Meet IntiQuan Team

All IntiQuan team members
are recognized experts
in modeling & simulation

OUR TEAM MEMBERS HAVE EXCELLENT
EXPERTISE IN MODELING & SIMULATION, ADVANCED ANALYTICS, AND DRUG DEVELOPMENT

We combine several decades of experience in the model-based and strategy-based support of drug development programs and general application of advanced analytics to inform decision making

Henning Schmidt, PhD

Founder & Managing Director

Bio

Expert in Model-Informed Drug Development with cross-functional domain expertise supporting various therapeutic areas with over fifteen years of experience in the field. Professional experience includes assessing all available data and information within drug development projects (nonclinical, translational, early and late clinical, registration) in the context of the current drug development questions. Perform gap analyses, devise model based strategies to address key questions, select adequate methodological approaches, hands-on execution of analyses, supervision and mentoring of more junior modelers, and communication of results. Therapeutic area experience includes oncology, dermatology, immunology, infectious diseases, respiratory, gastrointestinal, bone and muscle wasting diseases. Pharmacometric experience includes (population) PK/PD, exposure-response, survival analysis, clinical trial simulations to assess certain metrics of interest (e.g., probability of success), complex mechanistic quantitative systems pharmacology models. Software and computational experience includes more than 18 years in the development of state-of-the-art software in support of efficient modeling and simulation across areas of Systems Biology, Quantitative Systems Pharmacology, and Pharmacometrics. These tools are key to allow focusing on the drug development question to address.

Publications

Journal Articles

Helmlinger, G. et al (2019) Quantitative Systems Pharmacology: An Exemplar Model Building Workflow with Applications in Metabolic, Cardiovascular, and Oncology Drug Development, doi: 10.1002/psp4.12426.

Schmidt, H., Radivojevic, A. (2014) Enhancing population pharmacokinetic (popPK) modeling efficiency using an integrated workflow, Journal of Pharmacokinetics and Pharmacodynamics, invited paper, 41(4)

Hallow, K.M., et al. (2014) A model-based approach to investigating the pathophysiological mechanisms of hypertension and response to antihypertensive therapies: Extending the Guyton model, American Journal of Physiology, DOI: 10.1152/ajpregu.00039.2013

Sunnaker, M., Schmidt, H., Jirstrand, M., Cedersund, G. (2010) Zooming of states and parameters using a lumping approach including back-translation, BMC Systems Biology, 4(28)

Dell’Orco, D., Schmidt, H., Mariani, S, Fanelli, F. (2009) Network-level analysis of light adaptation in rod cells under normal and altered conditions, Molecular BioSystems, DOI: 10.1039/b908123b

Schmidt, H., Madsen, M., Danø, S., Cedersund, G. (2008) Complexity Reduction of Biochemical Rate Expressions, Bioinformatics, doi: 10.1093/bioinformatics/btn035

Dell’Orco, D., Schmidt, H. (2008) Mesoscopic Monte Carlo simulations of stochastic encounters between photoactivated rhodopsin and transducin in the ROS-disc membrane, Journal of Physical Chemistry, doi: 10.1021/jp709963f

Nedbal, L., Červený, J., Rascher, U., Schmidt, H. (2007) A modeling approach to understand chlorophyll fluorescence transients and complex dynamic features of photosynthesis in fluctuating light, Photosynthesis Research, 93, 223-234

Schmidt, H., Drews, G., Vera, J., Wolkenhauer, O. (2007) SBML Export Interface for the Systems Biology Toolbox for MATLAB, Bioinformatics, 23, 1297-1298

Schmidt, H. (2007) SBaddon: High Performance Simulation for the Systems Biology Toolbox for MATLAB, Bioinformatics, 23, 646-647

Danø, S., Madsen, M., Schmidt, H., Cedersund, G. (2006) Reduction of a biochemical model with preservation of its basic dynamic properties, FEBS Journal, 273, 4862-4877

Schmidt, H., Jirstrand, M., Wolkenhauer, O. (2006) Information Technology in Systems Biology, invited article for it–Information Technology, 48(3), 133-139

Schmidt, H., Jirstrand, M. (2006) Systems Biology Toolbox for MATLAB: A computational platform for research in Systems Biology, Bioinformatics, 22(4), 514-515

Ullah, M., Schmidt, H., Cho, K.-H., Wolkenhauer, O. (2006) Deterministic Modelling and Stochastic Simulation of Pathways using MATLAB, IEE Proceedings – Systems Biology, 153(2), 53-60

Schmidt, H., Jacobsen, E.W., Cho, K.-H. (2005) Identification of Small Scale Biochemical Networks Based on General Type System Perturbations, FEBS Journal, 272(9), 2141-2151

Schmidt, H., Jacobsen, E.W. (2004) Linear systems approach to analysis of complex dynamic behaviours in biochemical networks, IEE Systems Biology, 1, 149-158

Schmidt, H., Jacobsen, E.W. (2004) Identifying feedback mechanisms behind complex cell behaviour, IEEE Control Systems Magazine, 24(4), 91-102

Book Chapters

Nedbal, N., Červený, J., Schmidt, H. (2009) Scaling and Integration of Kinetic Models of C3 Photosynthesis: Towards Comprehensive E-Photosynthesis, book chapter, Photosynthesis in silico, Springer

Ericsson, A., Mojzita, D., Schmidt, H., Hohmann, S. (2008) Case study in systematic modelling: Thiamine uptake in Yeast S. cerevisiae, book chapter, Essays in Biochemistry – Systems Biology, Portland Press

Conference posters

Johnson, M., et al. (2019) Model based analysis of the effect of adavosertib, a WEE1 kinase inhibitor on olaparib exposure, ASCPT 2019 Annual Meeting, USA

Johnson, M., et al. (2019) Population pharmacokinetics and exposure response relationship following osimertinib treatment, ASCPT 2019 Annual Meeting, USA

Moorthy, G., et al. (2018) Population Pharmacokinetic Model of AZD8186, a Potent and Selective Inhibitor of PI3Kβδ, in Patients with Advanced Solid Tumors, ASCPT 2018 Annual Meeting, Orlando, USA

Kümmel, A., Sunnåker, M., Kaschek, D., Schmidt, H. (2017) Manage your data comfortably: Data programming and analysis using R, Eight American Conference on Pharmacometrics (ACoP), Fort Lauderdale, USA

Sokolov, V, et al. (2017) Drug-Disease modeling: a practical workflow from model development to simulations, Eight American Conference on Pharmacometrics (ACoP), Fort Lauderdale, USA

Sunnåker, M., Kümmel, A., Kaschek, D., Schmidt, H. (2017) Towards a user-friendly and powerful Modeling & Simulation environment in R – Enabling efficient work across QSP and Pharmacometrics with access to robust estimation algorithms, Eight American Conference on Pharmacometrics (ACoP), Fort Lauderdale, USA

Schmidt, H., Kaschek, D., Kümmel, A., Sunnåker, M. (2017) Systems Pharmacology Modeling in R, powered by Shiny, Eight American Conference on Pharmacometrics (ACoP), Fort Lauderdale, USA

Johnson, M., Schmidt, H., Sunnaker, M., Hamren, B., AlHuniti, N., Nayak, S., Tomkinson, H., Vishwanathan, K. (2017) Exposure response relationship of interstitial lung disease (ILD) events following Osimertinib treatment, Population Approach Group (PAGE) meeting 2017, Budapest, Hungary

Johnson, M., Schmidt, H., Sunnaker, M., Nash, T., Nayak, S., Tomkinson, H., Vishwanathan, K. (2017) Population pharmacokinetic and pharmacodynamic analysis of osimertinib, American Society of Clinical Oncology – 53rd Annual Meeting (ASCO2017), Chicago, USA

Sunnåker, M., Schmidt, H. (2016) IQM Tools: Efficient State of the Art Modeling across Pharmacometrics and Systems Pharmacology (ACoP7), Seattle, USA

Radivojevic, A., Schmidt, H. (2015) Datasets for pharmacometric analyses: internal review and standardization efforts, Sixth American Conference on Pharmacometrics (ACoP6), Arlington, VA, USA

Schmidt, H. (2015) SBPOP/mPD: Informing dose-concentration-response relationships – Application to study design and information generation based on competitor data, Population Approach Group (PAGE) meeting 2015, Hersonissos, Greece

Weber, F. Schmidt, H., Pfister, M., J v.d. Anker (2015) Pharmacometric approach to characterize key metabolites of acetaminophen in preterm and term neonates, Population Approach Group (PAGE) meeting 2015, Hersonissos, Greece

Goldhahn, J., Radivojevic, A., Tanko, L., 3, Papanicolaou, DA., Schmidt, H. (2013) Modeling rehabilitation after hip fracture, 2nd Fragility Fracture Network Congress, Berlin, Germany

Schmidt, H. (2013) The “SBPOP Package”: Efficient Support for Model Based Drug Development – From Mechanistic Models to Complex Trial Simulation, Population Approach Group (PAGE) meeting 2013, Glasgow, Scotland

Radivojevic, A., Fink, M., Steimer, J.-L., Schmidt, H. (2013) Enhancing Population PK modeling efficiency using an integrated workflow, Population Approach Group (PAGE) meeting 2013, Glasgow, Scotland

Zhudenkov, K., Helmlinger, G., Schmidt, H. (2012) Application of the SBTOOLBOX2 in drug discovery and development, Population Approach Group (PAGE) meeting 2012, Venice, Italy

Frey, S., Schmidt, H., Rateitschak, K., Beltran, G., Garcia-Salcedo, R., Elbing, K., Bosch, D., Ye, T., Hohmann, S., Wolkenhauer, O. (2009) Modelling Snf1 regulation in Saccharomyces cerevisiae, 9th International Conference on Systems Biology, Gothenburg, Sweden

Egea, J.A., Schmidt, H., Banga, J.R. (2008) A new tool for parameter estimation in nonlinear dynamic biological systems using global optimization, 9th International Conference on Systems Biology, Gothenburg, Sweden

Liebal, U.W., Schmidt, H. (2008) Sensitivity Analysis based Adaptive Search-Space Reduction for Parameter Estimation Applications, 9th International Conference on Systems Biology, Gothenburg, Sweden

Bittig, A.T., Schmidt,H. (2008) Format Overflow? Handling of Modeling Projects in Systems Biology, 9th International Conference on Systems Biology, Gothenburg, Sweden

Dell’Orco, D., Fanelli, F., Schmidt, H. (2008) Dynamic modeling of phototransduction biochemistry in vertebrate rods: from dark/light adaptation to disease, 9th International Conference on Systems Biology, Gothenburg, Sweden

Almquist, J., Schmidt, H., Lang, P., Prätzel-Wolters, D., Deitmer, J.W., Jirstrand, M., Becker, H.M. (2008) A model reduction approach to the kinetics of the monocarboxylate transporter MCT1 and carbonic anhydrase II, 9th International Conference on Systems Biology, Gothenburg, Sweden

Schmidt, H. (2008) Hierarchical Modelling of Metabolism: From Methodology to Application, ISGSB 2008, Elsinor, Denmark

Schmidt, H., Jirstrand, M., Cedersund, G. (2006) A Systematic Modelling Framework for Biochemical and Biological Systems, 7th International Conference on Systems Biology, Yokohama, Japan

Cedersund, G., Jirstrand, M., Schmidt, H. (2006) Model reduction for various levels of model development, 7th International Conference on Systems Biology, Yokohama, Japan

Jirstrand, M., Schmidt, H., Cedersund, G. (2006) Parameter Estimation Using Alternative Cost Functions, 7th International Conference on Systems Biology, Yokohama, Japan

Mojzita, D., Nahmany, A., Schmidt, H., Homann, S. (2006) Dynamic modelling of thiamine regulation in Saccharomyces cerevisiae based on High Performance Liquid Chromatography (HPLC) measurements, International Specialised Symposium on Yeasts, Helsinki, Finland

Schmidt, H., Jirstrand, M. (2005) Systems Biology Toolbox for MATLAB: A computational platform for research in Systems Biology, 6th International Conference on Systems Biology, Boston, USA

Schmidt, H., Jacobsen, E.W. (2004) On the Decomposition of Biochemical Networks, H. Schmidt and E. Jacobsen, 5th International Conference on Systems Biology, Heidelberg, Germany

Schmidt, H., Jacobsen, E.W. (2004) Identification of the dynamic structure of biochemical networks based on least squares estimation of the Jacobian, 5th International Conference on Systems Biology, Heidelberg, Germany

Schmidt, H., Jacobsen, E.W. (2003) A linear systems approach to the analysis of complex behaviours within biochemical reaction networks – application to the cell cycle, 4th International Conference on Systems Biology, Saint Louis, USA

Anne Kümmel, PhD

Director Consulting

Publications

Selected peer-reviewed Articles

Kümmel A., Selzer P., Siebert D., Schmidt I., Reinhard J., Götte M, Ibig-Rehm Y., Parker C. N., Gabriel D. Differentiation and visualization of diverse cellular phenotypic responses in primary high-content screening Journal of Biomolecular Screening 16(3): 338-347 2012

Kümmel A., Ewald J. C., Fendt S.-M., Jol S., Picotti P., Aebersold R., Sauer U., Zamboni N., Heinemann M. Differential glucose repression in common yeast strains in response to a HXK2 deletion. FEMS Yeast Research 10(3): 322-32, 2010

Kümmel A., Beibel M., Gehin P., Gubler H., Gabriel D., Parker C. N. Integration of multiple readouts into the Z’ factor for assay quality control Journal of Biomolecular Screening 15(1): 95-101, 2010.

Kümmel A., Panke S., Heinemann M. Systematic assignment of thermodynamic constraints in metabolic network models BMC Bioinformatics 7:512, 2006

Kümmel A., Panke S., Heinemann M. Putative regulatory sites unraveled by network-embedded thermodynamic analysis of metabolome data Molecular Systems Biology 2, 2006, doi:10.1038/msb4100074

Book chapters

Lowe P. J., Kümmel A., Vasalou C., Matsushima S., Skerjanec A. Integrated quantitation of drug-target binding, biomarkers and clinical response to support rational dose regimen selection. in ADME and translational pharmacokinetics/pharmacodynamics of therapeutic proteins: Applications in drug discovery and development. Zhou, H., Theil F.-P. Eds., John Wiley & Sons Inc.: Hoboken, New Jersey, 2015

Kümmel A., Parker C. N. The interweaving of cheminformatics and high-throughput screening in Cheminformatics and Computational Chemical Biology, Bajorath J. Ed., Humana Press/Springer: Totowa, N. J., 2010

Selected Poster and Oral Presentations at Conferences

Kümmel A., Abuhelwa A., Krause A. Try yourself! Making clinical teams explore dose response relationships in R Shiny Oral presentation @ 12th Basel M&S seminar, Basel, Switzerland, 19-20/09/2016

Kümmel A., Abuhelwa A., Krause A. PECAN, a Shiny application for calculating confidence intervals and prediction intervals for pharmacokinetic and pharmacodynamic models Poster presentation @ 25th PAGE meeting, Lisboa, Portugal, 07-10/06/2016

Kümmel A., Lowe P. Mechanism-based population PK modeling describing pharmacological effects from dose to clinical response enables mechanistics insights and projections beyond the studied treatment Poster presentation @ 7th Noordwijkerhout Symposium on Pharmacokinetics, Pharmacodynamics and Systems Pharmacology, Noordwijk, Netherlands, 23-25/04/2014

Nuggehally R Srinivas PhD, FCP

Expert Consultant - External

Bio

A leader in clinical pharmacology with cross-functional domain expertise supporting various therapeutic areas (small molecules, biologics and biosimilars) with about 3 decades of experience in pharmaceutical industry. Professional experience includes rationalizing concepts, design considerations, planning, execution and analyzing discovery ADME/DMPK, nonclinical and clinical pharmacology studies. Development experience encompasses of developing 505(b)(1) and 505(b)(2) regulatory pathway programs – end to end discovery led candidate nomination, IND and clinical development up to market authorization. Drug development experiences comprises of numerous INDs/CTAs (>70), clinical pharmacology programs to support NDA, and Biosimilar/BLA strategy. From a regulatory perspective interacted with global regulatory agencies (i.e., FDA, MCC, EMA, MHRA, TPD, TGA, DCGI etc.) for various meetings (i.e., FDA’s Type A, B and C meetings).

Publications

Publications:

Benjamin Guiastrennec, PharmD, PhD

Associate Director Consulting

Bio

Dr. Benjamin Guiastrennec is an experienced pharmacometrician and R enthusiast. Over the years, he has gained experience in planning and performing PK-PD modeling and simulation analyses in various therapeutic areas from early to late drug development stages. Benjamin has a strong interest in data visualization and developed several R packages for model diagnostics such as amget, modelviz or the new xpose.

Benjamin graduated from the school of pharmacy of Montpellier (France) and obtained a master of Pharmacokinetics from the school of pharmacy of Marseille (France). He then pursued a PhD program at the university of Uppsala (Sweden) focusing on the mechanism-based modeling of processes involved in oral drug absorption. Through his education Benjamin was also part of a postdoctoral fellowship program between the university at Buffalo (NY, USA) and Novartis (NJ, USA) and had the opportunity to be an exchange student with the university of California, San Francisco (CA, USA). Benjamin joined the IntiQuan team in 2019.

Publications

Guiastrennec B, Sonne DP, Bergstrand M, Vilsbøll T, Knop FK, Karlsson MO. Model-Based Prediction of Plasma Concentration and Enterohepatic Circulation of Total Bile Acids in Humans. CPT Pharmacometrics Syst. Pharmacol., 7:603–612, 2018

Guiastrennec B, Ramachandran G, Karlsson MO, Kumar AKH, Bhavani PK, Gangadevi NP, Swaminathan S, Gupta A, Dooley KE, Savic RM. Suboptimal Antituberculosis Drug

Concentrations and Outcomes in Small and HIV-Coinfected Children in India Recommendations for Dose Modifications. Clin. Pharmacol. Ther., 104(4):733–741, 2018

Guiastrennec B, Söderlind E, Richardson S, Peric A, Bergstrand M. In Vitro and In Vivo Modeling of Hydroxypropyl Methylcellulose (HPMC) Matrix Tablet Erosion Under Fasting and Postprandial Status. Pharm Res, 34:847–859, 2017

Guiastrennec B, Sonne DP, Hansen M, Bagger JI, Lund A, Rehfeld JF, Alskär O, Karlsson MO, Vilsbøll T, Knop FK, Bergstrand M. Mechanism–Based Modeling of Gastric Emptying Rate and Gallbladder Emptying in Response to Caloric Intake. CPTPharmacometrics Syst. Pharmacol, 5:692–700, 2016

Guiastrennec B, Wollenberg L, Forrest A and Ait–Oudhia S. AMGET, an R–Based Postprocessing Tool for ADAPT 5. CPT Pharmacometrics & Syst. Pharmacol. 2(7):1–10, 2013

Daniel Kaschek, PhD

Associate Director Consulting

Bio

Dr. Daniel Kaschek is an experienced modeler working in the field of Systems Biology and Computational Biology since 2008. Over the past years, he has actively worked on the developed of novel mathematical and statistical approaches to data analysis and parameter estimation in ordinary differential equations with applications in Systems Biology and Systems Pharmacology. He is an enthusiast R package developer, authoring several packages on Data Preprocessing and Dynamic Modeling.

Daniel has a background in Physics and specialized on Mathematical Physics at the University of Freiburg, Germany. For his PhD he changed field and started his research in Systems Biology and Data Analysis at the Physics department. During his PhD he covered a broad range of biological applications, e.g., in Immunology, Cancer Research or Drug-Induced Liver Injury, developing and applying diverse mathematical methods related to statistical inference, optimal control and identifiability analysis.

After his PhD, he became leader of the subgroup “Physical Methods in Systems Biology” where he worked with his team on the translation of concepts from theoretical physics to applications in Systems Biology. He joined the IntiQuan team in 2017

Publications

Selected publications:

Kaschek, D.; Sharanek, A.; Guillouzo, A.; Timmer, J. & Weaver, R. J., A dynamic mathematical model of bile acid clearance in HepaRG cells, Toxicological Sciences, Oxford University Press, 2017

Rosenblatt, M.; Timmer, J. & Kaschek, D, Customized steady-state constraints for parameter estimation in non-linear ordinary differential equation models, Frontiers in Cell and Developmental Biology, Frontiers Media SA, 2016

Maiwald, T.; Hass, H.; Steiert, B.; Vanlier, J.; Engesser, R.; Raue, A.; Kipkeew, F.; Bock, H. H.; Kaschek, D.; Kreutz, C. & Timmer, J., Driving the model to its limit: profile likelihood based model reduction PloS ONE, Public Library of Science, 2016

Kaschek, D.; Mader, W.; Fehling-Kaschek, M.; Rosenblatt, M. & Timmer, J., Dynamic Modeling, Parameter Estimation and Uncertainty Analysis in R, bioRxiv, Cold Spring Harbor Labs Journals, 2016

Hass, H.; Kreutz, C.; Timmer, J. & Kaschek, D., Fast integration-based prediction bands for ordinary differential equation models, Bioinformatics, Oxford Univ Press, 2016

Kaschek, D.; Henjes, F.; Hasmann, M.; Korf, U. & Timmer, J., Testing the pattern of AKT activation by variational parameter estimation, IEEE Life Science Letters, 2016

Kaschek, D. & Timmer, J., A unified approach to integration and optimization of parametric ordinary differential equations, Springer, 2015

Merkt, B.; Timmer, J. & Kaschek, D., Higher-order Lie symmetries in identifiability and predictability analysis of dynamic models, Physical Review E, APS, 2015

Raue, A.; Schilling, M.; Bachmann, J.; Matteson, A.; Schelke, M.; Kaschek, D.; Hug, S.; Kreutz, C.; Harms, B. D.; Theis, F. J. & others, Lessons learned from quantitative dynamical modeling in systems biology, PloS One, Public Library of Science, 2013

Fiala, G. J.; Kaschek, D.; Blumenthal, B.; Reth, M.; Timmer, J. & Schamel, W. W., Pre-clustering of the B cell antigen receptor demonstrated by mathematically extended electron microscopy, Frontiers in Immunology, Frontiers Media SA, 2013

Kreutz, C.; Raue, A.; Kaschek, D. & Timmer, J., Profile likelihood in systems biology, FEBS Journal, Wiley Online Library, 2013

Kaschek, D. & Timmer, J., A variational approach to parameter estimation in ordinary differential equations, BMC Systems Biology, BioMed Central Ltd, 2012

Pfeifer, A. C.; Kaschek, D.; Bachmann, J.; Klingmüller, U. & Timmer, J., Model-based extension of high-throughput to high-content data, BMC Systems Biology, BioMed Central Ltd, 2010

Darius Schweinoch, MSc

Modeling & Simulation Scientist

Bio

Darius Schweinoch is an experienced modeler, who worked on a broad range of biological and pharmaceutical research questions. Coming from an interdisciplinary background (Cell Biology (B. Sc.), Bioinformatics (M. Sc.)), Darius’ research mainly focused on the field of systems biology. In his Master studies, Darius developed models to study the hepatic clearance of uptake-limited drugs based on in vitro data and applied PBPK modeling. His PhD studies at the Institute of Bioinformatics of the University Medicine in Greifswald focused on mathematical modeling to answer research questions regarding the antiviral innate immune response and the replication of Hepatitis C Virus (HCV) under drug treatment. During this time, Darius was awarded the Add-On Fellowship for Interdisciplinary Life Science of the Joachim Herz Stiftung and worked in close collaboration with scientists from numerous backgrounds (biologists, informaticians, statisticians). He further gained hands-on experience in the analysis of biological and medical data using statistical and machine learning methods. Since August 2020, Darius is a Modeling and Simulation Scientist at IntiQuan.

Publications

Schweinoch, Darius, et al. “Mechanistic modeling explains the dsRNA length-dependent activation of the RIG-I mediated immune response.” Journal of Theoretical Biology (2020): 110336.

Franziska Weber, MD PhD

Medical Advisor

Bio

Updated Soon

Publications

Weber, F.D., Bielicki, J., Rodieux, F., van den Anker, J., and Pfister, M. Selb-stmedikation und Adhärenz in der Pädiatrie. Pädiatrie 04/2015, 2015.

Weber, F.D., Weinhofer, I., Einwich, A., Forss-Petter, S., Muneer, Z., Maier, H., Weber, W.H.A., and Berger, J. Evaluation of retinoids for induction of the redun-dant gene abcd2 as an alternative treatment option in x-linked adrenoleukodys-trophy. PLOS ONE, 2014.

Weber, F.D., Wiesinger, C., Forss-Petter, S., Regelsberger, G., Einwich, A., Weber, W.H.A., Köhler, W., Stockinger, H., and Berger, J. X-linked adrenoleukodystro-phy: very long-chain fatty acid metabolism is severely impaired in monocytes but not in lymphocytes. Human Molecular Genetics, 2014.

Weber, F., Siska, P., Kramer, M., Zulehner, N., Hackl, S., and Wesierska-Gádek, J. Combining an fptase inhibitor with cisplatin facilitates induction of apoptosis in human a549 lung cancer cells. Journal of Experimental Therapeutics & Oncology, 2011.

Venelin Mitov, PhD

Modeling & Simulation Scientist

Bio

Dr. Venelin Mitov is a highly skilled modeler and software engineer, holding a Ph.D. and a M.Sc. degree in Computational Biology, and a B.Sc. degree in Computer Science. His profile combines a strong mathematical and computer science background with almost a decade of experience in machine learning and statistical modelling.

Venelin has had a dynamic career path spanning both, industry and academia. His main personal strengths are his analytical mindset, combined with a motivation to excel in any professional and scientific challenge. He is a proficient R programmer (developer of a dozen of R-packages; owner of 3 CRAN packages), and he masters several other languages, including C++, Java, and Matlab. During his Ph.D. and post-doctoral studies, he has specialized in population and quantitative trait evolution models, with applications to epidemiological, macro-evolutionary, and stem-cell data. In 2019, his Ph.D. thesis entitled “Phylogenetic Comparative Methods in the Era of Big Data” has been nominated for the ETH silver medal for an outstanding Ph.D. dissertation. More about his open source research projects can be found on his portfolio web-page.

Starting from February 2020, Venelin joined IntiQuan as a modeling and simulation scientist. In this role he conducts modeling and simulation analyses across all phases of drug discovery and development, with emphasis on:

Systems pharmacology models;
Population PK and PK/PD models;
Statistical analyses.

Publications

Mitov V, Bartoszek K., Asimomitis G, Stadler T. Fast likelihood calculation for multivariate Gaussian phylogenetic models with shifts. Theor. Popul. Biol., vol 131, pp 66-78. 2020.
Mitov V, Bartoszek K, Stadler T. Automatic generation of evolutionary hypotheses using mixed Gaussian phylogenetic models. PNAS USA, vol 116 no 34 pp 16921-16926. 2019.
Mitov V, Stadler T. Parallel likelihood calculation for phylogenetic comparative models: The SPLITT C++ library. Methods Ecol. Evol . 2041-210X.13136. 2019.
Mitov V, Stadler T. A Practical Guide To Estimating the Heritability of Pathogen Traits. Mol. Biol. Evol., vol 6 (9) pp e1001123. 2018.
Bertels F, Marzel A, Leventhal G, Mitov V, Fellay J, Günthard H F, Böni J, Yerly S, Klimkait Th, Aubert V, Battegay M, Rauch A, Cavassini M, Calmy A, Bernasconi E, Schmid P, Scherrer A, Müller V, Bonhoeffer S, Kouyos R, Regoes R, The Swiss HIV Cohort Study. Dissecting HIV Virulence: Heritability of Setpoint Viral Load, CD4+ T-Cell Decline, and Per-Parasite Pathogenicity. Mol. Biol. Evol., vol 35 (1), pp 27-37. 2017.
Barido-Sottani J, Boskova V, Du Plessis L, Kühnert D, Magnus C, Mitov V, Müller N F, PečErska J, Rasmussen D A, Zhang C, Drummond A, Heath Tr, Pybus O G, Vaughan T G, Stadler T. Taming the BEAST—A Community Teaching Material Resource for BEAST 2. Syst. Biol., vol. 67 (1) pp. 170-174. 2017.
Mitov V, Claassen M. A Fused Elastic Net Logistic Regression Model for Multi-Task Binary Classification. arXiv:1312.7750. 2013.
Wan, C., Bachmann, N., Mitov, V. et al. Heritability of the HIV-1 reservoir size and decay under long-term suppressive ART. Nat Commun 11, 5542 (2020). https://doi.org/10.1038/s41467-020-19198-7

Andrijana Radivojevic, PhD

External Consultant, Business Development

Bio

Dr. Andrijana Radivojevic is an expert scientist with years of international experience in biotech and big pharma. She has contributed to programs in all phases of drug development, spanning various therapeutic areas and pharmacometric activities, and overlooking the quantitative strategy for the whole portfolio of indications.

As a trained engineer, she is passionate about improving the ways things are done. To that end, she is currently leading an industry-wide effort for Data Standards in Pharmacometrics, sponsored by International Society of Pharmacometrics Best Practices and Standards Committee and aiming towards an improved quality and efficiency for data preparation.

Andrijana has obtained her bachelor and master degrees in Electrical and Computer Engineering, Faculty of Technical Sciences, Novi Sad, Serbia, PhD degree in Systems Biology at Ecole Polytechnique Federale de Lausanne, Switzerland, and she is also a certified Executive Coach by Columbia University of New York, USA.

She was working for Merrimack Pharmaceuticals (Cambridge, USA), Novartis Pharma AG (Basel, Switzerland) and Novartis Pharmaceuticals Corporation (East Hanover, USA), prior to becoming independent. As a consultant, she now focuses on business development for scientific companies and personal & professional growth for their great scientists.

Publications

N/A

Karsten Kuritz, PhD

Modeling & Simulation Scientist

Bio

Leveraging on drug and disease modeling and simulation, advanced analytics and data science to enhance precision medicine and accelerate drug discovery

Publications

Journal articles (peer reviewed)

Kuritz, K., Stöhr, D., Maichl, D. S., Pollak, N., Rehm, M., and Allgöwer, F. “Reconstructing temporal and spatial dynamics from single-cell pseudotime using prior knowledge of real scale cell densities”. In: Scientific Reports 10.1 (2020), p. 3619. doi: 10.1038/s41598-020-60400-z.

Colbrook, M. J., Botev, Z. I., Kuritz, K., and MacNamara, S. “Kernel density estimation with linked boundary conditions”. In: Studies in Applied Mathematics (2020). doi: 10.1111/sapm.12322.

Kuritz, K., Zeng, S., and Allgöwer, F. “Ensemble Controllability of Cellular Oscillators”. In: IEEE Control Systems Letters 3.2 (2019), pp. 296–301. doi: 10.1109/lcsys.2018.2870967.

Kuritz, K., Stöhr, D., Pollak, N., and Allgöwer, F. “On the relationship between cell cycle analysis with ergodic principles and age-structured cell population models”. In: Journal of Theoretical Biology 414 (2017), pp. 91–102. doi: 10.1016/j.jtbi.2016.11.024.

Thomaseth, C., Kuritz, K., Allgöwer, F., and Radde, N. “The circuit-breaking algorithm for monotone systems”. In: Mathematical Biosciences 284 (2017), pp. 80–91. doi: 10.1016/j.mbs.2016.09.002.

Conference proceedings (peer reviewed)

Imig, D., Kuritz, K., Pollak, N., Rehm, M., and Allgöwer, F. “Death patterns resulting from cell cycle-independent cell death”. In: IFAC-PapersOnLine 51.19 (2018). 7th Conference on Foundation of Systems Biology in Engineering FOSBE 2018, pp. 90–93. doi: 10.1016/j.ifacol.2018.09.028.

Kuritz, K., Imig, D., Dyck, M., and Allgöwer, F. “Ensemble control for cell cycle synchronization of heterogeneous cell populations”. In: IFAC-PapersOnLine 51.19 (2018). 7th Conference on Foundation of Systems Biology in Engineering FOSBE 2018, pp. 44–47. doi: 10.1016/j.ifacol.2018.09.034.

Book chapters

Kuritz, K., Halter, W., and Allgöwer, F. “Passivity-Based Ensemble Control for Cell Cycle Synchronization”. In: Emerging Applications of Control and Systems Theory: A Festschrift in Honor of Mathukumalli Vidyasagar. Ed. by R. Tempo, S. Yurkovich, and P. Misra. Cham: Springer International Publishing, 2018, pp. 1–13. doi: 10.1007/978-3-319-67068-3_1.

Conference Talks

Kuritz, K. and Allgöwer, F. “Ensemble control for cellular oscillators: One ring to rule them all”. Workshop: Analysis, Control, and Learning of Dynamic Ensemble and Population Systems. IFAC World Congress. Virtual, 2020.

Kuritz, K., Stöhr, D., Pollak, N., and Allgöwer, F. “Reconstructing dynamic processes from high dimensional snap shot data”. Int. Conf. on Systems Biology of Human Disease. Heidelberg, 2017.

Kuritz, K., Stöhr, D., Pollak, N., and Allgöwer, F. “Reconstructing dynamic processes from high dimensional snap shot data”. Int. Conf. on Systems Biology. Blacksbourg, VA, 2017.

Kuritz, K. and Allgöwer, F. “Determining protein level variations along the cell cycle from snap-shot population measurements”. Workshop on Computational Models in Biology and Medicine. Cologne, 2014.

Poster presentations (excerpt)

Kuritz, K. and Allgöwer, F. “Broadcast control of oscillating cell populations”. EMBO | EMBL Symposium: Biological Oscillators: Design, Mechanism, Function. Heidelberg, 2018.

Kuritz, K. and Allgöwer, F. “Therapy design by broadcast control of oscillating cell populations”. Curious2018 – Future Insight. Darmstadt, 2018.

Kuritz, K., Stöhr, D., Pollak, N., and Allgöwer, F. “Reconstructing dynamic processes from high dimensional snap shot data”. Int. Conf. on Systems Biology. Blacksbourg, VA, 2017.

Kuritz, K., Stöhr, D., Pollak, N., Rehm, M., and Allgöwer, F. “Reconstructing dynamic processes from high dimensional snap shot data”. CSHL 9th Single Cell Analyses Meeting. 2017.

Kuritz, K., Müller, F., Pollak, N., and Allgöwer, F. “Too Young to Die: Age Structured Population Models Capture Cell Cycle Dependent Apoptosis from Snapshot Data”. Int. Conf. on Systems Biology of Human Disease. Boston, MA, 2016.

Kuritz, K. and Allgöwer, F. “Inferring cell-cycle dependent signalling with age-structured population models”. Int. Conf. on Systems Biology of Human Disease. Heidelberg, 2015.

Kuritz, K., Radde, N., and Olayioye, M. “Multi-scale modeling reveals membrane domain variations as mechanism behind augmented ErbB receptor activation”. In: 14th International Conference on Systems Biology. Copenhagen, 2013.

Kuritz, K., Kearns, J. D., Bukhalid, R., Harms, B. D., Nielsen, U. B., and Schoeberl, B. “Deciphering paradoxical responses to RAF inhibitors – new insights in the MAPK cascade”. In: 12th International Conference on Systems Biology. Heidelberg, 2011.

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LET'S EXPLORE HOW WE CAN BE HELPFUL

All IntiQuan team members
are recognized experts
in modeling & simulation

OUR TEAM MEMBERS HAVE EXCELLENT
EXPERTISE IN MODELING & SIMULATION, ADVANCED ANALYTICS, AND DRUG DEVELOPMENT