Dr Jean-Marc SchwartzDiplIng, PhD

Senior Lecturer

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Publications

  1. 2019
  2. Accepted/In press

    Flux sampling is a powerful tool to study metabolism under changing environmental conditions

    Herrmann, H., Dyson, B. C., Vass, L., Johnson, G. & Schwartz, J-M., 6 Aug 2019, (Accepted/In press) In : npj Systems Biology and Applications.

    Research output: Contribution to journalArticle

  3. Published

    Calcium activated nucleotidase 1 (CANT1) is critical for glycosaminoglycan biosynthesis in cartilage and endochondral ossification

    Paganini, C., Monti, L., Costantini, R., Besio, R., Lecci, S., Biggiogera, M., Tian, K., Schwartz, J-M., Huber, C., Cormier-Daire, V., Gibson, B. G., Pirog, K. A., Forlino, A. & Rossi, A., Aug 2019, In : Matrix biology : journal of the International Society for Matrix Biology. 81, p. 70-90

    Research output: Contribution to journalArticle

  4. Published

    Kinetic modeling of DUSP regulation in Herceptin-resistant HER2-positive breast cancer

    Buiga, P., Elson, A., Tabernero, L. & Schwartz, J-M., 26 Jul 2019, In : Genes. 10, 568.

    Research output: Contribution to journalArticle

  5. Published

    XBP1 signalling is essential for alleviating mutant protein aggregation in ER-stress related skeletal disease

    Pirog, K. A., Dennis, E., Hartley, C., Jackson, R., Soul, J., Schwartz, J-M., Bateman, J., Boot-Handford, R. & Briggs, M., 1 Jul 2019, In : PLoS Genetics. e1008215.

    Research output: Contribution to journalArticle

  6. Published
  7. Published

    Probabilistic controllability approach to metabolic fluxes in normal and cancer tissues

    Schwartz, J-M., Otokuni, H., Akutsu, T. & Nacher, J. C., 20 Jun 2019, In : Nature Communications. 10, 2725.

    Research output: Contribution to journalArticle

  8. Published

    Modelling the role of dual specificity phosphatases in herceptin resistant breast cancer cell lines

    Buiga, P., Elson, A., Tabernero, L. & Schwartz, J. M., 1 Jun 2019, In : Computational Biology and Chemistry. 80, p. 138-146 9 p.

    Research output: Contribution to journalArticle

  9. Published

    Metabolic acclimation - a key to enhancing photosynthesis in changing environments?

    Herrmann, H. A., Schwartz, J-M. & Johnson, G. N., Jun 2019, In : Journal of Experimental Botany. 70, p. 3043-3056

    Research output: Contribution to journalArticle

  10. Published

    Network controllability analysis of intracellular signalling reveals viruses are actively controlling molecular systems

    Ravindran, V., Nacher, J. C., Akutsu, T., Ishitsuka, M., Osadcenco, A., Sunitha, V., Bagler, G., Schwartz, J. M. & Robertson, D. L., 14 Feb 2019, In : Scientific Reports. 9, 2066.

    Research output: Contribution to journalArticle

  11. Published

    The chloroplast genome of the marine microalga Tisochrysis lutea

    Méndez-leyva, A. B., Guo, J., Mudd, E. A., Wong, J., Schwartz, J. & Day, A., 13 Jan 2019, In : Mitochondrial DNA Part B. Resources . 4, 1, p. 253-255

    Research output: Contribution to journalArticle

  12. Published

    A meta-analysis portal for human breast cancer transcriptomics data: BreastCancerVis

    Buiga, P., Soul, J. & Schwartz, J-M., 2019, 2018 IEEE International Conference on Bioinformatics and Biomedicine (BIBM). p. 260-264

    Research output: Chapter in Book/Report/Conference proceedingConference contribution

  13. Published

    Metabolic Models

    Schwartz, J-M. & Soons, Z., 2019, Encyclopedia of Bioinformatics and Computational Biology. Vol. 2. p. 438-444 6 p.

    Research output: Chapter in Book/Report/Conference proceedingEntry for encyclopedia/dictionary

  14. 2018
  15. Published

    Effect of IAPP on the Proteome of Cultured Rin-5F Cells

    Miraee-Nedjad, S., Sims, P. F. G., Schwartz, J-M. & Doig, A., 12 Nov 2018, In : BMC Biochemistry. 19, 9

    Research output: Contribution to journalArticle

  16. Published

    Modeling Rho GTPase dynamics using Boolean logic

    Hetmanski, J., Schwartz, J-M. & Caswell, P., 31 Jul 2018, Rho GTPases: Methods and Protocols. Rivero, F. (ed.). Second ed. Springer Nature , Vol. 1821. p. 37-46 (Methods in Molecular Biology ; vol. 1821).

    Research output: Chapter in Book/Report/Conference proceedingChapter

  17. Published

    Rationalizing Rac1 and RhoA GTPase signaling: A mathematical approach

    Hetmanski, J., Schwartz, J-M. & Caswell, P. T., May 2018, In : Small GTPases. 9, 3, p. 224-229

    Research output: Contribution to journalReview article

  18. Published

    Stratification of knee osteoarthritis: two major patient subgroups identified by genome wide expression analysis of articular cartilage.

    Soul, J., Dunn, S., Anand, S., Serracino-Inglott, F., Schwartz, J-M., Boot-Handford, R. & Hardingham, T., Mar 2018, In : Annals of the rheumatic diseases. 77, p. 423-430

    Research output: Contribution to journalArticle

  19. Published

    Mapping biological process relationships and disease perturbations within a pathway network

    Stoney, R., Robertson, D. L., Nenadic, G. & Schwartz, J-M., 2018, In : npj Systems Biology and Applications. 4, p. 22 22.

    Research output: Contribution to journalArticle

  20. Published

    p53 modeling as a route to mesothelioma patients stratification and novel therapeutic identification

    Tian, K., Bakker, E., Hussain, M., Guazzelli, A., Alhebshi, H., Meysami, P., Demonacos, C., Schwartz, J-M., Mutti, L. & Krstic-Demonacos, M., 2018, In : Journal of Translational Medicine. 16, 1, p. 1-15 15 p., JTRM-D-18-00488.

    Research output: Contribution to journalArticle

  21. Published

    Regulation of dual specificity phosphatases in breast cancer during initial treatment with Herceptin: a Boolean model analysis

    Buiga, P., Elson, A., Tabernero, L. & Schwartz, J-M., 2018, In : BMC Systems Biology. 12, Suppl 1, 11.

    Research output: Contribution to journalArticle

  22. Published

    Using set theory to reduce redundancy in pathway sets

    Stoney, R. A., Schwartz, J., Robertson, D. L. & Nenadic, G., 2018, In : BMC Bioinformatics. 19, 1

    Research output: Contribution to journalArticle

  23. 2017
  24. Published

    Cyclic decomposition explains a photosynthetic down regulation for Chlamydomonas reinhardtii

    Chapman, S., Trindade dos Santos, M., Johnson, G., Kritz, M. & Schwartz, J-M., Dec 2017, In : BioSystems. 162, p. 119-127

    Research output: Contribution to journalArticle

  25. Published

    Insight into glucocorticoid receptor signalling through interactome model analysis: Boolean modelling of the glucocorticoid receptor

    Bakker, E. Y., Tian, K., Mutti, L., Demonacos, C., Schwartz, J-M. & Krstic-Demonacos, M., 6 Nov 2017, In : PL o S Computational Biology. e1005825.

    Research output: Contribution to journalArticle

  26. Published

    The chaperone activity of 4PBA ameliorates the skeletal phenotype of Chihuahua, a zebrafish model for dominant osteogenesis imperfecta

    Gioia, R., Tonelli, F., Ceppi, I., Biggiogera, M., Leikin, S., Fisher, S., Tenedini, E., Yorgan, T. A., Schinke, T., Tian, K., Schwartz, J. M., Forte, F., Wagener, R., Villani, S., Rossi, A. & Forlino, A., 1 Aug 2017, In : Human Molecular Genetics. 26, 15, p. 2897-2911 15 p.

    Research output: Contribution to journalArticle

  27. Published

    Differential regulation of cell death pathways by the microenvironment correlates with chemoresistance and survival in leukaemia: The role of microenvironment in ALL chemoresistance

    Qattan, M. Y., Bakker, E. Y., Rajendran, R., Chen, D. W-C., Saha, V., Liu, J., Zeef, L., Schwartz, J-M., Mutti, L., Demonacos, C. & Krstic-Demonacos, M., 5 Jun 2017, In : PLoS ONE. 12, 6, p. e0178606 19 p., PONE-D-17-09893R1.

    Research output: Contribution to journalArticle

  28. Published

    A quantitative brain map of experimental cerebral malaria pathology

    Strangward, P., Haley, M. J., Shaw, T. N., Schwartz, J-M., Greig, R., Mironov, A., de Souza, J. B., Cruickshank, S. M., Craig, A. G., Milner, D. A., Allan, S. M. & Couper, K. N., 8 Mar 2017, In : PL o S Pathogens. 13, 3, p. e1006267

    Research output: Contribution to journalArticle

  29. 2016
  30. Published

    PhenomeScape: a Cytoscape app to identify differentially regulated sub-networks using known disease associations

    Soul, J., Dunn, S., Hardingham, T., Boot-Handford, R. & Schwartz, J-M., 15 Dec 2016, In : Bioinformatics (Oxford, England). 32, 24, p. 3847-9

    Research output: Contribution to journalArticle

  31. Published

    Modelling GTPase dynamics to understand RhoA-driven cancer cell invasion

    Hetmanski, J., Schwartz, J-M. & Caswell, P., 2 Dec 2016, In : Biochemical Society Transactions. 44, 6, p. 1695-1700

    Research output: Contribution to journalReview article

  32. Published

    Gene expression changes in damaged osteoarthritic cartilage identify a signature of non-chondrogenic and mechanical responses

    Dunn, S., Soul, J., Anand, S., Schwartz, J-M., Boot-Handford, R. & Hardingham, T., Aug 2016, In : Osteoarthritis and Cartilage. 24, 8, p. 1431-1440 10 p.

    Research output: Contribution to journalArticle

  33. Published

    A MAPK-driven feedback loop suppresses Rac activity to promote RhoA-driven cancer cell invasion

    Hetmanski, J., Zindy, E., Schwartz, J-M. & Caswell, P., 3 May 2016, In : PL o S Computational Biology. 12, 5, e1004909.

    Research output: Contribution to journalArticle

  34. 2015
  35. Published

    Constructing a molecular interaction network for thyroid cancer via large-scale text mining of gene and pathway events.

    Wu, C., Schwartz, JM., Brabant, G., Peng, SL. & Nenadic, G., 9 Dec 2015, In : BMC Systems Biology. 9, Suppl 6, p. S5

    Research output: Contribution to journalArticle

  36. Published

    Disentangling the multigenic and pleiotropic nature of molecular function

    Stoney, R., Ames, R., Nenadic, G., Robertson, D. & Schwartz, JM., 9 Dec 2015, In : BMC Systems Biology. 9, Suppl 6, p. S3

    Research output: Contribution to journalArticle

  37. Published

    Metabolic flux prediction in cancer cells with altered substrate uptake

    Schwartz, JM., Barber, M. & Soons, Z., 27 Nov 2015, In : Biochemical Society Transactions. 43, 6, p. 1177-1181 4 p.

    Research output: Contribution to journalArticle

  38. Published

    The expanded p53 interactome as a predictive model for cancer therapy

    Schwartz, JM., Hussain, M., Tian, K., Mutti, L. & Krstic-Demonacos, M., Sep 2015, In : Genomics and Computational Biology. 1, p. e20

    Research output: Contribution to journalArticle

  39. Published

    Quantitative proteomics and network analysis of SSA1 and SSB1 deletion mutants reveals robustness of chaperone HSP70 network in Saccharomyces cerevisiae

    Jarnuczak, A., Eyers, CE., Schwartz, J-M., Grant, C. & Hubbard, S., 10 Apr 2015, In : Proteomics. 15, 18, p. 3126-3139 13 p.

    Research output: Contribution to journalArticle

  40. Published

    A logical model of HIV-1 interactions with the T-cell activation signalling pathway

    Oyeyemi, OJ., Davies, O., Robertson, D. L. & Schwartz, JM., Apr 2015, In : Bioinformatics. 31, 7, p. 1075-1083 8 p.

    Research output: Contribution to journalArticle

  41. Published
  42. Published

    Flux balance analysis reveals acetate metabolism modulates cyclic electron flow and alternative glycolytic pathways in Chlamydomonas reinhardtii

    Chapman, S. P., Paget, C. M., Johnson, G. N. & Schwartz, J-M., 2015, In : Frontiers in Plant Science. 6, p. 474

    Research output: Contribution to journalArticle

  43. 2014
  44. Published

    Molecular profiling of thyroid cancer subtypes using large-scale text-mining

    Wu, C., Schwartz, JM., Brabant, G. & Nenadic, G., Dec 2014, In : BMC Medical Genomics. 7, (Suppl 3):S3, p. S3 S3.

    Research output: Contribution to journalArticle

  45. Published

    Environmental systems biology of cold-tolerant phenotype in Saccharomyces species adapted to grow at different temperatures

    Paget, CM., Schwartz, JM. & Delneri, D., Nov 2014, In : Molecular ecology. 23, 21, p. 5241-5257 16 p.

    Research output: Contribution to journalArticle

  46. Published

    In silico prediction of elementary mode fluxes

    Schwartz, JM. & Taylor, PN., Apr 2014, Proceedings International Work-Conference on Bioinformatics and Biomedical Engineering (IWBBIO 2014). Vol. 1. p. 183-191 9 p.

    Research output: Chapter in Book/Report/Conference proceedingConference contribution

  47. Published

    Applications of p53 interactome analysis to personalised drug discovery

    Hussain, M., Stutchbury, B., Tian, K., Atalay, R., Schwartz, JM. & Krstic-Demonacos, M., Apr 2014, Proceedings International Work-Conference on Bioinformatics and Biomedical Engineering (IWBBIO 2014). Vol. 1. p. 192-203 12 p.

    Research output: Chapter in Book/Report/Conference proceedingConference contribution

  48. Published

    Network medicine analysis of chondrocyte proteins towards new treatments of osteoarthritis

    Nacher, JC., Keith, B. & Schwartz, JM., Jan 2014, In : Royal Society of London. Proceedings B. Biological Sciences. 281, p. 20132907

    Research output: Contribution to journalArticle

  49. 2013
  50. Published

    PathNER: A tool for systematic identification of biological pathway mentions in the literature

    Wu, C., Schwartz, J-M. & Nenadic, G., 16 Oct 2013, In : BMC Systems Biology. 7, Suppl3

    Research output: Contribution to journalArticle

  51. Published

    Dynamics of DNA damage induced pathways to cancer

    Tian, K., Rajendran, R., Doddananjaiah, M., Krstic-Demonacos, M. & Schwartz, J. M., 4 Sep 2013, In : PLoS ONE. 8, 9, e72303.

    Research output: Contribution to journalArticle

  52. Published

    Erg and AP-1 as determinants of glucocorticoid response in acute lymphoblastic leukemia

    Chen, D. W. C., Saha, V., Liu, J. Z., Schwartz, J. M. & Krstic-Demonacos, M., 20 Jun 2013, In : Oncogene. 32, 25, p. 3039-3048 9 p.

    Research output: Contribution to journalArticle

  53. Published

    Systems pharmacology, drug disease interactions

    Schwartz, JM., Nacher, JC., Dubitzky, W. (ed.), Wolkenhauer, O. (ed.), Cho, K. H. (ed.) & Yokota, H. (ed.), 2013, Encyclopedia of Systems Biology. Springer Nature , p. 2103-2106

    Research output: Chapter in Book/Report/Conference proceedingEntry for encyclopedia/dictionary

  54. Published

    Systems pharmacology, drug-target networks

    Schwartz, JM., Nacher, JC., Dubitzky, W. (ed.), Wolkenhauer, O. (ed.), Cho, K. H. (ed.) & Yokota, H. (ed.), 2013, Encyclopedia of Systems Biology. Springer Nature , p. 2106-2108

    Research output: Chapter in Book/Report/Conference proceedingEntry for encyclopedia/dictionary

  55. 2012
  56. Published

    Exploring the genetic control of glycolytic oscillations in Saccharomyces cerevisiae

    Williamson, T., Adiamah, D., Schwartz, J. M. & Stateva, L., 24 Aug 2012, In : BMC Systems Biology. 6, 108.

    Research output: Contribution to journalArticle

  57. Published

    Construction of a genome-scale kinetic model of Mycobacterium tuberculosis using generic rate equations

    Adiamah, DA. & Schwartz, JM., Jul 2012, In : Metabolites. 2, p. 382-397

    Research output: Contribution to journalArticle

  58. Published

    Comprehensive modelling of the Neurospora circadian clock and its temperature compensation

    Tseng, Y. Y., Hunt, S. M., Heintzen, C., Crosthwaite, S. K. & Schwartz, J. M., Mar 2012, In : PL o S Computational Biology. 8, 3, e1002437.

    Research output: Contribution to journalArticle

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Research output: Chapter in Book/Report/Conference proceedingConference contribution