Publication list for
Stephan Pabinger
as author or essentially involved person

99 records (2014 - 2019)

The following list contains presentations with proceedings-entry twice, once as printed contributions, and once as presentations. In general, the total number of records given below is therefore greater than the number shown above.


Publications in Scientific Journals

22 records:
  1. A. Dander, M. Baldauf, M. Sperk, S. Pabinger, Z. Trajanoski:
    "Personalized Oncology Suite: integrating next-generation sequencing data and whole-slide bioimages";
    BMC Bioinformatics, . (2014), 15:306; ##.

  2. A. Dander, S. Pabinger, M. Sperk, M. Fischer, G. Stocker, Z. Trajanoski:
    "SeqBench: Integrated solution for the management and analysis of exome sequencing data.";
    BMC Research Notes, . (2014), 7:43; ##.

  3. V. Friedrich, C. Gruber, I. Nimeth, S. Pabinger, G. Sekot, G. Posch, F. Altmann, P. Messner, O. Andrukhov, C. Schäffer:
    "Outer membrane vesicles of Tannerella forsythia: biogenesis, composition, and virulence";
    Molecular Oral Microbiology, . (2015), ##.

  4. V. Friedrich, S. Pabinger, T. Chen, P. Messner, F. Dewhirst, C. Schäffer:
    "Draft Genome Sequence of Tannerella forsythia Type Strain ATCC 43037.";
    Genome Announcements, . (2015), 3/3; ##.

  5. M. Gencay, K. Hubner, P. Gohl, A. Seffner, M. Weizenegger, D. Neofytos, R. Batrla, A. Woeste, H. Kim, G. Westergaard, C. Reinsch, E. Brill, T. Thu, Pham Than HO & Ho Huynhh Thuy , M. Sonderup, S. Pabinger, J. Gautier, G. Brancaccio, M. Fasano, T. Santantonio, G. Gaeta, M. Nauck, W. Kaminski:
    "Ultra-deep sequencing reveals high prevalence and broad structural diversity of hepatitis B surface antigen mutations in a global population";
    Plos One, 2017 May 4;12(5) (2017), 5; 1 - 2.

  6. M. Gencay, A. Seffner, S. Pabinger, J. Gautier, P. Gohl, M. Weizenegger, D. Neofytos, R. Batrla, A. Woeste, H. Kim, G. Westergaard, C. Reinsch, E. Brill, P. Thuy, B. Hoang, M. Sonderup, W. Spearman, G. Brancaccio, M. Fasano, G. Gaeta, T. Santantonio, W. Kaminski:
    "Detection of in vivo hepatitis B virus surface antigen mutations - a comparison of four routine screening assays.";
    Journal of viral hepatitis, 4 (2018), 4; 1.

  7. M. Gencay, M. Vermeulen, D. Neofytos, G. Westergaard, S. Pabinger, A. Kriegner, A. Seffner, P. Gohl, K. Hübner, M. Nauck, W. Kaminski:
    "Substantial variation in the hepatitis B surface antigen (HBsAg) in hepatitis B virus (HBV)-positive patients from South Africa: Reliable detection of HBV by the Elecsys HBsAg II assay";
    Journal of Clinical Virology, 101 (2018), 101; 38 - 43.

  8. M. Hendling, S. Pabinger, K. Peters, N. Wolff, R. Conzemius, I. Barisic:
    "Oli2go: an automated multiplex oligonucleotide design tool";
    Nucleic Acids Research, WS (2018), 4; 1 - 2.

  9. H. Kim, X. Chen, X. Min, C. Yan, Y. Liu, D. Haohui, B. Hoang, T. Wang, Y. Yan, Z. Zeng, M. Gencay, G. Westergaard, S. Pabinger, A. Krieger, M. Nauck, A. Seffner, P. Gohl, K. Hübner, W. Kaminski:
    "Frequency of hepatitis B surface antigen variants (HBsAg) in hepatitis B virus genotype B and C infected East- and Southeast Asian patients: Detection by the Elecsys® HBsAg II assay.";
    Journal of Clinical Virology, April 2018 (2018), 2018 Apr 5;103:48-56; 48 - 56.

  10. J. Krainer, A. Weinhäusel, K. Hanak, W. Pulverer, S. Özen, K. Vierlinger, S. Pabinger:
    "EPIC-TABSAT: analysis tool for targeted bisulfite sequencing experiments and array-based methylation studies";
    Nucleic Acids Research, 1 (2019), 4; 1.

  11. F. Maghuly, J. Jankowicz-Cieslak, S. Pabinger, B. Till, M. Laimer:
    "Geographic origin is not supported by the genetic variability found in a large living collection of Jatropha curcas with accessions from three continents";
    Biotechnology Journal, . (2014), biot.201400196; ##.

  12. F. Maghuly, S. Pabinger, J. Krainer, M. Laimer:
    "The Pattern and Distribution of Induced Mutations in J. curcas Using Reduced Representation Sequencing";
    Frontiers In Plant Science, 9/2018 (2018), 9; 91.

  13. S. Pabinger, K. Ernst, W. Pulverer, R. Kallmeyer, M. Ana, S. Metrustry, D. Katic, A. Nuzzo, A. Kriegner, K. Vierlinger, A. Weinhäusel:
    "Analysis and Visualization Tool for Targeted Amplicon Bisulfite Sequencing on Ion Torrent Sequencers";
    Plos One, 11(7) (2016), 1; 1.

  14. R. Pandey, S. Pabinger, A. Kriegner, A. Weinhäusel:
    "ClinQC: a tool for quality control and cleaning of Sanger and NGS data in clinical research";
    BMC Bioinformatics, BMC Bioinformatics (2015), 17; 1 - 9.

  15. R. Pandey, S. Pabinger, A. Kriegner, A. Weinhäusel:
    "ClinQC: a tool for quality control and cleaning of Sanger and NGS data in clinical research";
    BMC Bioinformatics, 17/56 (2016), 17/56; 1.

  16. R. Pandey, S. Pabinger, A. Kriegner, A. Weinhäusel:
    "DaMold. A data-mining platform for variant annotation and visualization in molecular diagnostics research";
    Human Mutation, 2017 Apr 11 (2017), 11; 1 - 2.

  17. R. Pandey, S. Pabinger, A. Kriegner, A. Weinhäusel:
    "MutAid: Sanger and NGS Based Integrated Pipeline for Mutation Identification, Validation and Annotation in Human Molecular Genetics";
    Plos One, PLoS ONE (2016).

  18. R. Pandey, S. Pabinger, A. Kriegner, A. Weinhäusel:
    "MutAid: Sanger and NGS Based Integrated Pipeline for Mutation Identification, Validation and Annotation in Human Molecular Genetics";
    Plos One, PLoS ONE (2016), 11; 1.

  19. R. Pandey, W. Pulverer, R. Kallmeyer, G. Beikircher, S. Pabinger, A. Kriegner, A. Weinhäusel:
    "MSP-HTPrimer: a high-throughput primer design tool to improve assay design for DNA methylation analysis in epigenetics";
    Clinical Epigenetics, BioMedCentral (2016), 8; 101 - 102.

  20. R. Pandey, W. Pulverer, R. Kallmeyer, G. Beikircher, S. Pabinger, A. Kriegner, A. Weinhäusel:
    "MSRE-HTPrimer: A high-throughput and genome-wide primer design pipeline optimized for epigenetic research.";
    Clinical Epigenetics, Clinical Epigenetics (2016), 8; 1.

  21. A. Ramme, L. Koenig, T. Hasenberg, C. Schwenk, C. Magauer, D. Faust, A. Lorenz, A. Krebs, C. Drewell, K. Schirrmann, A. Vladetic, G. Lin, S. Pabinger, W. Neuhaus, F. Bois, R. Lauser, U. Marx, E. Dehne:
    "Autologous iPSC-derived four-organ-chip";
    Future Science OA, 8 (2019), 5; 1 - 12.

  22. D. Schweiger, Z. Trajanoski, S. Pabinger:
    "SPARQLGraph: a web-based platform for graphically querying biological Semantic Web databases";
    BMC Bioinformatics, . (2014), 15:279; ##.


Publications in Technical Journals

3 records:
  1. S. Pabinger, S. Rödiger, A. Kriegner, K. Vierlinger, A. Weinhäusel:
    "A survey of tools for the analysis of quantitative PCR (qPCR) data";
    Biomolecular Detection and Quantification, 1 (2014), 1; 23 - 33.

  2. S. Pabinger, R. Snajder, T. Hardiman, M. Willi, A. Dander, Z. Trajanoski:
    "MEMOSys 2.0: an update of the bioinformatics database for genome-scale models and genomic data.";
    Database, 004 (2014), ##.

  3. A. Ramme, L. Koenig, C. Schwenk, C. Magauer, D. Faust, A. Lorenz, A. Krebs, C. Drewell, K. Schirrmann, A. Vladetic, G. Lin, S. Pabinger, W. Neuhaus, F. Bois, R. Lauster, U. Marx, E. Dehne:
    "Towards an autologous iPSC-derived patient-on-a-chip";
    bioRxiv, 1 (2018), 1; 1.


Contributions to Proceedings

14 records:
  1. M. Baldauf, A. Dander, M. Sperk, S. Pabinger, Z. Trajanoski:
    "Integration of NGS Data and Images of Tissue Sections for Personalized Oncology";
    in: ".", UMIT, Hall in Tirol, 2014, ISBN: 978-3-9503191-3-2, ##.

  2. Z. Cao, Y. Liu, Y. Huang, J. Qi, M. Gencay, R. Batrla, G. Westergaard, Y. Yan, T. Wang, Z. Zeng, Y. Xia, S. Pabinger, A. Kriegner, A. Seffner, M. Weizenegger, P. Gohl, K. Hübner, M. Nauck, W. Kaminski, X. Chen:
    "High rate of hepatitis B surface antigen mutations in Chinese patients with chronic HBV infection";
    Poster: 25th Annual Conference of APASL, Tokyo, Japan; 02-20-2016 - 02-24-2016; in: "Abstracts of the 25th Annual Conference of APASL, February 20-24, 2016, Tokyo, Japan", (2016), 1.

  3. P. Hettegger, A. Weinhäusel, R. Soldo, S. Schönthaler, G. Beikircher, L. Milchram, R. Kulovics, W. Pulverer, M. Hofner, Ch. Nöhammer, S. Pabinger, K. Vierlinger:
    "Improving peptide-multiplexing technology for Lab-On-Chip autoantibody based diagnostics";
    Talk: Lab-on-a-Chip & Microfluidics 2017, München (invited); 05-10-2017 - 05-11-2017; in: "Lab-on-a-Chip & Microfluidics 2017", Elsevier Science, (2017), ISBN: 9780444511003; 1 - 2.

  4. M. Hofner, W. Pulverer, S. Pabinger, R. Soldo, P. Hettegger, R. Pandev, L. Milchram, R. Kulovics, S. Schönthaler, G. Beikircher, Ch. Nöhammer, K. Vierlinger, A. Weinhäusel:
    "PepPipe and MethPipe: pipelines for discovery and validation of DNA-methylation and antibody profiles to improve hereditary autoinflammatory disease diagnosis";
    Poster: European Human Genetics Conference - ESHG 2016, Nürnberg; 05-21-2016 - 05-24-2016; in: "European Human Genetics Conference", (2016), 1.

  5. H. Kim, L. Hwayoung, M. Gencay, S. Pabinger, A. Kriegner, G. Westergaard, A. Seffner, M. Nauck, W. Kaminski:
    "Sensitivity of ELECSYS HBsAg II assay in detection of HBsAg mutant forms in Korean HBV patients";
    Poster: 25th Annual Conference of APASL, Tokyo, Japan; 02-20-2016 - 02-24-2016; in: "Abstracts of the 25th Annual Conference of APASL, February 20-24, 2016, Tokyo, Japan", (2016), 1.

  6. L. Milchram, R. Soldo, P. Hettegger, S. Baumgartner, S. Schönthaler, J. Huber, G. Beikircher, K. Vierlinger, A. Gsur, A. Weinhäusel, S. Pabinger:
    "Evaluation of data normalization strategies for a high density immunomics technology to identify novel autoantibody signatures of colorectal polyps and ulcerative colitis";
    Talk: 11th ÖGMBT Annual Meeting 2019; Inside the World of Biomolecules., Salzburg; 09-16-2019 - 09-18-2019; in: "11th ÖGMBT Annual Meeting, Inside the world of biomolecules", (2019), 1.

  7. S. Pabinger:
    "Challenges in analysis and interpretation of clinical genetic data using different NGS Platforms and sequencing assays";
    Talk: 6. Jahrestagung der ÖGLMKC, Salzburg (invited); 11-07-2016 - 11-09-2016; in: "6. Jahrestagung der ÖGLMKC", (2016), 1 - 2.

  8. A. Weinhäusel, W. Pulverer, S. Pabinger, R. Soldo, P. Hettegger, R. Pandev, L. Milchrahm, R. Kulovics, S. Schönthaler, G. Beikircher, Ch. Nöhammer, K. Vierlinger:
    "DNA-methylation- and immunomics technologies for minimal invasive diagnostics";
    Talk: Enabling Technologies for Multiparameter Analytics, Senftenberg Germany; 06-01-2016 - 06-02-2016; in: "Enabling Technologies for Multiparameter Analytics", (2016), 1.

  9. A. Weinhäusel, W. Pulverer, S. Pabinger, R. Soldo, P. Hettegger, R. Pandev, L. Milchrahm, R. Kulovics, S. Schönthaler, G. Beikircher, Ch. Nöhammer, K. Vierlinger:
    "DNA-methylation- and immunoprofiling tools for minimal invasive (cancer) diagnostics";
    Talk: Analytical Chemistry Inst. Seminar Series,, Universität Wien; 06-16-2016; in: "Analytical Chemistry Inst. Seminar Series, Univ. Vienna", (2016), 1.

  10. A. Weinhäusel, W. Pulverer, S. Pabinger, R. Soldo, P. Hettegger, R. Pandev, L. Milchram, R. Kulovics, S. Schönthaler, G. Beikircher, Ch. Nöhammer, K. Vierlinger:
    "DNA-methylation- and immunoprofiling tools for minimal invasive cancer diagnostics";
    Talk: Science Campus Potsdam-Golm, Berlin (invited); 04-20-2016 - 04-21-2016; in: "Science Campus Potsdam-Golm", (2016), 1.

  11. A. Weinhäusel, W. Pulverer, M. Wielscher, R. Soldo, P. Hettegger, R. Pandev, L. Milchrahm, R. Kulovics, S. Schönthaler, G. Beikircher, M. Hofner, Ch. Nöhammer, S. Pabinger, K. Vierlinger:
    "Workflows for efficient discovery and validation of DNA-methylation- and autoantibody- profiles to improve minimal invasive diagnostics";
    Poster: CLEPSO- 6th Clinical Epigenetics International Meeting, Düsseldorf; 04-03-2016 - 04-04-2016; in: "CLEPSO- 6th Clinical Epigenetics International Meeting", (2016), 1.

  12. A. Weinhäusel, R. Soldo, P. Hettegger, S. Brezina, L. Milchram, E. Gmeiner, J. Fuchs-Luna, S. Rosskopf, I. Gyurjan, R. Kulovics, S. Schönthaler, G. Beikircher, M. Hofner, Ch. Nöhammer, C. Singer, A. Gsur, G. Leeb, F. Längle, J. Hofbauer, J. Söllner, S. Pabinger, K. Vierlinger:
    "Immunoprofiling - applications in biomarker development for early cancer diagnostics";
    Talk: ISPROF 2015 - Proceedings, Lissabon (invited); 09-21-2015 - 09-25-2015; in: "Book of Abstracts of the 2nd International Symposium on Profiling - ISPROF 2015", Printed by Proteomass, Portugal (2015), ISBN: 978-989-99361-5-7; 70.

  13. A. Weinhäusel, R. Soldo, P. Hettegger, R. Kulovics, S. Schönthaler, G. Beikircher, W. Pulverer, M. Hofner, S. Pabinger, K. Vierlinger, Ch. Nöhammer:
    "Immunomics technologies using protein and peptide-microarrays for antibody profiling";
    Keynote Lecture: 9th European Immunology Conference associated with antibody engineering meeting, Rom (invited); 06-14-2018 - 06-16-2018; in: "Proceedings Journal of Clinical & Cellular Immunology", Journal of Clinical & Cellular Immunology, 9 (2018), ISSN: 2155-9899; 37.

  14. C. Yan, Z. Li, X. Shi, P. Liu, R. Han, H. Li, R. Yan, Z. Li, M. Gencay, Y. Yan, T. Wang, Z. Zeng, Y. Xia, S. Pabinger, A. Kriegner, A. Seffner, G. Westergaard, M. Nauck, W. Kaminski, K. Sun:
    "Detection of HBV surface antigen mutations in patients with chronic HBV by ELECSYS HBsAg II assay";
    Poster: 25th Annual Conference of APASL, Tokyo, Japan; 02-20-2016 - 02-24-2016; in: "Abstracts of the 25th Annual Conference of APASL", (2016), 1.


Talks and Poster Presentations at Conferences

61 records:
  1. G. Beikircher, S. Pabinger, W. Pulverer, S. Ilic, A. Weinhäusel:
    "Counting the reads - a novel approach for NGS based quantitative identification of methylated DNA";
    Poster: 3rd Austrian Biomarker Symposium, Wien; 03-10-2016 - 03-11-2016.

  2. G. Beikircher, W. Pulverer, S. Pabinger, A. Valdes, C. Cooper, A. Weinhäusel:
    "High throughput PCR assays for validation of SNP genotyping markers associated with aging";
    Poster: 3rd Austrian Biomarker Symposium, Wien; 03-10-2016 - 03-11-2016.

  3. Z. Cao, Y. Liu, Y. Huang, J. Qi, M. Gencay, R. Batrla, G. Westergaard, Y. Yan, T. Wang, Z. Zeng, Y. Xia, S. Pabinger, A. Kriegner, A. Seffner, M. Weizenegger, P. Gohl, K. Hübner, M. Nauck, W. Kaminski, X. Chen:
    "High rate of hepatitis B surface antigen mutations in Chinese patients with chronic HBV infection";
    Poster: 25th Annual Conference of APASL, Tokyo, Japan; 02-20-2016 - 02-24-2016; in: "Abstracts of the 25th Annual Conference of APASL, February 20-24, 2016, Tokyo, Japan", (2016), 1.

  4. A. Dander, M. Fischer, R. Snajder, M. Sperk, M. Efremova, M. Speicher, Z. Trajanoski, S. Pabinger:
    "Comparative evaluation of tools for variant analysis of NGS data";
    Poster: 2nd Austrian Biomarker Symposium, Wien; 03-31-2014 - 04-01-2014.

  5. P. Hettegger, A. Weinhäusel, R. Soldo, S. Schönthaler, G. Beikircher, L. Milchram, R. Kulovics, W. Pulverer, M. Hofner, Ch. Nöhammer, S. Pabinger, K. Vierlinger:
    "Improving peptide-multiplexing technology for Lab-On-Chip autoantibody based diagnostics";
    Talk: Lab-on-a-Chip & Microfluidics 2017, München (invited); 05-10-2017 - 05-11-2017; in: "Lab-on-a-Chip & Microfluidics 2017", Elsevier Science, (2017), ISBN: 9780444511003; 1 - 2.

  6. M. Hofner, W. Pulverer, S. Pabinger, R. Soldo, P. Hettegger, R. Pandev, L. Milchram, R. Kulovics, S. Schönthaler, G. Beikircher, Ch. Nöhammer, K. Vierlinger, A. Weinhäusel:
    "PepPipe and MethPipe: pipelines for discovery and validation of DNA-methylation and antibody profiles to improve hereditary autoinflammatory disease diagnosis";
    Poster: European Human Genetics Conference - ESHG 2016, Nürnberg; 05-21-2016 - 05-24-2016; in: "European Human Genetics Conference", (2016), 1.

  7. M. Hofner, W. Pulverer, K. Vierlinger, M. Wielscher, R. Soldo, P. Hettegger, R. Pandev, L. Milchram, R. Kulovics, S. Schönthaler, G. Beikircher, Ch. Nöhammer, S. Pabinger, A. Weinhäusel:
    "PepPipe and MethPipe: pipelines for discovery and validation of DNA-methylation and autoantibody profiles to improve SAID diagnosis";
    Poster: 1st Symposium of the CeRUD - Vienna Cneter for Rare and Undiagnosed Diseases; 3rd International Rare and Undiagnosed Diseases Meeting, Wien; 02-19-2016 - 02-20-2016.

  8. H. Kim, L. Hwayoung, M. Gencay, S. Pabinger, A. Kriegner, G. Westergaard, A. Seffner, M. Nauck, W. Kaminski:
    "Sensitivity of ELECSYS HBsAg II assay in detection of HBsAg mutant forms in Korean HBV patients";
    Poster: 25th Annual Conference of APASL, Tokyo, Japan; 02-20-2016 - 02-24-2016; in: "Abstracts of the 25th Annual Conference of APASL, February 20-24, 2016, Tokyo, Japan", (2016), 1.

  9. J. Krainer, M. Hofner, W. Pulverer, A. Weinhäusel, K. Vierlinger, S. Pabinger:
    "Integrated whole-genome and targeted DNA methylation analysis with EPIC-TABSAT";
    Talk: German Conference on Bioniformatics, Wien; 09-25-2018 - 09-28-2018.

  10. J. Krainer, S. Pabinger, W. Pulverer, K. Ernst, A. Weinhäusel, K. Vierlinger:
    "Software tool to analyze and visualize targeted bisulfite sequencing data";
    Poster: EMBO | EMBL Symposium: From Single- to, Heidelberg; 11-12-2017 - 11-14-2017.

  11. J. Krainer, S. Pabinger, W. Pulverer, A. Weinhäusel, K. Vierlinger:
    "A user-friendly tool to create class prediction models and multivariate classification of patients";
    Poster: EMBO | EMBL Symposium: From Single- to, Heidelberg; 11-12-2017 - 11-14-2017.

  12. J. Krainer, S. Siebenhandl, S. Schönthaler, S. Nagy, S. Pabinger, S. Özen, D. Föll, M. Gattorno, A. Weinhäusel:
    "Immunomics profiling of patients with systemic autoinflammatory diseases using protein microarrays";
    Talk: 11th ÖGMBT Annual Meeting 2019; Inside the World of Biomolecules., Salzburg; 09-16-2019 - 09-18-2019.

  13. F. Maghuly, J. Jankowicz-Cieslak, S. Pabinger, M. Laimer:
    "High Throughput Polymorphism Discovery and Genotyping in a Mutant Population of Jatropha curcas";
    Poster: Plant & Animal Genome XXII, San Diego, California; 01-11-2014 - 01-15-2014.

  14. F. Maghuly, D. Tamas, K. Vierlinger, S. Pabinger, M. Laimer:
    "Genome-wide analyses of gene expression in different developmental stages of Jatropha curcas seeds";
    Poster: Austrian Society of Plant Biology - 21 Meeting ATSPB, Berchtesgaden; 05-26-2016 - 05-28-2016.

  15. L. Milchram, R. Soldo, P. Hettegger, S. Baumgartner, S. Schönthaler, J. Huber, G. Beikircher, K. Vierlinger, A. Gsur, A. Weinhäusel, S. Pabinger:
    "Evaluation of data normalization strategies for a high density immunomics technology to identify novel autoantibody signatures of colorectal polyps and ulcerative colitis";
    Talk: 11th ÖGMBT Annual Meeting 2019; Inside the World of Biomolecules., Salzburg; 09-16-2019 - 09-18-2019; in: "11th ÖGMBT Annual Meeting, Inside the world of biomolecules", (2019), 1.

  16. S. Pabinger:
    "AIT Austrian Institute of Technology";
    Talk: Health Europe Brokerage Event, Paris; 01-13-2016.

  17. S. Pabinger:
    "Analysis of targeted bisulfite sequencing PGMTM data";
    Talk: Ion World 2016, Vienna (invited); 10-13-2016 - 10-14-2016.

  18. S. Pabinger:
    "Challenges in analysis and interpretation of clinical genetic data using different NGS Platforms and sequencing assays";
    Talk: 6. Jahrestagung der ÖGLMKC, Salzburg (invited); 11-07-2016 - 11-09-2016; in: "6. Jahrestagung der ÖGLMKC", (2016), 1 - 2.

  19. S. Pabinger:
    "Cloud-enabled framework for data storage and analysis of large scale NGS experiments";
    Talk: Lifescience R&D Big Data Leaders Forum, Berlin, Deutschland; 12-11-2014 - 12-12-2014.

  20. S. Pabinger:
    "Integrated software for analyzing NGS data in molecular diagnostic settings";
    Talk: Molecular Diagnostics World Summit 2016, London (invited); 05-19-2016 - 05-20-2016.

  21. S. Pabinger:
    "Lessons of a bioinformatician";
    Talk: FH Hagenberg, Hagenberg (invited); 11-25-2015.

  22. S. Pabinger:
    "Pipeline for Genome Assembly, Gene Finding, and Gene Annotation";
    Talk: CIBIV - Max F. Perutz Laboratories, Wien (invited); 10-27-2014.

  23. S. Pabinger:
    "Platform for data storage and analysis of sequencing experiments within a clinical context";
    Talk: ingeladener Vortrag am St. Anna Kinderspital Wien, Wien (invited); 11-21-2014.

  24. S. Pabinger:
    "Platform for Streamlined Genome Assembly, Gene Finding, and Gene Annotation";
    Talk: 8th Bioinformatics Round Table Discussion, Wien (invited); 10-03-2014.

  25. S. Pabinger:
    "Software tool to analyze targeted bisulfite sequencing data for biomarker validation";
    Poster: 6th Munich Biomarker Conference, München; 11-29-2016.

  26. S. Pabinger:
    "Targeted bisulfite sequencing and analysis using a novel software";
    Talk: Illumina User Days, Vienna; 09-18-2017.

  27. S. Pabinger:
    "Tools for variant analysis of next-generation genome sequencing data";
    Talk: EMBO -Bioinformatics and genome analyses, Italien (invited); 06-27-2019.

  28. S. Pabinger, Y. Ahmadi, R. Soldo, P. Glaser, K. Vierlinger, I. Barisic:
    "Designing functional molecules with DNArchitect";
    Poster: GCB - German Conference on Bioinformatics 2018, Wien; 09-26-2018 - 09-28-2018.

  29. S. Pabinger, Y. Ahmadi, R. Soldo, P. Glaser, K. Vierlinger, I. Barisic:
    "Designing functional molecules with DNArchitect";
    Poster: GCB - German Conference on Bioinformatics 2018, Wien; 09-26-2018 - 09-28-2018.

  30. S. Pabinger, S. Brauneis, J. Palme, N. Stein, A. Kovacs, P. Ulz, E. Heitzer, M. Speicher, K. Vierlinger:
    "Evaluation Study: Detecting Copy Number Alteration In Ctdna Using Low-Coverage Whole-Genome Sequencing Data";
    Poster: ACTC - 3rd ACTC Advances in Circulating Tumour Cells, Rhodos; 10-04-2017 - 10-07-2017.

  31. S. Pabinger, K. Ernst, W. Pulverer, R. Kallmeyer, M. Ana, S. Metrustry, D. Katic, A. Nuzzo, A. Kriegner, K. Vierlinger, A. Weinhäusel:
    "Analysis and Visualization of Targeted Bisulfite Sequencing Data";
    Talk: International Conference on Genomics and Bioinformatics, Izmir (invited); 05-07-2016.

  32. S. Pabinger, D. Katic, A. Krolo, T. Hirschmugl, K. Boztug, A. Kriegner, K. Vierlinger:
    "Interactive software for the integrated analysis and identification of rare and undiagnosed diseases using NGS data";
    Poster: RE(ACT) Congress, Barcelona, Spain; 03-09-2016 - 03-12-2016.

  33. S. Pabinger, D. Katic, A. Krolo, T. Hirschmugl, K. Boztug, A. Kriegner, K. Vierlinger:
    "Interactive software for the integrated analysis and identification of rare and undiagnosed diseases using NGS data";
    Poster: 1st Symposium of the Vienna Center for Rare and Undiagnosed Diseases, Wien; 02-19-2016 - 02-20-2016.

  34. S. Pabinger, D. Katic, A. Krolo, T. Hirschmugl, K. Boztug, A. Kriegner, K. Vierlinger:
    "Interactive software for the integrated analysis and identification of rare and undiagnosed diseases using NGS data";
    Poster: European Human Genetics Conference - ESHG 2016, Barcelona, Spain; 05-21-2016 - 05-24-2016.

  35. S. Pabinger, J. Krainer, P. Lang, R. Pandey, W. Pulverer, G. Beikircher, K. Hanak, M. Hofner, A. Weinhäusel, K. Vierlinger:
    "From Design To Result: A Complete Workflow For Targeted Bisulfite Sequencing Of Liquid Biopsy And Ffpe Samples";
    Poster: CCC-TRIO Translational Research & Immuno-Onclolgy 2018, Wien; 04-06-2018 - 04-07-2018.

  36. S. Pabinger, R. Kreuzhuber, R. Pandey, K. Vierlinger, A. Kriegner:
    "XASSEMBLY: Platform for automated genome assembly, gene finding, and gene annotation";
    Poster: Genome Informatics 2014, Churchill College, Cambridge, UK; 09-21-2014 - 09-24-2014.

  37. S. Pabinger, R. Kreuzhuber, K. Vierlinger, A. Kriegner:
    "Pipeline for streamlined genome assembly, gene finding, and gene annotation";
    Poster: ÖGMBT 2014, Wien; 09-15-2014 - 09-18-2014.

  38. S. Pabinger, R. Kreuzhuber, K. Vierlinger, A. Kriegner:
    "SEDAN: A cloud enabled platform for analyzing and storing sequencing experiments within a clinical context";
    Poster: ESHG 2015, Glasgow; 06-06-2015 - 06-09-2015.

  39. S. Pabinger, P. Lang, K. Vierlinger:
    "HPC infrastructure at the AIT bioinformatics group: update and outlook";
    Talk: Second meeting of the workgroup infrastructure and HPC of the Austrian Bioinformatics Platform, Linz (invited); 02-22-2018.

  40. S. Pabinger, P. Lang, K. Vierlinger, A. Weinhäusel:
    "AIT biomarker discovery, bioinformatics, and biosensor development for upcoming H2020 projects";
    Talk: Successful R&I in Europe 2018, Düsseldorf; 03-15-2018 - 03-16-2018.

  41. S. Pabinger, A. Majewski, M. Hofner, W. Pulverer, P. Bauerstätter, S. Eile, J. Krainer, A. Weinhäusel, K. Vierlinger:
    "DAILYqpcr - An Application For Revolutionizing Designing, Storing, And Analyzing QPCR Experiments";
    Talk: 9th Gene Quantification Event qPCR dPCR & NGS 2019, Freising; 03-18-2019 - 03-20-2019.

  42. S. Pabinger, F. Schroeder, A. Kriegner, K. Vierlinger:
    "Bioinformatics for Molecular Diagnostics: Omics Data Analysis";
    Poster: 2nd Austrian Biomarker Symposium, Wien; 03-31-2014 - 04-01-2014.

  43. W. Pulverer, G. Beikircher, P. Hettegger, M. Hofner, R. Kulovics, Ch. Nöhammer, S. Schönthaler, R. Soldo, S. Pabinger, F. Schröder, R. Pandey, K. Vierlinger, A. Weinhäusel:
    "DNA-methylation and autoantibody technologies for minimal invasive diagnostics";
    Talk: 2nd International DiMoPEx Conference, Bentivoglio; Italy (invited); 10-30-2017 - 10-31-2017.

  44. K. Vierlinger, S. Pabinger, R. Kallmeyer, W. Pulverer, K. Ernst, A. Weinhäusel:
    "Software tool for the analysis and visualization of targeted bisulfite sequencing data";
    Poster: 3rd Austrian Biomarker Symposium 2016, Wien; 03-10-2016 - 03-11-2016.

  45. M. Weber, K. Vierlinger, S. Pabinger, M. Wielscher, Ch. Nöhammer, A. Weinhäusel:
    "DNA Methylation Biomarkers for Lung Cancer From tissue based discovery to cell free DNA methylation testing";
    Talk: Biomarker World Congress Toronto, Toronto (invited); 08-31-2015 - 09-02-2015.

  46. A. Weinhäusel, P. Hettegger, R. Soldo, S. Schönthaler, G. Beikircher, L. Milchram, R. Kulovics, W. Pulverer, M. Hofner, Ch. Nöhammer, S. Pabinger, K. Vierlinger:
    "Improving peptide-multiplexing technology for Lab-On-Chip autoantibody based diagnostics";
    Talk: Lab-on-a-Chip & Microfluidics 2017, München (invited); 05-10-2017 - 05-11-2017.

    More information

  47. A. Weinhäusel, J. Krainer, S. Siebenhandl, S. Schönthaler, S. Nagy, S. Pabinger, S. Özen, D. Föll, M. Gattorno:
    "Immunomics profiling of patients with systemic autoinflammatory diseases using protein microarrays";
    Poster: 14th Dresden Symposium on Autoantibodies, Dresden; 09-10-2019 - 09-13-2019.

  48. A. Weinhäusel, W. Pulverer, S. Pabinger, R. Soldo, P. Hettegger, R. Pandev, L. Milchram, R. Kulovics, S. Schönthaler, G. Beikircher, Ch. Nöhammer, K. Vierlinger:
    "DNA-methylation- and immunoprofiling tools for minimal invasive cancer diagnostics";
    Talk: Science Campus Potsdam-Golm, Berlin (invited); 04-20-2016 - 04-21-2016; in: "Science Campus Potsdam-Golm", (2016), 1.

  49. A. Weinhäusel, W. Pulverer, R. Soldo, P. Hettegger, L. Milchram, S. Schönthaler, J. Huber, R. Kulovics, M. Hofner, S. Pabinger, Ch. Nöhammer, K. Vierlinger:
    "Epigenomics and Immunomics for minimal invasive biomarker development";
    Talk: Taste of Genomics meeting and and 13th CFGBC Scientific Symposium, Ljubljana; 06-20-2018 - 06-21-2018.

  50. A. Weinhäusel, W. Pulverer, M. Wielscher, G. Beikircher, S. Schönthaler, M. Hofner, Ch. Nöhammer, S. Pabinger, K. Vierlinger:
    "High-throughput DNA methylation analysis for cancer biomarker development using the Fluidigm Biomark HD system";
    Talk: 25th Biennial Congress of the European Association of Cancer, Amsterdam; 06-30-2018 - 07-03-2018.

  51. A. Weinhäusel, W. Pulverer, M. Wielscher, R. Soldo, P. Hettegger, R. Pandev, L. Milchrahm, R. Kulovics, S. Schönthaler, G. Beikircher, M. Hofner, Ch. Nöhammer, S. Pabinger, K. Vierlinger:
    "Workflows for efficient discovery and validation of DNA-methylation- and autoantibody- profiles to improve minimal invasive diagnostics";
    Poster: CLEPSO- 6th Clinical Epigenetics International Meeting, Düsseldorf; 04-03-2016 - 04-04-2016; in: "CLEPSO- 6th Clinical Epigenetics International Meeting", (2016), 1.

  52. A. Weinhäusel, R. Soldo, P. Hettegger, S. Brezina, L. Milchram, E. Gmeiner, J. Fuchs-Luna, S. Rosskopf, I. Gyurjan, R. Kulovics, S. Schönthaler, G. Beikircher, M. Hofner, Ch. Nöhammer, C. Singer, A. Gsur, G. Leeb, F. Längle, J. Hofbauer, J. Söllner, S. Pabinger, K. Vierlinger:
    "Immunoprofiling and Biomarker-development using Protein-microarrays";
    Talk: SCIENION workshop "DIAGNOSTICS 5.0 - Partnering for Tomorrow´s Medical Care", Berlin (invited); 09-17-2015 - 09-18-2015.

  53. A. Weinhäusel, R. Soldo, P. Hettegger, S. Brezina, L. Milchram, E. Gmeiner, J. Fuchs-Luna, S. Rosskopf, I. Gyurjan, R. Kulovics, S. Schönthaler, G. Beikircher, M. Hofner, Ch. Nöhammer, C. Singer, A. Gsur, G. Leeb, F. Längle, J. Hofbauer, J. Söllner, S. Pabinger, K. Vierlinger:
    "Innovative technologies for minimal invasive diagnostics";
    Talk: EPMA 2015, Bonn (invited); 09-03-2015 - 09-05-2015.

  54. A. Weinhäusel, R. Soldo, P. Hettegger, R. Kulovics, S. Schönthaler, G. Beikircher, W. Pulverer, M. Hofner, S. Pabinger, K. Vierlinger, Ch. Nöhammer:
    "Immunomics technologies using protein and peptide-microarrays for antibody profiling";
    Keynote Lecture: 9th European Immunology Conference associated with antibody engineering meeting, Rom (invited); 06-14-2018 - 06-16-2018; in: "Proceedings Journal of Clinical & Cellular Immunology", Journal of Clinical & Cellular Immunology, 9 (2018), ISSN: 2155-9899; 37.

  55. A. Weinhäusel, R. Soldo, P. Hettegger, W. Pulverer, L. Milchram, S. Schönthaler, J. Huber, M. Hofner, Ch. Nöhammer, S. Pabinger, K. Vierlinger:
    "DNA-Methylierungs- und Autoantikörper-Technologien zur Entwicklung neuer minimal invasiver Diagnostik-Lösungen";
    Talk: BIGMED-Kongress 2019, Krems; 10-04-2019 - 10-05-2019.

  56. A. Weinhäusel, R. Soldo, P. Hettegger, W. Pulverer, L. Milchram, S. Schönthaler, J. Huber, M. Hofner, Ch. Nöhammer, S. Pabinger, K. Vierlinger:
    "Epigenomics and Immunomics pipelines assisting minimal invasive diagnostics & biomarker development";
    Talk: M2 Meeting, MMM Workshop 2019, Vienna; 09-30-2019 - 10-02-2019.

  57. A. Weinhäusel, R. Soldo, P. Hettegger, W. Pulverer, L. Milchram, S. Schönthaler, J. Huber, M. Hofner, Ch. Nöhammer, S. Pabinger, K. Vierlinger:
    "Epigenomics and immunomics pipelines assisting minimal invasive diagnostics and biomarker development";
    Talk: 13th World Biomarkers and Clinical Research & 5th International Congress on Epigenetics &Chromatin, Vienna (invited); 08-22-2019 - 08-23-2019.

  58. A. Weinhäusel, R. Soldo, P. Hettegger, S. Schönthaler, L. Milchram, R. Kulovics, M. Hofner, Ch. Nöhammer, S. Pabinger, K. Vierlinger:
    "Immunomics technologies using protein and peptide microarrays for antibody profiling";
    Talk: 15th International Conference on Immunology, Vienna (invited); 07-05-2018 - 07-07-2018.

  59. A. Weinhäusel, R. Soldo, P. Hettegger, S. Schönthaler, L. Milchram, R. Kulovics, M. Hofner, Ch. Nöhammer, S. Pabinger, K. Vierlinger:
    "Immunomics technologies using protein and peptide microarrays for antibody profiling";
    Talk: 15th International Conference on Immunology, Vienna; 07-05-2018 - 07-07-2018.

  60. A. Weinhäusel, R. Soldo, L. Milchram, S. Schönthaler, J. Huber, P. Hettegger, M. Hofner, Ch. Nöhammer, S. Pabinger, K. Vierlinger:
    "PepPipe - an immunomics workflow elucidating antigenic peptide biomarker signatures for minimal invasive diagnostics";
    Talk: TMB & Neoantigen Congress 2019, London, UK; 10-10-2019 - 10-11-2019.

  61. C. Yan, Z. Li, X. Shi, P. Liu, R. Han, H. Li, R. Yan, Z. Li, M. Gencay, Y. Yan, T. Wang, Z. Zeng, Y. Xia, S. Pabinger, A. Kriegner, A. Seffner, G. Westergaard, M. Nauck, W. Kaminski, K. Sun:
    "Detection of HBV surface antigen mutations in patients with chronic HBV by ELECSYS HBsAg II assay";
    Poster: 25th Annual Conference of APASL, Tokyo, Japan; 02-20-2016 - 02-24-2016; in: "Abstracts of the 25th Annual Conference of APASL", (2016), 1.


Other Talks and Poster Presentations

6 records:
  1. S. Pabinger:
    "Genome Structural Variant Analyses - Tools for variant analysis of next-generation genome sequencing data";
    Talk: Institut Pasteur Tunis, Tunis (invited); 11-12-2018.

  2. S. Pabinger, R. Kallmeyer, W. Pulverer, K. Ernst, K. Vierlinger, A. Weinhäusel:
    "Analysis and visualization of targeted bisulfite sequencing data";
    Talk: 7. Jahrestagung der ÖGMBT, Salzburg; 09-11-2015.

  3. W. Pulverer, S. Pabinger, M. Hofner, K. Vierlinger, S. Schönthaler, G. Beikircher, P. Lang, J. Krainer, A. Weinhäusel:
    "Epigenomics - Validation strategies for DNA methylation signatures";
    Poster: Life and Brain, Bonn (invited); 09-19-2017.

  4. A. Weinhäusel, W. Pulverer, S. Pabinger, R. Soldo, P. Hettegger, R. Pandev, L. Milchrahm, R. Kulovics, S. Schönthaler, G. Beikircher, Ch. Nöhammer, K. Vierlinger:
    "DNA-methylation- and immunomics technologies for minimal invasive diagnostics";
    Talk: Enabling Technologies for Multiparameter Analytics, Senftenberg Germany; 06-01-2016 - 06-02-2016; in: "Enabling Technologies for Multiparameter Analytics", (2016), 1.

  5. A. Weinhäusel, W. Pulverer, S. Pabinger, R. Soldo, P. Hettegger, R. Pandev, L. Milchrahm, R. Kulovics, S. Schönthaler, G. Beikircher, Ch. Nöhammer, K. Vierlinger:
    "DNA-methylation- and immunoprofiling tools for minimal invasive (cancer) diagnostics";
    Talk: Analytical Chemistry Inst. Seminar Series,, Universität Wien; 06-16-2016; in: "Analytical Chemistry Inst. Seminar Series, Univ. Vienna", (2016), 1.

  6. A. Weinhäusel, R. Soldo, P. Hettegger, S. Brezina, L. Milchram, E. Gmeiner, J. Fuchs-Luna, S. Rosskopf, I. Gyurjan, R. Kulovics, S. Schönthaler, G. Beikircher, M. Hofner, Ch. Nöhammer, C. Singer, A. Gsur, G. Leeb, F. Längle, J. Hofbauer, J. Söllner, S. Pabinger, K. Vierlinger:
    "Immunoprofiling - applications in biomarker development for early cancer diagnostics";
    Talk: ISPROF 2015 - Proceedings, Lissabon (invited); 09-21-2015 - 09-25-2015; in: "Book of Abstracts of the 2nd International Symposium on Profiling - ISPROF 2015", Printed by Proteomass, Portugal (2015), ISBN: 978-989-99361-5-7; 70.


Lectures

5 records:
  1. S. Pabinger:
    "Computational Concepts in Biology II; Variant calling | Variant annotation | Variant visualization";
    Lecture: Universität Wien, Wien; 05-08-2019.

  2. S. Pabinger:
    "Medizinische Genomanalysen";
    Lecture: FH Campus Wien, Wien; 05-24-2019 - 06-27-2019.

  3. S. Pabinger:
    "Tools for variant analysis of Next Generation Genome Sequencing data";
    Lecture: EMBO: Bioinformatics & Genome Analyses, Thessaloniki, Griechenland; 06-10-2017 - 06-14-2017.

  4. S. Pabinger:
    "Tools for variant analysis of next-generation genome sequencing data";
    Lecture: EMBO Practical course: Bioinformatics and Genome Analyses, Athen, Griechenland; 05-05-2014 - 05-17-2014.

  5. S. Pabinger:
    "Tools for variant analysis of next-generation genome sequencing data";
    Lecture: EMBO: Bioinformatics and Genome Analyses, Izmir Turkey; 05-02-2016 - 05-14-2016.


Diploma and Master Theses

1 record:
  1. S. Brauneis:
    "Evaluation and improvement of CNV calling on WGS data";
    Supervisor: S. Pabinger; Fachhochschule Campus Wien, Master-Studiengang Bioinformatik, 2018; final examination: 06-26-2018.