CV

CV

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Experience

02/2019 - today

Novartis BioMedical Research , Basel, Switzerland
Senior Expert Data Science II (Principal Scientist) at Immunology

  • Target discovery/validation using genetics and genomics data
  • Patient stratification/endotyping/biomarker discovery based on molecular profiling
  • Profiling of compounds, models, pathways using (sc) transcriptomics and proteomics data
  • Mentoring junior scientists in various aspects of computational biology

08/2017 - 12/2018

Weill Cornell Medical College of Cornell University , New York, USA
Postdoctoral Associate in Statistical Genomics at Institutes of Precision Medicine and Computational Biomedicine

  • Analysis of metabolic reprogramming in cancer using genomics data
  • Identification of metabolic synthetic lethality through metabolic modelling

04/2014-07/2017

King's College London , London, UK
PhD Genetics and Molecular Medicine at Department of Twin Research and Genetic Epidemiology; joint project with the Helmholtz Zentrum München, Institute for Bioinformatics and Systems Biology

  • Epidemiological studies on ageing and age-related diseases
  • Normalisation, analysis, and interpretation of metabolomics and genomics studies (GWAS/MWAS/...)
  • Integration of 'omics' data using multivariate statistics

05/2013 - 03/2014

Helmholtz Zentrum München , Neuherberg, Germany
Student assistant at Institute of Bioinformatics and Systems Biology (IBIS)

  • Analysis of high-throughput metabolomics in the context of oncology and ageing
  • Network inference from high-dimensional observational datasets

05/2010 - 04/2013

Ludwigs-Maximilians-University , Munich, Germany
Student assistent at Institute for Informatics (Bioinformatics)

  • Normalisation and analysis of RNA-seq data
  • Development of gene regulatory network inference algorithm (in C++ and R)

10/2008 - 04/2010

Siemens AG , Munich, Germany
Student assistant at Corporate Technology (Software Engineering)

  • Research, documentation, prototyping of cloud computing architecture (part of EU-funded NEXOF-RA)
  • System administration, ensuring compliance with internal security standards

Education

10/2011-09/2013

MSc Bioinformatics
Ludwigs-Maximilians-University , Munich, Germany
Thesis: Identification of Uni- and Multivariate Biomarkers in Metabolomics Data from Lymphoma Patients
Overall grade: 1.5 (with distinction)

10/2008-09/2011

BSc Bioinformatics
Ludwigs-Maximilians-University , Munich, Germany
Thesis: Transcript Quantification Biases in Next Generation Sequencing Data
Overall grade: 1.5 (with distinction)

08/1998-07/2007

German Abitur
St.-Anna-Gymnasium , Munich, Germany
Overall grade: 1.6 (very good)

Awards

  • Travel award for the 13th Annual Conference of the Metabolomics Society (2017)
  • Travel award of the National Cancer Institute (COnsortium of METabolomics Studies Scientific Meeting) (2016)
  • Best presentation award of the 11th International Conference of the Metabolomics Society (2015)

Certifications

Deep Learning Specialization DeepLearning.AI
Certificate: (finished 01/2021)

  • Neural Networks and Deep Learning (finished 06/2021)
  • Improving Deep Neural Networks: Hyperparameter Tuning, Regularization and Optimization (finished 09/2020)
  • Structuring Machine Learning Projects (finished 10/2020)
  • Convolutional Neural Networks (finished 11/2020)
  • Sequence Models (finished 01/2021)

Generative Adversarial Networks (GANs) Specialization DeepLearning.AI

  • Build Basic Generative Adversarial Networks (GANs) deeplearning.ai (finished 02/2021)

Fundamentals of Immunology Specialization Rice University

  • Fundamentals of Immunology: Innate Immunity and B-Cell Function (finished 04/2019)
  • Fundamentals of Immunology: T Cells and Signaling (finished 01/2021)

Others

  • Scalable Machine Learning on Big Data using Apache Spark IBM (finished 03/2020)

Publications

Publications

Patents

2023

Remibrutinib for use in the treatment of hidradenitis suppurativa S. Bhattacharya, B. Bieth, B. Cenni, G. Graham, M. Juhnke, C. Loesche, K. Rapp, K.H. Sin, and J. Zierer 8. 2023

Journal Articles

2024

Genome-wide characterization of circulating metabolic biomarkers. M.K. Karjalainen, S. Karthikeyan, C. Oliver-Williams, E. Sliz, E. Allara, W.T. Fung, P. Surendran, W. Zhang, P. Jousilahti, K. Kristiansson, V. Salomaa, M. Goodwin, D.A. Hughes, M. Boehnke, L.F. Silva, X. Yin, A. Mahajan, M.J. Neville, N.R.v. Zuydam, R.d. Mutsert, R. Li-Gao, D.O. Mook-Kanamori, A. Demirkan, J. Liu, R. Noordam, S. Trompet, Z. Chen, C. Kartsonaki, L. Li, K. Lin, F.A. Hagenbeek, J.J. Hottenga, R. Pool, M.A. Ikram, J.v. Meurs, T. Haller, Y. Milaneschi, M. Kähönen, P.P. Mishra, P.K. Joshi, E. Macdonald-Dunlop, M. Mangino, J. Zierer, I.E. Acar, C.B. Hoyng, Y.T.E. Lechanteur, L. Franke, A. Kurilshikov, A. Zhernakova, M. Beekman, E.B.v.d. Akker, I. Kolcic, O. Polasek, I. Rudan, C. Gieger, M. Waldenberger, F.W. Asselbergs, China Kadoorie Biobank Collaborative Group, Estonian Biobank Research Team, FinnGen, C. Hayward, J. Fu, A.I.d. Hollander, C. Menni, T.D. Spector, J.F. Wilson, T. Lehtimäki, O.T. Raitakari, B.W.J.H. Penninx, T. Esko, R.G. Walters, J.W. Jukema, N. Sattar, M. Ghanbari, K.W.v. Dijk, F. Karpe, M.I. McCarthy, M. Laakso, M.R. Järvelin, N.J. Timpson, M. Perola, J.S. Kooner, J.C. Chambers, C.v. Duijn, P.E. Slagboom, D.I. Boomsma, J. Danesh, M. Ala-Korpela, A.S. Butterworth, and J. Kettunen Nature vol. 628, pp. 130-138, 4. 2024

2023

Response to anti-IL17 therapy in inflammatory disease is not strongly impacted by genetic background. C. Zhang, K. Shestopaloff, B. Hollis, C.H. Kwok, C. Hon, N. Hartmann, C. Tian, M. Wozniak, L. Santos, D. West, S. Gardiner, A.M. Mallon, A. Readie, R. Martin, T. Nichols, M.T. Beste, J. Zierer, E. Ferrero, M. Vandemeulebroecke, and L. Jostins-Dean American journal of human genetics vol. 110, pp. 1817-1824, 10. 2023

2022

Rare and common genetic determinants of metabolic individuality and their effects on human health P. Surendran, I.D. Stewart, V.P.W.A. Yeung, M. Pietzner, J. Raffler, M.A. Wörheide, C. Li, R.F. Smith, L.B.L. Wittemans, L. Bomba, C. Menni, J. Zierer, N. Rossi, P.A. Sheridan, N.A. Watkins, M. Mangino, P.G. Hysi, E.D. Angelantonio, M. Falchi, T.D. Spector, N. Soranzo, G.A. Michelotti, W. Arlt, L.A. Lotta, S. Denaxas, H. Hemingway, E.R. Gamazon, J.M.M. Howson, A.M. Wood, J. Danesh, N.J. Wareham, G. Kastenmüller, E.B. Fauman, K. Suhre, A.S. Butterworth, and C. Langenberg Nature Medicine vol. 28, pp. 2321-2332, 11. 2022

Inframe insertion and splice site variants in MFGE8 associate with protection against coronary atherosclerosis. S.E. Ruotsalainen, I. Surakka, N. Mars, J. Karjalainen, M. Kurki, M. Kanai, K. Krebs, S. Graham, P.P. Mishra, B.H. Mishra, J. Sinisalo, P. Palta, T. Lehtimäki, O. Raitakari, E.B.R. Team, L. Milani, Biobank Japan Project, Y. Okada, FinnGen, A. Palotie, E. Widen, M.J. Daly, and S. Ripatti Communications biology vol. 5, pp. 802, 8. 2022

maplet : an extensible R toolbox for modular and reproducible metabolomics pipelines K. Chetnik, E. Benedetti, D.P. Gomari, A. Schweickart, R. Batra, M. Buyukozkan, Z. Wang, M. Arnold, J. Zierer, K. Suhre, and J. Krumsiek Bioinformatics vol. 38, pp. 1168-1170, 1. 2022

2019

Metabolomic profiling identifies novel associations with Electrolyte and Acid-Base Homeostatic patterns. C. Menni, L. McCallum, M. Pietzner, J. Zierer, A. Aman, K. Suhre, R.P. Mohney, M. Mangino, N. Friedrich, T.D. Spector, and S. Padmanabhan Scientific reports vol. 9, pp. 15088, 12. 2019

Circulating glucuronic acid predicts healthspan and longevity in humans and mice. A. Ho, J. Sinick, T. Esko, K. Fischer, C. Menni, J. Zierer, M. Matey-Hernandez, K. Fortney, and E.K. Morgen Aging vol. 11, pp. 7694-7706, 9. 2019

A metabolic profile of all-cause mortality risk identified in an observational study of 44,168 individuals. J. Deelen, J. Kettunen, K. Fischer, A.v.d. Spek, S. Trompet, G. Kastenmüller, A. Boyd, J. Zierer, E.B.v.d. Akker, M. Ala-Korpela, N. Amin, A. Demirkan, M. Ghanbari, D.v. Heemst, M.A. Ikram, J.B.v. Klinken, S.P. Mooijaart, A. Peters, V. Salomaa, N. Sattar, T.D. Spector, H. Tiemeier, A. Verhoeven, M. Waldenberger, P. Würtz, G.D. Smith, A. Metspalu, M. Perola, C. Menni, J.M. Geleijnse, F. Drenos, M. Beekman, J.W. Jukema, C.M.v. Duijn, and P.E. Slagboom Nature communications vol. 10, pp. 3346, 8. 2019

Metabolic and proteomic signatures of hypoglycaemia in type 2 diabetes. A. Halama, H. Kahal, A.M. Bhagwat, J. Zierer, T. Sathyapalan, J. Graumann, K. Suhre, and S.L. Atkin Diabetes, obesity & metabolism vol. 21, pp. 909-919, 4. 2019

2018

Circulating metabolic biomarkers of renal function in diabetic and non-diabetic populations. C. Barrios, J. Zierer, P. Würtz, T. Haller, A. Metspalu, C. Gieger, B. Thor, C. Meisinger, M. Waldenberger, O. Raitakari, T. Lehtimäki, S. Otero, E. Rodríguez, J. Pedro-Botet, M. Kähönen, M. Ala-Korpela, G. Kastenmüller, T.D. Spector, J. Pascual, and C. Menni Scientific reports vol. 8, pp. 15249, 10. 2018

Accelerated lipid catabolism and autophagy are cancer survival mechanisms under inhibited glutaminolysis. A. Halama, M. Kulinski, S.S. Dib, S.B. Zaghlool, K.S. Siveen, A. Iskandarani, J. Zierer, K.S. Prabhu, N.J. Satheesh, A.M. Bhagwat, S. Uddin, G. Kastenmüller, O. Elemento, S.S. Gross, and K. Suhre Cancer letters vol. 430, pp. 133-147, 8. 2018

Gut microbiota associations with common diseases and prescription medications in a population-based cohort. M.A. Jackson, S. Verdi, M.E. Maxan, C.M. Shin, J. Zierer, R.C.E. Bowyer, T. Martin, F.M.K. Williams, C. Menni, J.T. Bell, T.D. Spector, and C.J. Steves Nature communications vol. 9, pp. 2655, 7. 2018

The fecal metabolome as a functional readout of the gut microbiome. J. Zierer, M.A. Jackson, G. Kastenmüller, M. Mangino, T. Long, A. Telenti, R.P. Mohney, K.S. Small, J.T. Bell, C.J. Steves, A.M. Valdes, T.D. Spector, and C. Menni Nature genetics vol. 50, pp. 790-795, 6. 2018

Glycosylation Profile of Immunoglobulin G Is Cross-Sectionally Associated with Cardiovascular Disease Risk Score and Subclinical Atherosclerosis in Two Independent Cohorts C. Menni, I. Gudelj, E. MacDonald-Dunlop, M. Mangino, J. Zierer, E. Bešić, P. Joshi, I. Trbojević-Akmačić, P.J. Chowienczyk, T.D. Spector, J.F. Wilson, G. Lauc, and A.M. Valdes Circulation Research vol. 44, pp. CIRCRESAHA.117.312174, 3. 2018

Detection of stable community structures within gut microbiota co-occurrence networks from different human populations. M.A. Jackson, M.J. Bonder, Z. Kuncheva, J. Zierer, J. Fu, A. Kurilshikov, C. Wijmenga, A. Zhernakova, J.T. Bell, T.D. Spector, and C.J. Steves PeerJ vol. 6, pp. e4303, 2. 2018

2017

Hippurate as a metabolomic marker of gut microbiome diversity: Modulation by diet and relationship to metabolic syndrome. T. Pallister, M.A. Jackson, T.C. Martin, J. Zierer, A. Jennings, R.P. Mohney, A. MacGregor, C.J. Steves, A. Cassidy, T.D. Spector, and C. Menni Scientific reports vol. 7, pp. 13670, 10. 2017

Omega-3 fatty acids correlate with gut microbiome diversity and production of N-carbamylglutamate in middle aged and elderly women. C. Menni, J. Zierer, T. Pallister, M.A. Jackson, T. Long, R.P. Mohney, C.J. Steves, T.D. Spector, and A.M. Valdes Scientific reports vol. 7, pp. 11079, 9. 2017

Metabolomic Profiling of Long-Term Weight Change: Role of Oxidative Stress and Urate Levels in Weight Gain. C. Menni, M. Migaud, G. Kastenmüller, T. Pallister, J. Zierer, A. Peters, R.P. Mohney, T.D. Spector, V. Bagnardi, C. Gieger, S.C. Moore, and A.M. Valdes Obesity (Silver Spring, Md.) vol. 25, pp. 1618-1624, 9. 2017

Whole-genome sequencing identifies common-to-rare variants associated with human blood metabolites. T. Long, M. Hicks, H.C. Yu, W.H. Biggs, E.F. Kirkness, C. Menni, J. Zierer, K.S. Small, M. Mangino, H. Messier, S. Brewerton, Y. Turpaz, B.A. Perkins, A.M. Evans, L.A.D. Miller, L. Guo, C.T. Caskey, N.J. Schork, C. Garner, T.D. Spector, J.C. Venter, and A. Telenti Nature genetics vol. 49, pp. 568-578, 4. 2017

Mixing omics: combining genetics and metabolomics to study rheumatic diseases. C. Menni, J. Zierer, A.M. Valdes, and T.D. Spector Nature reviews. Rheumatology vol. 13, pp. 174-181, 3. 2017

Effects of statins on the immunoglobulin G glycome. T. Keser, F. Vučković, C. Barrios, J. Zierer, A. Wahl, A.O. Akinkuolie, J. Štambuk, N. Nakić, T. Pavić, J. Periša, S. Mora, C. Gieger, C. Menni, T.D. Spector, O. Gornik, and G. Lauc Biochimica et Biophysica Acta (BBA) - General Subjects vol. 1861, pp. 1152-1158, 3. 2017

2016

Exploring the molecular basis of age-related disease comorbidities using a multi-omics graphical model. J. Zierer, T. Pallister, P.C. Tsai, J. Krumsiek, J.T. Bell, G. Lauc, T.D. Spector, C. Menni, and G. Kastenmüller Scientific reports vol. 6, pp. 37646, 11. 2016

Glycosylation Profile of IgG in Moderate Kidney Dysfunction. C. Barrios, J. Zierer, I. Gudelj, J. Štambuk, I. Ugrina, E. Rodríguez, M.J. Soler, T. Pavić, M. Šimurina, T. Keser, M. Pučić-Baković, M. Mangino, J. Pascual, T.D. Spector, G. Lauc, and C. Menni Journal of the American Society of Nephrology : JASN vol. 27, pp. 933-41, 3. 2016

Metabolomics profiling reveals novel markers for leukocyte telomere length. J. Zierer, G. Kastenmüller, K. Suhre, C. Gieger, V. Codd, P.C. Tsai, J. Bell, A. Peters, K. Strauch, H. Schulz, S. Weidinger, R.P. Mohney, N.J. Samani, T. Spector, M. Mangino, and C. Menni Aging vol. 8, pp. 77-94, 1. 2016

2015

Integration of ‘omics’ data in aging research: from biomarkers to systems biology J. Zierer, C. Menni, G. Kastenmüller, and T.D. Spector Aging Cell vol. 14, pp. 933-944, 8. 2015

2014

LocTree3 prediction of localization T. Goldberg, M. Hecht, T. Hamp, T. Karl, G. Yachdav, N. Ahmed, U. Altermann, P. Angerer, S. Ansorge, K. Balasz, M. Bernhofer, A. Betz, L. Cizmadija, K.T. Do, J. Gerke, R. Greil, V. Joerdens, M. Hastreiter, K. Hembach, M. Herzog, M. Kalemanov, M. Kluge, A. Meier, H. Nasir, U. Neumaier, V. Prade, J. Reeb, A. Sorokoumov, I. Troshani, S. Vorberg, S. Waldraff, J. Zierer, H. Nielsen, and B. Rost Nucleic Acids Research vol. 42, pp. W350-W355, 7. 2014

Refining ensembles of predicted gene regulatory networks based on characteristic interaction sets. L. Windhager, J. Zierer, and R. Küffner PloS one vol. 9, pp. e84596, 1. 2014

Conference Publications and Posters

2023

Dose Dependent Modulation of a B Cell Protein Signature by Ianalumab in Patients with Sjögren’s Disease S. Finzel, A. Grioni, B. Fisher, P. Athena, A. Alexandre, D. Tuckwell, J. Zierer, C. Rauld, V.D. Luca, E. Ferrero, A.N.d. Costa, R. Hillenbr, I. Isnardi, and W. Hueber 75 (suppl 9), ACR Convergence, 11. 2023

2018

Systematic identification and experimental validation of collateral metabolic lethality in cancer J. Zierer, A. Halama, K. Suhre, and O. Elemento 14th International Conference of the Metabolomics Society, 6. 2018

2017

Differential multi-fluid network sheds light on metabolic processes altered in end-stage renal disease J. Zierer, K.T. Do, M. Pietzner, C. Barrios, T. Kocher, K. Endlich, T. Spector, C. Menni, N. Friedrich, J. Krumsiek, and G. Kastenmüller 13th International Conference of the Metabolomics Society, 6. 2017

2016

The fecal metabolome as a functional readout of the gut microbiome J. Zierer, T. Long, A. Telenti, T. Spector, and C. Menni COnsortium of METabolomics Studies (COMETS) Scientific Meeting, 10. 2016

1H NMR-based metabolomic profiling reveals potential biomarkers of renal function in non-diabetic and diabetic populations J. Zierer, C. Barrios, G. Kastenmüller, S. Otero, E. Rodriguez, M.J. Soler, T. Spector, J. Pascual, and C. Menni 12th International Conference of the Metabolomics Society, 6. 2016

Identifying mediators of disease co-morbidities by integrating omics data. J. Zierer, T. Spector, C. Menni, and G. Kastenmüller 6th Conference on Systems Biology of Mammalian Cells, 4. 2016

2015

Metabolomics profiling reveals novel marker for leukocyte telomere length J. Zierer, M. Mangino, V. Codd, G. Kastenmüller, N.J. Samani, T.D. Spector, and C. Menni 11th International Conference of the Metabolomics Society, 6. 2015

Integration of Multi-Omics Data in Ageing Research J. Zierer, C. Menni, T.D. Spector, and G. Kastenmüller Quantitative Genomics, 6. 2015

2017

Integrative analysis of the metabolic signatures of ageing and age-related diseases J. Zierer 4. 2017

2013

Identification of Uni- and Multivariate Biomarkers in Metabolomics Data from Lymphoma Patients J. Zierer 10. 2013

2011

Transcript Quantification Biases in Next Generation Sequencing Data J. Zierer 9. 2011

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