One. 2017. PMID: 29161304 Free PMC article.
Identification and Quantification of Oxidized Lipids in LC-MS Lipidomics Data.
Krettler CA, Hartler J, Thallinger GG. Krettler CA, et al. Among authors: hartler j. Stud Health Technol Inform. 2020 Jun 23;271:39-48. doi: 10.3233/SHTI200072. Stud Health Technol Inform. 2020. PMID: 32578539
GOLD.db: genomics of lipid-associated disorders database.
Hackl H, Maurer M, Mlecnik B, Hartler J, Stocker G, Miranda-Saavedra D, Trajanoski Z. Hackl H, et al. BMC Genomics. 2004 Dec 10;5(1):93. doi: 10.1186/1471-2164-5-93. BMC Genomics. 2004. PMID: 15588328 Free PMC article.
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