Heiland, Ines

Mathematical simulations are an important tool in physics and engineering, but its application to biology and medicine is still in its infancy. However, as our knowledge of the molecular basis of biological processes is progressing, mathematical modelling is increasingly used to understand the complexity of living organisms.

We use existing biochemical data to built dynamic models of metabolisms and ageing. The resulting models can be used to understand the basis of diseases and guide the development of drugs. We work in close collaboration with experimental groups, which is advantageous, as model building is always an iterative process of simulation and experimental verification of model hypothesis. It furthermore guides the developement of our models and usually defines the aim of the model.

Positions

Sept/2015 - Prof. for molecular biology and bioinformatics at the Department of arctic and marine biology

Dec/2012 - Sept/2015 Assoc. Prof. for molceular bioinformatics at the Department of arctic and marine biology

2008 - 2012 Postdoctoral researcher and junior group leader at the Friedrich Schiller University Jena, Department of Bioinformatics
Project: Modelling and simulation of circadiane rhythms and dynamic metabolic processes

2005 - 2006 Postdoctoral reseracher at the FSU Jena Department of General Botany
Project: Data evaluation of large scale proteome projects of C. reinhardtii

2004 - 2005 Postdoctoral researcher at the Ruhr University Bochum Laboratory of Systems Biochemistry
Project: Characterisation of the Pex3p-Complexes of Saccharomyces cerevisiae

PhD-Thesis

2003 - 2004 Ruhr Universit Bochum, Laboratory of Systems Biochemistry
2001 - 2002 Department of Biochemistry, Free University Berlin

I have done my PhD-thesis in the group of Prof. Ralf Erdmann. The title of my work was: "Investigating peroxisomal membrane biogenesis". I have defended my PhD thesis at the 19th of November in 2004 at the FU Berlin.

Internships

04/2011 - 05/2011 Computational Biology Unit, Uni Reserach, Bergen, Norway

03/2004 - 04/2004 Biological school of sciences, C. Stirling Group, Manchester University, England

06/1999 - 07/1999 Department of Organic Chemistry, S. Oscarsons Group, Arhenius Laboratories, Stockholm University, Sweden

Undergraduate Studies in Biochemistry

1995 - 1997 Friedrich Schiller University Jena
1997 - 2000 Free University Berlin

Current teaching activities

BIO-2018 Anvendt molekylærbiologi og bioinformatikk

BIO-3027 Scientific Programming with Pyhthon for Life Sciences

BIO-3010/8011 Modelling in Systems Biology I -Metabolic pathway modelling

Vize-chair of the board of the National Research School for Bioinformatics, Biostatistics and Systems Biology (NORBIS)

Past teaching activities:

Basis pedagogisk kompetanse 2015 - Pedagogisk mappe

Prof. for Molecular Biology and Bioinformatics

Vitenskapelige artikler og bokkapitler
Andre

Prentzell, Mirja Tamara; Rehbein, Ulrike; Sandoval, Marti Cadena; De Meulemeester, Ann-Sofie; Baumeister, Ralf; Brohée, Laura; Berdel, Bianca; Bockwoldt, Mathias; Carroll, Bernadette; Chowdhury, Suvagata Roy; von Deimling, Andreas; Demetriades, Constantinos; Figlia, Gianluca; de Arauj, Mariana Eca Guimaraes; Heberle, Alexander Martin; Heiland, Ines; Holzwarth, Birgit; Huber, Lukas A; Jaworski, Jacek; Kedra, Magdalena; Kern, Katharina; Kopach, Andrii; Korolchuk, Viktor I; van't Land-Kuper, Ineke; Macias, Matylda; Nellist, Mark; Palm, Wilhelm; Pusch, Stefan; Ramos Pittol, Jose Miguel; Reil, Michèle; Reintjes, Anja; Reuter, Friederike; Sampson, Julian R.; Scheldeman, Chloë; Siekierska, Aleksandra; Stefan, Eduard; Teleman, Aurelio A; Thomas, Laura E; Torres-Quesada, Omar; Trump, Saskia; West, Hannah D; de Witte, Peter; Woltering, Sandra; Yordanov, Teodor E; Zmorzynska, Justyna; Opitz, Christiane A.; Thedieck, Kathrin. G3BPs tether the TSC complex to lysosomes and suppress mTORC1 signaling. (Fulltekst: https://doi.org/10.1016/j.cell.2020.12.024Get (Omtale: https://mesi-strat.eu/press-release-cell-2021-g3bps-tether-the-tsc-complex-to-lysosomes-and-suppress-mtorc1-signaling/) (Prosjekt: MESI-STRAT) Cell 2021; Volum 184. ISSN 0092-8674.s 655 - 674.s doi: 10.1016/j.cell.2020.12.024.

Van Pijkeren, Alienke; Dietze, Jørn; Brotons, Alejandro Sánchez; Egger, Anna-Sophia; Lijster, Tim; Barcaru, Andrei; Hotze, Madlen; Kobler, Philipp; Dekker, Frank J.; Horvatovich, Peter; Melgert, Barbro N.; Ziegler, Mathias; Thedieck, Kathrin; Heiland, Ines; Bischoff, Rainer; Kwiatkowski, Marcel. Combined metabolic and chemical (CoMetChem) labeling using stable isotopes - A strategy to reveal site-specific histone acetylation and deacetylation rates by LC-MS. Analytical Chemistry 2021; Volum 93. ISSN 0003-2700.s 12872 - 12880.s doi: 10.1021/acs.analchem.1c01359.

Mohapatra, Soumya R; Sadik, Ahmed; Sharma, Suraj; Poschet, Gernot; Gegner, Hagen M; Lanz, Tobias V; Lucarelli, Philippe; Klingmüller, Ursula; Platten, Michael; Heiland, Ines; Opitz, Christiane A.. Hypoxia Routes Tryptophan Homeostasis Towards Increased Tryptamine Production. (Fulltekst: https://doi.org/10.3389/fimmu.2021.590532 Frontiers in Immunology 2021; Volum 12. ISSN 1664-3224.s doi: 10.3389/fimmu.2021.590532.

Strømland, Øyvind; Niere, Marc; Nikiforov, Andrey; Van Linden, Magali R; Heiland, Ines; Ziegler, Mathias. Keeping the balance in NAD metabolism. Biochemical Society Transactions 2019; Volum 47 (1). ISSN 0300-5127.s 119 - 130.s doi: 10.1042/BST20180417.

Mohapatra, Soumya R.; Sadik, Ahmed; Tykocinski, Lars-Oliver; Dietze, Jørn; Poschet, Gernot; Heiland, Ines; Opitz, Christiane A.. Hypoxia Inducible Factor 1α Inhibits the Expression of Immunosuppressive Tryptophan-2,3-Dioxygenase in Glioblastoma. Frontiers in Immunology 2019; Volum 10. ISSN 1664-3224.s 1 - 13.s doi: 10.3389/fimmu.2019.02762.

Clarelli, Fabrizio; Liang, Jingyi; Martinecz, Antal; Heiland, Ines; Abel zur Wiesch, Pia. Multi-scale modeling of drug binding kinetics to predict drug efficacy. Cellular and Molecular Life Sciences (CMLS) 2019. ISSN 1420-682X.s doi: 10.1007/s00018-019-03376-y.

Heberle, Alexander Martin; Razquin Navas, Patricia; Langelaar-Makkinje, Miriam; Kasack, Katharina; Sadik, Ahmed; Faessler, Erik; Hahn, Udo; Marx-Stoelting, Philip; Opitz, Christiane A.; Sers, Christine; Heiland, Ines; Schaeuble, Sascha; Thedieck, Kathrin. The PI3K and MAPK/p38 pathways control stress granule assembly in a hierarchical manner. Life Science Alliance (LSA) 2019; Volum 2 (2). ISSN 2575-1077.s doi: 10.26508/lsa.201800257.

Bockwoldt, Mathias; Houry, Dorothee; Niere, Marc; Gossmann, Toni I.; Reinartz, Ines; Schug, Alexander; Ziegler, Mathias; Heiland, Ines. Identification of evolutionary and kinetic drivers of NAD-dependent signaling. Proceedings of the National Academy of Sciences of the United States of America 2019; Volum 116 (32). ISSN 0027-8424.s 15957 - 15966.s doi: 10.1073/pnas.1902346116.

Bockwoldt, Mathias; Heiland, Ines; Fischer, Karsten. The evolution of the plastid phosphate translocator family. Planta 2019; Volum 250 (1). ISSN 0032-0935.s 245 - 261.s doi: 10.1007/s00425-019-03161-y.

Afanasyeva, Arina; Bockwoldt, Mathias; Cooney, Christopher; Heiland, Ines; Gossmann, Toni Ingolf. Human long intrinsically disordered protein regions are frequent targets of positive selection. Genome Research 2018; Volum 28 (7). ISSN 1088-9051.s 975 - 982.s doi: 10.1101/gr.232645.117.

Adam, Isabell; Dewi, Dyah L.; Mooiweer, Joram; Sadik, Ahmed; Mohapatra, Soumya R.; Berdel, Bianca; Keil, Melanie; Sonner, Jana K.; Thedieck, Kathrin; Rose, Adam J.; Platten, Michael; Heiland, Ines; Trump, Saskia; Opitz, Christiane A.. Upregulation of tryptophanyl-tRNA synthethase adapts human cancer cells to nutritional stress caused by tryptophan degradation. Oncoimmunology 2018; Volum 7 (12). ISSN 2162-4011.s 1 - 15.s doi: 10.1080/2162402X.2018.1486353.

Dewi, Dyah L; Mohapatra, Soumya R; Cabañes, Saioa Blanco; Adam, Isabell; Patterson, Luis F Somarribas; Berdel, Bianca; Kahloon, Masroor; Thürmann, Loreen; Loth, Stefanie; Heilmann, Katharina; Weichenhan, Dieter; Mucke, Oliver; Heiland, Ines; Wimberger, Pauline; Kuhlmann, Jan Dominik; Kellner, Karl-Heinz; Schott, Sarah; Plass, Christoph; Platten, Michael; Gerhäuser, Clarissa; Trump, Saskia; Opitz, Christiane A.. Suppression of indoleamine-2, 3-dioxygenase 1 expression by promoter hypermethylation in ER-positive breast cancer. Oncoimmunology 2017; Volum 6 (2). ISSN 2162-4011.s doi: 10.1080/2162402X.2016.1274477.

Schäuble, Sascha; Stavrum, Anne-Kristin; Bockwoldt, Mathias; Puntervoll, Pål; Heiland, Ines. SBMLmod: a Python-based web application and web service for efficient data integration and model simulation. (Fulltekst: http://hdl.handle.net/10037/11937 BMC Bioinformatics 2017; Volum 18 (314). ISSN 1471-2105.s 1 - 8.s doi: 10.1186/s12859-017-1722-9.

Heiland, Ines; Thedieck, K. Nutrigenomics: Toward a cross-disciplinary understanding of nutrient-driven networks in health and disease: What can we learn from the study of cross-talk in complex protein kinase and metabolic networks?. Aktuelle Ernãhrungsmedizin 2015; Volum 40 (2). ISSN 0341-0501.s 88 - 92.s doi: 10.1055/s-0034-1387602.

Opitz, Christiane A.; Heiland, Ines. Dynamics of NAD-metabolism: everything but constant. Biochemical Society Transactions 2015; Volum 43 (6). ISSN 0300-5127.s 1127 - 1132.s doi: 10.1042/BST20150133.

Wencke, Walter; Ketelsen, Bernd; Emmanuel, Gaquerel; Baldwin, Ian T.; Sang-Gyu, Kim; Heiland, Ines. Improving the accuracy of expression data analysis in time course experiments using resampling. (Fulltekst: http://www.biomedcentral.com/1471-2105/15/352/abstract BMC Bioinformatics 2014; Volum 15. ISSN 1471-2105.s doi: 10.1186/s12859-014-0352-8.

Schäuble, Sascha; Stavrum, Anne-Kristin; Puntervoll, Pål; Schuster, Stefan; Heiland, Ines. Effect of substrate competition in kinetic models of metabolic networks. (Fulltekst: http://www.febsletters.org/article/S0014-5793(13)00483-3/fulltext FEBS Letters 2013; Volum 587 (17). ISSN 0014-5793.s 2818 - 2824.s doi: 10.1016/j.febslet.2013.06.025.

Stavrum, Anne-Kristin; Heiland, Ines; Schuster, Stefan; Puntervoll, Pål; Ziegler, Mathias. Model of tryptophan metabolism, readily scalable using tissue-specific gene expression data. Journal of Biological Chemistry 2013; Volum 288 (48). ISSN 0021-9258.s 34555 - 34566.s doi: 10.1074/jbc.M113.474908.

Schmeisser, Kathrin; Mannsfeld, Johannes; Kuhlow, Doreen; Weimer, Sandra; Priebe, Steffen; Heiland, Ines; Birringer, Marc; Groth, Marco; Segref, Alexandra; Kanfi, Yariv; Price, Nathan L.; Schmeisser, Sebastian; Schuster, Stefan; Pfeiffer, Andreas F. H.; Guthke, Reinhard; Platzer, Matthias; Hoppe, Torsten; Haim, Cohen Y; Zarse, Kim; Sinclair, David A; Ristow, Michael. Role of sirtuins in lifespan regulation is linked to methylation of nicotinamide. Nature Chemical Biology 2013; Volum 9 (11). ISSN 1552-4450.s 693 - 700.s doi: 10.1038/nchembio.1352.

Heiland, Ines; Kaleta, Christoph. Stoffwechselanalyse: Neue Wege im Labyrinth entdecken. Laborwelt 2012; Volum 4. ISSN 1611-0854.s 30 - 32.

Zupanic, Anze; Bernstein, Hans Christopher; Heiland, Ines. Systems biology – Current status and challenges. Cellular and Molecular Biology 2020; Volum 77 (3). ISSN 0145-5680.s 379 - 380.s doi: 10.1007/s00018-019-03410-z.

Bockwoldt, Mathias; Heiland, Ines; Gossmann, Toni Ingolf; Rattei, Thomas. Sequence-Based Analysis of Eukaryotic Protein Evolution. 2018 ISBN 9788282661591.

Sauter, Roland; Heiland, Ines. Arctic Marine Bioplastics. 3rd annual meeting of NORBIS 2017-08-08 - 2017-08-10 2017.

Gossmann, Toni Ingolf; Afanasyeva, Arina; Bockwoldt, Mathias; Heiland, Ines; Chris, Cooney. Human intrinsically long disordered protein regions are frequent targets of positive selection. Annual Meeting of the Society for Molecular Biology and Evolution 2017 2017-07-02 - 2017-07-06 2017.

Bockwoldt, Mathias; Heiland, Ines. Phylogenetic Analysis of NAD biosynthesis and consumption. NBS contact meeting 2016-01-21 - 2016-01-23 2016.

Sauter, Roland; Heiland, Ines. Metabolic Modeling of Marine Biomass Conversion. 1st annual BioCat Meeting 2016-06-12 - 2016-06-14 2016.

Heiland, Ines; Bockwoldt, Mathias; Puntervoll, Pål; Schäuble, Sascha; Stavrum, Anne-Kristin. Tissue specific models of Trp- and NAD-metabolism — insights into metabolic crosstalk.. 2016 Conference on Computational Modelling with COPASI 2016-05-12 - 2016-05-13 2016.

Bockwoldt, Mathias; Heiland, Ines; Toni, Gossmann; Ziegler, Mathias. Phylogenetic and simulation-based analysis of NAD metabolism. ISGSB 2016 2016-10-04 - 2016-10-07 2016.

Heiland, Ines; Bockwoldt, Mathias; Stavrum, Anne-Kristin; Puntervoll, Pål; Ziegler, Mathias. Tissue specific models of Tryptohan-metabolism — insights into metabolic crosstalk. COPASI User conference 2016-05-12 - 2016-05-13 2016.

Bockwoldt, Mathias; Heiland, Ines. Use of resampling to improve accuracy of data analysis in time course experiments. European Biological Rhythms Sociecty Congress and World Congress of Chronobiology 2015-08-02 - 2015-08-06 2015.

Bockwoldt, Mathias; Heiland, Ines. Phylogenetic Analysis of NAD biosynthesis and consumption. Norbis Annual Meeting 2015-10-28 - 2015-10-30 2015.

Elliss, Carolyn; Rattei, Thomas; Heiland, Ines. 50 Years of FEBS´ Education Training Awards. (Fulltekst: http://www.febs.org/document-uploads/FEBSNewsOctober2015.pdf FEBS News 2015; Volum 2015 (2).s 15 - 16.

Bockwoldt, Mathias; Stavrum, Anne-Kristin; Gossmann, Toni I.; Ziegler, Mathias; Heiland, Ines. Dynamics of NAD-metabolism - everything but constant. Metabolic Pathway Analysis (Omtale: https://www.biochemistry.org/Events/tabid/379/View/Programme/MeetingNo/IND122/Default.aspx) 2015-06-08 - 2015-06-12 2015.

Heiland, Ines; Brandes, Susanne; Stavrum, Anne-Kristin; Bodenstein, Christian; Ziegler, Mathias. NAD-metabolism and the circadian clock -- Unraveling contradictions. Advanced Lecture Course on Systems Biology 2014-03-02 - 2014-03-08 2014.

Heiland, Ines. Chemo Informatik: Was hat Tryptophan mit Krebs und Parkinson zu tun?. Chemie in unserer Zeit 2014; Volum 48 (3). ISSN 0009-2851.s 164 - 166.s doi: 10.1002/ciuz.201480013.

Walter, Wencke; Gaquerel, Emmanuel; Baldwin, Ian T.; Kim, Sang-Gyu; Heiland, Ines. Improving the analysis of high throughput time course data using modelling based approaches. SocBin Bioinformatics 2014-06-11 - 2014-06-13 2014.

Stavrum, Anne-Kristin; Heiland, Ines; Schuster, Stefan; Puntervoll, Pål; Ziegler, Mathias. Predicting pathological metabolic changes using a kinetic model of tryptophan metabolism. Advanced Lecture Course on Systems Biology 2014-03-02 - 2014-03-08 2014.

Heiland, Ines. Metabolic modelling: From networks to dynamics and back. Workshop on Visualization in Biology 2013-09-19 - 2013-09-19 2013.

Heiland, Ines; Brandes, Susanne; Stavrum, Anne-Kristin; Bodenstein, Christian; Ziegler, Mathias. NAD-metabolism and the circadian clock. Gordon Conference Chronobiology 2013-07-14 - 2013-07-19 2013.