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[2023] [2022] [2021] [2020] [2019] [2018] [2017] [2016] [2015] [2014] [2013] [2012] [2011] [2010] [2009] [2008] [2007] [2005] [2004] [2002]


2023 [ top]

Gonaus C, Wieland L, Thallinger GG, Prasad S.
Ochratoxin A degrading enzymes of Stenotrophomonassp. 043-1a.
FEMS Microbiol Lett. 2023;370:fnad028. |  PMID: 37002431
Damiani T, Bonciarelli S, Thallinger GG, Koehler N, Krettler CA, Salihoglu AK, Korf A, Pauling JK, Pluskal T, Ni Z, Goracci L.
Software and Computational Tools for LC-MS-Based Epilipidomics: Challenges and Solutions.
Anal Chem. 2023;95(1):287-303 |  PMID: 36625108
2022 [ top]

Schusterbauer V, Fischer JE, Gangl S, Schenzle L, Rinnofner C, Geier M, Sailer C, Glieder A, Thallinger GG.
Whole Genome Sequencing Analysis of Effects of CRISPR/Cas9 in Komagataella phaffii: A Budding Yeast in Distress.
J Fungi (Basel). 2022;12(4):288. |  PMID: 36294556
Singh P, Irisarri I, Torres-Dowdall J, Thallinger GG, Svardal H, Lemmon EM, Lemmon AR, Koblmüller S, Meyer A, Sturmbauer C.
Phylogenomics of trophically diverse cichlids disentangles processes driving adaptive radiation and repeated trophic transitions.
Ecol Evol. 2022;12(7):e9077. |  PMID: 35866021
Pferschy-Wenzig E-M, Ortmann S, Atanasov AG, Hellauer K, Hartler J, Kunert O, Gold-Binder M, Ladurner A, Heiß EH, Latkolik S, Zhao Y-M, Raab P, Monschein M, Trummer N, Samuel B, Crockett S, Miao J-H, Thallinger GG, Bochkov V, Dirsch VM, Bauer R.
Characterization of Constituents with Potential Anti-Inflammatory Activity in Chinese Lonicera Species by UHPLC-HRMS Based Metabolite Profiling.
Metabolites. 2022;12(4):288. |  PMID: 35448474
Kuret T, Frank-Bertoncelj M, Lakota K, Žigon P, Thallinger GG, Kopitar AN, Cucnik S, Tomšic M, Hocevar A and Sodin-Šemrl S.
From Active to Non-active Giant Cell Arteritis: Longitudinal Monitoring of Patients on Glucocorticoid Therapy in Combination With Leflunomide.
Front Med. 2022;8:827095. |  PMID: 35127774
Dutta S, Moritz J, Pregartner G, Thallinger GG, Brandstätter I, Lind K, Rezania S, Lyssy F, Reinisch A, Zebisch A, Berghold A, Wölfler A, Sill H.
Comparison of acute myeloid leukemia and myelodysplastic syndromes with TP53 aberrations.
Ann Hematol. 2022;101(4):837-846. |  PMID: 35083527
2021 [ top]

Wieser F, Stryeck S, Lang K, Hahn C, Thallinger GG, Feichtinger J, Hack P, Stepponat M, Merchant N, Lindstaedt S, Oberdorfer G.
A local platform for user-friendly FAIR data management and reproducible analytics.
J Biotechnol. 2021;341:43-50. |  PMID: 34400238
Jungwirth E, Panzitt K, Marschall HU, Thallinger GG, Wagner M.
Meta-analysis and Consolidation of Farnesoid X Receptor Chromatin Immunoprecipitation Sequencing Data Across Different Species and Conditions.
Hepatology Communications. 2021;5(10):1721-1736. |  PMID: 34558825
Maier O, Spann SM, Pinter D, Gattringer T, Hinteregger N, Thallinger GG, Enzinger C, Pfeuffer J, Bredies K, Stollberger R.
Non-linear fitting with joint spatial regularization in arterial spin labeling.
Med Image Anal. 2021;71:102067. |  PMID: 33930830
Krettler CA, Thallinger GG.
A map of mass spectrometry-based in silico fragmentation prediction and compound identification in metabolomics.
Brief Bioinform. 2021;22(6):bbab073. |  PMID: 33758925
Fischer C, Koblmüller S, Börger C, Michelitsch G, Trajanoski S, Schlötterer C, Guelly C, Thallinger GG, Sturmbauer C.
Genome sequences of Tropheus moorii and Petrochromis trewavasae, two eco-morphologically divergent cichlid fishes endemic to Lake Tanganyika.
Sci Rep. 2021;11(1):4309. |  PMID: 33619328
2020 [ top]

Krettler C, Hartler J, Thallinger GG.
Identification and Quantification of Oxidized Lipids in LC-MS Lipidomics Data.
Stud Health Technol Inform. 2020;271:39-48. |  PMID: 32578539
Panzitt K, Jungwirth E, Krones E, Lee JM, Pollheimer M, Thallinger GG, Kolb-Lenz D, Xiao R, Thorell A, Trauner M, Fickert P, Marschall HU, Moore DD, Wagner M.
FXR-dependent Rubicon induction impairs autophagy in models of human cholestasis.
J Hepatol. 2020;72(6):1122-1131. |  PMID: 32001325
Borek I, Köffel R, Feichtinger J, Spies M, Glitzner-Zeis E, Hochgerner M, Sconocchia T, Krump C, Tam-Amersdorfer C, Passegger C, Benezeder T, Tittes J, Redl A, Painsi C, Thallinger GG, Wolf P, Stary G, Sibilia M, Strobl H.
BMP7 aberrantly induced in the psoriatic epidermis instructs inflammation-associated Langerhans cells.
J Allergy Clin Immunol. 2020;145(4):1194-1207. |  PMID: 31870764
2019 [ top]

Pansy K, Feichtinger J, Ehall B, Uhl B, Sedej M, Roula D, Pursche B, Wolf A, Zoidl M, Steinbauer E, Gruber V, Greinix HT, Prochazka KT, Thallinger GG, Heinemann A, Beham-Schmid C, Neumeister P, Wrodnigg TM, Fechter K, Deutsch AJ.
The CXCR4-CXCL12-Axis Is of Prognostic Relevance in DLBCL and Its Antagonists Exert Pro-Apoptotic Effects In Vitro.
Int J Mol Sci. 2019;20(19):4740. |  PMID: 31554271
Kuret T, Burja B, Feichtinger J, Thallinger GG, Frank-Bertoncelj M, Lakota K, Žigon P, Sodin-Šemrl S, Cucnik S, Tomšic M, Hocevar A.
Gene and miRNA expression in giant cell arteritis-a concise systematic review of significantly modified studies.
Clin Rheumatol. 2019;38(2):307-316. |  PMID: 30069799
Burja B, Feichtinger J, Lakota K, Thallinger GG, Sodin-Šemrl S, Kuret T, Rotar Ž, Ješe R, Žigon P, Cucnik S, Mali P, Praprotnik S, Tomšic M, Hocevar A.
Utility of serological biomarkers for giant cell arteritis in a large cohort of treatment-naive patients.
Clin Rheumatol. 2019;38(2):317-329. |  PMID: 30143961
Jungwirth E, Panzitt K, Marschall HU, Wagner M, Thallinger GG.
A Comprehensive FXR Signaling Atlas Derived from Pooled ChIP-seq Data.
Stud Health Technol Inform. 2019;260:105-112. |  PMID: 31118325
Pucher BM, Zeleznik OA*, Thallinger GG*.
Comparison and evaluation of integrative methods for the analysis of multilevel omics data: a study based on simulated and experimental cancer data.
Brief Bioinform. 2019;20:671-681. |  PMID: 29688321
Burja B, Feichtinger J, Lakota K, Thallinger GG, Sodin-Semrl S, Kuret T, Rotar Z, Jese R, Zigon P, Cucnik S, Mali P, Praprotnik S, Tomsic M, Hocevar A
Utility of serological biomarkers for giant cell arteritis in a large cohort of treatment-naïve patients.
Clin Rheumatol.. 2019;38(2):317-329. |  PMID: 30143961
Kuret T, Burja B, Feichtinger J, Thallinger GG, Frank-Bertoncelj M, Lakota K, Zigon P, Sodin-Semrl S, Cucnik S, Tomsic M, Hocevar A.
Gene and miRNA expression in giant cell arteritis-a concise systematic review of significantly modified studies.
Clin Rheumatol.. 2019;38(2):307-316. |  PMID: 30069799
Pucher BM, Zeleznik OA, Thallinger GG.
Comparison and evaluation of integrative methods for the analysis of multilevel omics data: a study based on simulated and experimental cancer data.
Brief Bioinform. 2019;20(2):671-681. |  PMID: 29688321
2018 [ top]

Fechter K*, Feichtinger J*, Prochazka K, Unterluggauer JJ, Pansy K, Steinbauer E, Pichler M, Haybaeck J, Prokesch A, Greinix HT, Beham-Schmid C, Neumeister P, Thallinger GG*, Deutsch AJA*.
Cytoplasmic location of NR4A1 in aggressive lymphomas is associated with a favourable cancer specific survival.
Sci Rep. 2018;8:14528. |  PMID: 30266952
Irisarri I*, Singh P*, Koblmüller S, Torres-Dowdall J, Henning F, Franchini P, Fischer C, Lemmon AR, Lemmon EM, Thallinger GG, Sturmbauer C, Meyer A.
Phylogenomics uncovers early hybridization and adaptive loci shaping the radiation of Lake Tanganyika cichlid fishes.
Nat Commun.. 2018;9(1):3159. |  PMID: 30089797
Schäffer S, Koblmüller S, Klymiuk I, Thallinger GG.
The mitochondrial genome of the oribatid mite Paraleius leontonychus: new insights into tRNA evolution and phylogenetic relationships in acariform mites.
Sci Rep. 2018;8(1):7558. |  PMID: 29765106
Speziali G, Liesinger L, Gindlhuber J, Leopold C, Pucher B, Brandi J, Castagna A, Tomin T, Krenn P, Thallinger GG, Olivieri O, Martinelli N, Kratky D, Schittmayer M, Birner-Gruenberger R, Cecconi D.
Myristic acid induces proteomic and secretomic changes associated with steatosis, cytoskeleton remodeling, endoplasmic reticulum stress, protein turnover and exosome release in HepG2 cells.
J Proteomics. 2018;181:118-130. |  PMID: 29654920
Tomazic PV, Liesinger L, Pucher B, Thallinger GG, Leitner A, Spoerk S, Gerstenberger C, Lang-Loidolt D, Birner-Gruenberger R.
Comparison of tear proteome in allergic rhinoconjunctivitis patients and controls with respect to pollen season.e
Allergy. 2018;73(7):1541-1543 |  PMID: 29574764
Tomin T, Fritz K, Gindlhuber J, Waldherr L, Pucher B, Thallinger GG, Nomura DK, Schittmayer M, Birner-Gruenberger R.
Deletion of Adipose Triglyceride Lipase links triacylglycerol accumulation to a more aggressive phenotype in A549 lung carcinoma cells.
J Proteome Res. 2018;17(4):1415-1425 |  PMID: 29457907
Vogl T, Sturmberger L, Fauland PC, Hyden P, Fischer JE, Schmid C, Thallinger GG, Geier M, Glieder A.
Methanol independent induction in Pichia pastoris by simple derepressed overexpression of single transcription factors.
Biotechnol Bioeng. 2018;115(4):1037-1050. |  PMID: 29280481
Burja B, Kuret T, Sodin-Semrl S, Lakota K, Rotar Z, Jese R, Mrak-Poljsak K, Zigon P, Thallinger GG, Feichtinger J, Cuscnik S, Tomsic M, Praprotnik S, Hocevar A.
A concise review of significantly modified serological biomarkers in giant cell arteritis, as detected by different methods.
Autoimmun Rev. 2018;17(2):188-194. |  PMID: 29196244
2017 [ top]

Klymiuk I, Bilgilier C, Stadlmann A, Thannesberger J, Kastner MT, Högenauer C, Püspök A, Biowski-Frotz S, Schrutka-Kölbl C, Thallinger GG, Steininger C.
The Human Gastric Microbiome Is Predicated upon Infection with Helicobacter pylori
Front. Microbiol. 2017;8:2508. |  PMID: 29312210
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.
Deciphering lipid structures based on platform-independent decision rules
Nat Methods. 2017;14(12):1171-1174. |  PMID: 29058722
Bueschl C, Kluger B, Neumann NKN, Doppler M, Maschietto V, Thallinger GG, Meng-Reiterer J, Krska R, Schuhmacher R.
MetExtract II: A Software Suite for Stable Isotope-Assisted Untargeted Metabolomics.
Anal Chem. 2017;89(17):9518-9526. |  PMID: 28787149
Lanfranchi E, Pavkov-Keller T, Koehler EM, Diepold M, Steiner K, Darnhofer B, Hartler J, Van Den Bergh T, Joosten HJ, Gruber-Khadjawi M, Thallinger GG, Birner-Gruenberger R, Gruber K, Winkler M, Glieder A.
Enzyme discovery beyond homology: a unique hydroxynitrile lyase in the Bet v1 superfamily.
Sci Rep. 2017;7:46738. |  PMID: 28466867
Planells-Palop V, Hazazi A, Feichtinger J, Jezkova J, Thallinger G, Alsiwiehri NO, Almutairi M, Parry L, Wakeman JA, McFarlane RJ.
Human germ/stem cell-specific gene TEX19 influences cancer cell proliferation and cancer prognosis.
Mol Cancer. 2017;16(1):84. |  PMID: 28446200
Halwachs B, Madhusudhan N, Krause R, Nilsson RH, Moissl-Eichinger C, Högenauer C, Thallinger GG, Gorkiewicz G.
Critical Issues in Mycobiota Analysis.
Front Microbiol. 2017;8:180. |  PMID: 28261162
Deutsch AJA, Rinner B, Pichler M, Prochazka K, Pansy K, Bischof M, Fechter K, Hatzl S, Feichtinger J, Wenzl K, Frisch MT, Stiegelbauer V, Prokesch A, Krogsdam A, Sill H, Thallinger GG, Greinix HT, Wang C, Beham-Schmid C, Neumeister P.
NR4A3 Suppresses Lymphomagenesis through Induction of Proapoptotic Genes.
Cancer Res. 2017;77(9):2375-2386. |  PMID: 28249906
2016 [ top]

Ulz P, Thallinger GG, Auer M, Graf R, Kashofer K, Jahn SW, Abete L, Pristauz G, Petru E, Geigl JB, Heitzer E, Speicher MR.
Inferring expressed genes by whole-genome sequencing of plasma DNA.
Nat Genet. 2016;48(10):1273-1278. |  PMID: 27571261
Feichtinger J, Hernández I, Fischer C, Hanscho M, Auer N, Hackl M, Jadhav V, Baumann M, Krempl PM, Schmidl C, Farlik M, Schuster M, Merkel A, Sommer A, Heath S, Rico D, Bock C, Thallinger GG, Borth N.
Comprehensive genome and epigenome characterization of CHO cells in response to evolutionary pressures and over time.
Biotechnol Bioeng. 2016;113(10):2241-2253 |  PMID: 27072894
Smith RC, King JG, Tao D, Zeleznik OA, Brando C, Thallinger GG, Dinglasan RR.
Molecular profiling of phagocytic immune cells in Anopheles gambiae reveals integral roles for hemocytes in mosquito innate immunity.
Mol Cell Proteomics. 2016. 15(11):3373-3387 |  PMID: 27624304
Valli M, Tatto NE, Peymann A, Gruber C, Landes N, Ekker H, Thallinger GG, Mattanovich D, Gasser B, Graf AB.
Curation of the genome annotation of Pichia pastoris (Komagataella phaffii) CBS7435 from gene level to protein function.
FEMS Yeast Res. 2016. 16(6):fow051 |  PMID: 27388471
Meng C, Zeleznik OA, Thallinger GG, Kuster B, Gholami AM, Culhane AC.
Dimension reduction techniques for the integrative analysis of multi-omics data.
Brief Bioinform. 2016. 17(4):628-641 |  PMID: 26969681
Gomez-Escobar N, Almobadel N, Alzahrani O, Feichtinger J, Planells-Palop V, Alshehri Z, Thallinger GG, Wakeman JA, McFarlane RJ.
Translin and Trax differentially regulate telomere-associated transcript homeostasis.
Oncotarget. 2016. 7(23):33809-33820 |  PMID: 27183912
Vogl T, Sturmberger L, Kickenweiz T, Wasmayer R, Schmid C, Hatzl AM, Gerstmann MA, Pitzer J, Wagner M, Thallinger GG, Geier M, Glieder A.
A Toolbox of Diverse Promoters Related to Methanol Utilization: Functionally Verified Parts for Heterologous Pathway Expression in Pichia pastorisi.
ACS Synth Biol. 2016. 5(2):172-186 |  PMID: 26592304
Krause R, Halwachs B, Thallinger GG, Klymiuk I, Gorkiewicz G, Hoenigl M, Prattes J, Valentin T, Heidrich K, Buzina W, Salzer HJ, Rabensteiner J, Prüller F, Raggam RB, Meinitzer A, Moissl-Eichinger C, Högenauer C, Quehenberger F, Kashofer K, Zollner-Schwetz I.
Characterisation of Candida within the Mycobiome/Microbiome of the Lower Respiratory Tract of ICU Patients.
PLoS One. 2016. 11(5):e0155033 |  PMID: 27206014
2015 [ top]

Linke R, Thallinger GG, Haarmann T, Eidner J, Schreiter M, Lorenz P, Seiboth B, Kubicek CP.
Restoration of female fertility in Trichoderma reesei QM6a provides the basis for inbreeding
in this industrial cellulase producing fungus.
Biotechnol Biofuels. 2015. 8:155 |  PMID: 26405457
Eichmann TO, Grumet L, Taschler U, Hartler J, Heier C, Woblistin A, Pajed L, Kollroser M,
Rechberger G, Thallinger GG, Zechner R, Haemmerle G, Zimmermann R, Lass A.
Adipose triglyceride lipase and comparative gene identification-58 are lipid droplet
proteins of the hepatic stellate cell-line HSC-T6.
J Lipid Res. 2015. 56(10):1972-1984 |  PMID: 26330055
Troppan K, Wenzl K, Pichler M, Pursche B, Schwarzenbacher D, Feichtinger J, Thallinger GG,
Beham-Schmid C, Neumeister P, Deutsch A.
miR-199a and miR-497 Are Associated with Better Overall Survival due to
Increased Chemosensitivity in Diffuse Large B-Cell Lymphoma Patients.
Int J Mol Sci. 2015. 16(8):18077-18095  |  PMID: 26251897
McFarlane RJ, Feichtinger J, Larcombe L.
Germline/meiotic genes in cancer: new dimensions.
Cell Cycle. 2015. 14(6):791-792  |  PMID: 25790090
Sala P, Pötz S, Brunner M, Trötzmüller M, Fauland A, Triebl A, Hartler J, Lankmayr E, Köfeler HC.
Determination of oxidized phosphatidylcholines by hydrophilic interaction liquid chromatography
coupled to fourier transform mass spectrometry.
Int J Mol Sci. 2015. 16(4):8351-8363  |  PMID: 25874761
Nasso S, Hartler J, Trajanoski Z, Di Camillo B, Mechtler K, Toffolo GM.
3DSpectra: A 3-dimensional quantification algorithm for LC-MS labeled profile data.
J Proteomics. 2015. 112:156-165  |  PMID: 25218586
2014 [ top]

Hartler J, Köfeler HC, Trötzmüller M, Thallinger GG, Spener F.
Assessment of lipidomic species in hepatocyte lipid droplets from stressed mouse models.
Sci Data. 2014. 1:140051  |  PMID: 25977802
Kluger B, Bueschl C, Neumann N, Stückler R, Doppler M, Chassy AW, Waterhouse AL, Rechthaler J,
Kampleitner N, Thallinger GG, Adam G, Krska R, Schuhmacher R.
Untargeted Profiling of Tracer-Derived Metabolites Using Stable Isotopic Labeling and Fast
Polarity-Switching LC-ESI-HRMS.
Anal Chem. 2014. 86(23):11533-11537  |  PMID: 25372979
Mairhofer J, Krempl PM, Thallinger GG, Striedner G.
Finished Genome Sequence of Escherichia coli K-12 Strain HMS174 (ATCC 47011).
Genome Announc. 2014. 2(6):e00975-14  |  PMID: 25414489
Krempl PM, Mairhofer J, Striedner G, Thallinger GG.
Finished Genome Sequence of the Laboratory Strain Escherichia coli K-12 RV308 (ATCC 31608).
Genome Announc. 2014. 2(6):e00971-14  |  PMID: 25414488
Almatrafi A, Feichtinger J, Vernon EG, Escobar NG, Wakeman JA, Larcombe LD, McFarlane RJ.
Identification of a class of human cancer germline genes with transcriptional silencing refractory to the hypomethylating drug 5-aza-2'-deoxycytidine.
Oncoscience. 2014. 1(11):745-750  |  PMID: 25594001
Bragina A, Oberauner-Wappis L, Zachow C, Halwachs B, Thallinger GG, Müller H, Berg G.
The Sphagnum microbiome supports bog ecosystem functioning under extreme conditions.
Mol Ecol. 2014. 23(18):4498-4510  |  PMID: 25113243
McFarlane RJ, Feichtinger J, Larcombe L.
Cancer germline gene activation: friend or foe?
Cell Cycle. 2014. 13(14):2151-2152  |  PMID: 25111983
Schellenberg JJ, Verbeke TJ, McQueen P, Krokhin OV, Zhang X, Alvare G, Fristensky B, Thallinger GG,
Henrissat B, Wilkins JA, Levin DB, Sparling R.
Enhanced whole genome sequence and annotation of Clostridium stercorarium DSM8532T using
RNA-seq transcriptomics and high-throughput proteomics.
BMC Genomics. 2014. 15(1):567  |  PMID: 24998381
Nilsson RH, Hyde KD, Pawlowska J, Ryberg M, Tedersoo L, Aas AB, Alias SA, Alves A, Anderson CL,
Antonelli A, Arnold AE, Bahnmann B, Bahram M, Bengtsson-Palme J, Berlin A, Branco S, Chomnunti P,
Dissanayake A, Drenkhan R, Friberg H, Frøslev TG, Halwachs B, Hartmann M, Henricot B, Jayawardena R,
Jumpponen A, Kauserud H, Koskela S, Kulik T, Liimatainen K, Lindahl BD, Lindner D, Liu JK,
Maharachchikumbura S, Manamgoda D, Martinsson S, Neves MA, Niskanen T, Nylinder S, Pereira OL,
Pinho DB, Porter TM, Queloz V, Riit T, Sánchez-García M, de Sousa F, Stefanczyk E, Tadych M,
Takamatsu S, Tian Q, Udayanga D, Unterseher M, Wang Z, Wikee S, Yan J, Larsson E, Larsson KH,
Kõljalg U, Abarenkov K.
Improving ITS sequence data for identification of plant pathogenic fungi.
Fungal Divers. 2014. 67(1):11-19  |  DOI: 10.1007/s13225-014-0291-8
Sammut SJ, Feichtinger J, Stuart N, Wakeman JA, Larcombe L, McFarlane RJ.
A novel cohort of cancer-testis biomarker genes revealed through meta-analysis of clinical data sets.
Oncoscience. 2014. 1(5):349-359  |  PMID: 25594029
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, Perez-Riverol Y, Ghali F,
Bandeira N, Xenarios I, Kohlbacher O, Vizcaino JA, Hermjakob H.
The mzTab Data Exchange Format: communicating MS-based proteomics and metabolomics experimental
results to a wider audience.
Mol Cell Proteomics. 2014. 13(10):2765-2775  |  PMID: 24980485
Alavi P, Starcher MR, Thallinger GG, Zachow C, Müller H, Berg G.
Stenotrophomonas comparative genomics reveals genes and functions that differentiate beneficial
and pathogenic bacteria.
BMC Genomics. 2014. 15(1):482  |  PMID: 24939220
Klymiuk I, Högenauer C, Halwachs B, Thallinger GG, Fricke WF, Steininger C.
A physicians' wish list for the clinical application of intestinal metagenomics.
PLoS Med. 2014. 11(4):e1001627  |  PMID: 24736271
Feichtinger J, McFarlane RJ, Larcombe LD.
CancerEST: a web-based tool for automatic meta-analysis of public EST data.
Database(Oxford). 2014. 2014(0):bau024  |  PMID: 24715218
Tomescu OA, Mattanovich D, Thallinger GG.
Integrative omics analysis. A study based on Plasmodium falciparum mRNA and protein data.
BMC Syst Biol. 2014. 8(Suppl 2):S4  |  PMID: 25033389
Näätsaari L, Krainer FW, Schubert M, Glieder A, Thallinger GG.
Peroxidase gene discovery from the horseradish transcriptome.
BMC Genomics. 2014. 15(1):227  |  PMID: 24666710
Vogl T, Thallinger GG, Zellnig G, Drew D, Cregg JM, Glieder A, Freigassner M.
Towards improved membrane protein production in Pichia pastoris: general and specific transcriptional response
to membrane protein overexpression.
N Biotechnol. 2014. 31(6):538-552  |  PMID: 24594271
Deutsch AJ, Rinner B, Wenzl K, Pichler M, Troppan K, Steinbauer E, Schwarzenbacher D, Reitter S, Feichtinger J,
Tierling S, Prokesch A, Scheideler M, Krogsdam A, Thallinger GG, Schaider H, Beham-Schmid C, Neumeister P.
NR4A1-mediated apoptosis suppresses lymphomagenesis and is associated with a favorable cancer specific
survival in patients with aggressive B-cell lymphomas.
Blood. 2014. 123(15):2367-2377  |  PMID: 24553175
El-Heliebi A, Kroneis T, Wagner K, Meditz K, Kolb D Feichtinger J, Thallinger GG, Quehenberger F, Liegl-Atzwanger B, Rinner B.
Resolving tumor heterogeneity: genes involved in chordoma cell development identified by low-template analysis of morphologically distinct cells.
PLoS One. 2014. 9(2):e87663  |  PMID: 24503940
Kienesberger S, Sprenger H, Wolfgruber S, Halwachs B, Thallinger GG, Perez-Perez GI, Blaser MJ, Zechner EL,
Gorkiewicz G.
Comparative Genome Analysis of Campylobacter fetus Subspecies Revealed Horizontally Acquired Genetic
Elements Important for Virulence and Niche Specificity.
PLoS One. 2014. 9(1):e85491  |  PMID: 24416416
Bueschl C, Kluger B, Lemmens M, Adam G, Wiesenberger G, Maschietto V, Marocco A, Strauss J, Bödi S,
Thallinger GG, Krska R, Schuhmacher R.
A novel stable isotope labelling assisted workflow for improved untargeted LC-HRMS based metabolomics research.
Metabolomics. 2014. 10:754-769.  |  PMID: 25057268
2013 [ top]

Feichtinger J, Larcombe L, McFarlane RJ.
Meta-analysis of expression of l(3)mbt tumor-associated germline genes supports the model that a soma-to-germline
transition is a hallmark of human cancers.
Int J Cancer. 2013. 134(10):2359-2365  |  PMID: 24243547
Halwachs B, Höftberger J, Stocker G, Snajder R, Gorkiewicz G, Thallinger GG.
High-Troughput Characterization and Comparison of Microbial Communities.
Biomed Tech. 2013. [Epub ahead of print]  |  PMID: 24042957
Tomescu OA, Mattanovich D, Thallinger GG.
Integrative Analysis of -Omics Data: A Method Comparison.
Biomed Tech. 2013. 58(Suppl. 1)  |  PMID: 24043020
Feichtinger J, El-Heliebi A, Kroneis T, Wagner K, Liegl-Atzwanger B, Leithner A, Thallinger GG, Rinner B.
Chordoma Low-Template Microarray Analysis.
Biomed Tech. 2013. 58(Suppl. 1)  |  PMID: 24043026
Marisch K, Bayer K, Scharl T, Mairhofer J, Krempl PM, Hummel K, Razzazi-Fazeli E, Striedner G.
A Comparative Analysis of Industrial Escherichia coli K-12 and B Strains in High-Glucose Batch Cultivations on Process-, Transcriptome- and Proteome Level.
PLoS One. 2013. 8(8):e70516  |  PMID: 23950949
Fischer C, Koblmüller S, Gülly C, Schlötterer C, Sturmbauer C, Thallinger GG.
Complete Mitochondrial DNA Sequences of the Threadfin Cichlid (Petrochromis trewavasae) and the
Blunthead Cichlid (Tropheus moorii) and Patterns of Mitochondrial Genome Evolution in Cichlid Fishes.
PLoS One. 2013. 8(6):e67048  |  PMID: 23826193
Chitraju C, Trötzmüller M, Hartler J, Wolinski H, Thallinger GG, Haemmerle G, Zechner R, Zimmermann R, Köfeler HC, Spener F.
The impact of genetic stress by ATGL deficiency on the lipidome of lipid droplets from murine hepatocytes.
J Lipid Res. 2013. 54(8):2185-2194  |  PMID: 23740967
Hartler J, Tharakan R, Köfeler HC, Graham DR, Thallinger GG.
Bioinformatics tools and challenges in structural analysis of lipidomics MS/MS data.
Brief Bioinform. 2013. 14(3):375-390  |  PMID: 22764120
Müller H, Zachow C, Alavi M, Tilcher R, Krempl PM, Thallinger GG, Berg G.
Complete Genome Sequence of the Sugar Beet Endophyte Pseudomonas poae RE*1-1-14,
a Disease-Suppressive Bacterium.
Genome Announc.. 2013. 1(2):e00020-13 |  PMID: 23516179
Gorkiewicz G, Thallinger GG, Trajanoski S, Lackner S, Stocker G, Hinterleitner T, Gülly C, Högenauer C.
Alterations in the colonic microbiota in response to osmotic diarrhea.
PLoS One. 2013. 8(2):e55817  |  PMID: 23409050
Patz S, Trattnig C, Grünbacher G, Ebner B, Gülly C, Novak A, Rinner B, Leitinger G, Absenger M,
Tomescu OA, Thallinger GG, Fasching U, Wissa SM, Archelos-Garcia JJ, Schaefer U.
More than cell dust: microparticles isolated from cerebrospinal fluid of brain injured patients
are messengers carrying mRNAs, miRNAs and proteins.
J Neurotrauma. 2013. 30(14):1232-1242 |  PMID: 23360174
Ubaida Mohien C, Colquhoun DR, Mathias DK, Gibbons JG, Armistead JS, Rodriguez MC, Rodriguez MH, Edwards NJ,
Hartler J, Thallinger GG, Graham DR, Martinez-Barnetche J, Rokas A, Dinglasan RR.
A bioinformatics approach for integrated transcriptomic and proteomic comparative analyses of model
and non-sequenced anopheline vectors of human malaria parasites.
Mol Cell Proteomics. 2013. 12(1):120-131  |  PMID: 23082028
2012 [ top]

Feichtinger J, McFarlane RJ, Larcombe L.
CancerMA: a web-based Tool for automatic Meta-analysis of public Cancer Microarray Data.
Database (Oxford). 2012. 2012:bas055 |  PMID: 23241162
Feichtinger J, Thallinger GG, McFarlane RJ, Larcombe L.
Microarray Meta-Analysis: From Data to Expression to Biological Relationships.
Computational Medicine . 2012.  | 
Feichtinger J, Aldeailej I, Anderson R, Almutairi M, Almatrafi A, Alsiwiehri N, Griffiths K, Stuart N, Wakeman JA, Larcombe L, McFarlane RJ.
Meta-analysis of clinical data using human meiotic genes identifies a novel cohort of highly restricted cancer-specific marker genes.
Oncotarget. 2012. 3(8):843-853  |  PMID: 22918178
Chitraju C, Troetzmueller M, Hartler J, Wolinski H, Thallinger GG, Lass A, Zechner R, Zimmermann R, Koefeler HC, Spener F.
Lipidomic analysis of lipid droplets from murine hepatocytes reveals distinct signatures for nutritional stress.
J Lipid Res. 2012. 53(10):2141-2152  |  PMID: 22872753
Krempl PM, Mairhofer J, Striedner G, Thallinger GG.
A Sequence Comparison and Gene Expression Data Integration Add-on for the Pathway Tools
Bioinformatics. 2012. 28(17):2283-2284  |  PMID: 22772948
Braun A, Halwachs B, Geier M, Weinhandl K, Guggemos M, Marienhagen J, Ruff AJ,
Schwaneberg U, Rabin V, Torres Pazmiño DE, Thallinger GG, Glieder A.
MuteinDB: the mutein database linking substrates, products and
enzymatic reactions directly with genetic variants of enzymes.
Database (Oxford). 2012. 2012:bas028  |  PMID: 22730453
Zeeberg BR, Reinhold W, Snajder R, Thallinger GG, Weinstein JN, Kohn KW, Pommier Y.
Functional Categories Associated with Clusters of Genes that
are Co-Expressed across the NCI-60 Cancer Cell Lines.
PLoS ONE. 2012. 7(1):e30317  |  PMID: 22291933
Thallinger GG, Obermayr E, Charoentong P, Tong D, Trajanoski Z, Zeillinger R.
A Sequence Based Validation of Gene Expression Microarray Data.
American Journal of Bioinformatics. 2012. 1(1):1-9  |  DOI: 10.3844/ajbsp.2012.1.9
Perdan-Pirkmajer K, Thallinger GG, Snoj N, Cucnik S, Zigon P, Kveder T,
Logar D, Praprotnik S, Tomsic M, Sodin-Semrl S, Ambrozic A.
Autoimmune response following influenza vaccination
in patients with autoimmune inflammatory rheumatic disease.
Lupus. 2012. 21(2):175-183  |  PMID: 22235050
Lakota K, Thallinger GG, Sodin-Semrl S, Rozman B, Ambrozic A, Tomsic M, Praprotnik S, Cucnik S,
Mrak-Poljsak K, Ceribelli A, Cavazzana I, Franceschini F, Vencovsky J, Czirjak L, Varju C,
Steiner G, Aringer M, Stamenkovic B, Distler O, Matucci-Cerinic M, Kveder T.
International cohort study of 73 anti-Ku positive patients: association of p70/p80 anti-Ku antibodies
with joint/bone features and differentiation of disease populations using principle component analysis.
Arthritis Res Ther. 2012. 14(1):R2 |  PMID: 22226402
2011 [ top]

Fauland A, Koefeler H, Troetzmueller M, Knopf A, Hartler J, Eberl A, Chitraju C, Lankmayr E, Spener F.
A comprehensive method for lipid profiling by liquid chromatography-ion cyclotron resonance mass spectrometry.
J Lipid Res. 2011. 52(12):2314-2322  |   PMID: 21960706
Marx H, Graf AB, Tatto NE, Thallinger GG, Mattanovich D, Sauer M.
Genome Sequence of the Ruminal Bacterium Megasphaera elsdenii.
J Bacteriol. 2011. 193(19):5578-5579  |   PMID: 21914887
Hofer E, Laschober GT, Hackl M, Thallinger GG, Lepperdinger G,
Grillari J, Jansen-Durr P, Trajanoski Z.
GiSAO.db: a database for ageing research.
BMC Genomics. 2011. 12(1):262  |   PMID: 21609420
Küberl A, Schneider J, Thallinger GG, Anderl I, Wibberg D, Hajek T,
Jaenicke S, Brinkrolf K, Goesmann A, Szczepanowski R, Pühler A, Schwab H, Glieder A, Pichler H.
High-quality genome sequence of Pichia pastoris CBS7435
J Biotechnol. 2011. 154(4):312-320  |   PMID: 21575661
Hartler J, Trötzmüller M, Chitraju C, Spener F, Köfeler HC, Thallinger GG.
Lipid Data Analyzer: Unattended Identification and Quantitation of
Lipids in LC-MS Data.
Bioinformatics. 2011. 27(4):572-577  |  PMID: 21169379
Lakota K, Thallinger GG, Cucnik S, Bozic B, Mrak-Poljsak K, Ambrozic A, Rozman B, Blinc A,
Tomsic M, Sodin-Semrl S.
Could antibodies against Serum Amyloid A function as physiological regulators in humans?
Autoimmunity. 2011. 44(2):149-158  |   PMID: 20701456
2010 [ top]

Laschober GT, Ruli D, Hofer E, Muck C, Carmona-Gutierrez D, Ring J, Hutter E, Ruckenstuhl C,
Micutkova L, Brunauer R, Jamnig A, Trimmel D, Herndler-Brandstetter D, Sampson N,
Breitenbach M, Fröhlich KU, Grubeck-Loebenstein B, Berger P, Wieser M, Grillari-Voglauer R,
Thallinger GG, Grillari J, Trajanoski Z, Madeo F, Lepperdinger G, Jansen-Dürr P.
Identification of evolutionarily conserved genetic regulators of
cellular aging.
Aging Cell. 2010. 9(6):1084-1097  |  PMID: 20883526
Ubaida Mohien C, Hartler J, Breitwieser F, Rix U, Remsing Rix L, Winter GE, Thallinger GG, Bennett KL, Superti-Furga G, Trajanoski Z, Colinge J.
MASPECTRAS 2: An Integration and Analysis Platform for Proteomic Data.
Proteomics. 2010. 10(14):2719-2722   |   PMID: 20455215
2009 [ top]

Schloss PD, Westcott SL, Ryabin T, Hall JR, Hartman M, Hollister EB, Lesniewski RA, Oakley BB, Parks DH, Robinson CJ, Sahl JW, Stres B, Thallinger GG, Van Horn DJ, Weber CF.
Introducing mothur: open Source, platform-independent, community-supported software for describing and comparing microbial communities.
Appl Environ Microbiol. 2009. 75:7537-7541   |   PMID: 19801464
Pabinger S, Thallinger GG, Snajder R, Eichhorn H, Rader R, Trajanoski Z.
QPCR: Application for real-time PCR data management and analysis.
BMC Bioinformatics. 2009. 10:268  |   PMID: 19712446
Pirnia F, Pawlak M, Thallinger GG, Gierke B, Templin MF, Kappeler A, Betticher DC, Gloor B, Borner MM.
Novel Functional Profiling Approach Combining Reverse Phase Protein Microarrays and Human 3D ex vivo Tissue Cultures: Expression of Apoptosis Related Proteins in Human Colon Cancer.
Proteomics. 2009. 9:3535-3548  |   PMID: 19609961
Steinkellner G, Rader R, Thallinger GG, Kratky C, Gruber K.
VASCo: computation and visualization of annotated protein surface contacts.
BMC Bioinformatics. 2009. 10:32  |   PMID: 19166624
2008 [ top]

Smit van Dixhoorn MG, Munir R, Sussman G, Stad R, de Haan M, van der Hoeven T, Rauwerda H, Breit TM, Thallinger GG, Wadee AA.
Gene expression profiling of suppressor mechanisms in tuberculosis.
Mol Immunol. 2008. 45:1573-1586  |   PMID: 18068800
2007 [ top]

Hartler J, Thallinger GG, Stocker G, Sturn A, Burkard TR, Körner E, Rader R, Schmidt A, Mechtler K, Trajanoski Z.
MASPECTRAS: a platform for management and analysis of proteomics LC-MS/MS data.
BMC Bioinformatics. 2007. 8:197  |   PMID: 17567892
Thallinger GG, Baumgartner K, Pirklbauer M, Uray M, Pauritsch E, Mehes G, Buck CR, Zatloukal K, Trajanoski Z.
TAMEE: data management and analysis for tissue microarrays.
BMC Bioinformatics. 2007. 8:81  |   PMID: 17343750
2005 [ top]

Maurer M, Molidor R, Sturn A, Hartler J, Hackl H, Stocker G, Prokesch A, Scheideler M, Trajanoski Z.
MARS: Microarray analysis, retrieval and storage system.
BMC Bioinformatics. 2005. 6:101  |   PMID: 15836795
Mlecnik B, Scheideler M, Hackl H, Hartler J, Sanchez-Cabo F , Trajanoski Z.
PathwayExplorer: web service for visualizing high-throughput expression data on biological pathways.
Nucleic Acids Res. 2005. 33: W633-W637  |   PMID: 15980551
Yu JS, Ongarello S, Fiedler R, Chen RW, Toffolo G, Cobelli C, Trajanoski Z.
Ovarian Cancer Identification Based on Dimensionality Reduction for High-Throughput Mass Spectrometry Data.
Bioinformatics. 2005. 21:2200-2209  |   PMID: 15784749
Kals M, Natter K, Thallinger GG, Trajanoski Z, Kohlwein SD.
YPL.db(2): the yeast protein localization database, version 2.0.
Yeast. 2005. 22:213-218  |   PMID: 15704222
2004 [ top]

Pieler R, Sanchez-Cabo F, Hackl H, Thallinger GG, Trajanoski Z.
ArrayNorm: Comprehensive Normalization and Analysis of Microarray Data.
Bioinformatics. 2004. 20:1971-1973  |   PMID: 15073026
2003 [ top]

2002 [ top]

Thallinger GG, Trajanoski S, Stocker G, Trajanoski Z.
Information management systems for pharmacogenomics.
Pharmacogenomics. 2002. 3:651-667  |   PMID: 12223050
Habeler G, Natter K, Thallinger GG, Crawford ME, Kohlwein SD, Trajanoski Z.
YPL.db: The yeast protein localization database.
Nucleic Acids Res. 2002. 30:80-83  |   PMID: 11752260