Biyomühendislik

Yrd. Doç. Dr. Pınar PİR
Biyomühendislik

Pınar PİR
Telefon
(262) 3321
E-Posta
pinarpir@gtu.edu.tr
Ofis
, Elektronik/Insaat/Biyomuhendislik Binasi 147
Çalışma alanları
Sistem Biyolojisi, Matematiksel Modelleme, Bioinformatik
Detaylı özgeçmiş
ppir_cv_nov2016.pdf

Waltemath, D. J.R. Karr, F.T. Bergmann, V. Chelliah, M. Hucka, M. Krantz, W. Liebermeister, P. Mendes, C.J. Myers, P. Pir, B. Alaybeyoglu, N.K. Aranganathan, K. Baghalian, A.T. Bittig, P.E. Pinto Burke, M. Cantarelli, Y.H. Chew, R.S. Costa, J. Cursons, T. Czauderna, A.P. Goldberg, H.F. Gomez, J. Hahn, T. Hameri, D.F.H. Gardiol, D. Kazakiewicz, I. Kiselev, V. Knight-Schrijver, C. Knupfer, M. Konig, D. Lee, A. Lloret-Villas, N. Mandrik, J.K. Medley, B. Moreau, H. Naderi-Meshkin, S.K. Palaniappan, D. Priego-Espinosa, M. Scharm, M. Sharma, K. Smallbone, N.J. Stanford, J-H. Song, T. Theile, M. Tokic, N. Tomar, V. Tour´e, J. Uhlendorf, T.M. Varusai, L.H. Watanabe, F. Wendland, M. Wolfien, J.T. Yurkovich, Y. Zhu, A. Zardilis, A. Zhukova, and F. Schreibery, 2016, "Toward community standards and software for whole-cell modeling." IEEE Transactions on Biomedical Engineering 63.10: 2007-2014.

Pir, P. and N. Le Novère, “Mathematical Models of Pluripotent Stem Cells: At the Dawn of Predictive Regenerative Medicine,” in Systems Medicine: Methods and Protocols, 331-350, Springer

Kell, D.B., N. Swanston, P. Pir, S.G. Oliver, 2015, “Membrane transporter engineering in industrial biotechnology and whole cell biocatalysis”, Trends in Biotechnology, 33, 237-246.

Alcasabas, A. A. , P. I. Darley , P. Pir, 2014 , “Novel Yeast Strains”, US patent WO2014102201 A1

Dikicioğlu D., S. Öç, B. M. Rash, W. B. Dunn, P. Pir, D. B. Kell, B. Kırdar, S. G. Oliver, 2014, “Yeast cells with impaired drug resistance accumulate glycerol and glucose”, Molecular BioSystems, 10, 93-102.

Castrillo, J. I., P. Pir, S. G. Oliver, 2013, “Chapter 18 - Yeast Systems Biology: Towards a Systems Understanding of Regulation of Eukaryotic Networks in Complex Diseases and Biotechnology“, in Handbook of Systems Biology: Concepts and Insights, 343-365, Academic Press.

Alcasabas A. A. , M. de Clare , P. Pir, S. G. Oliver, 2013, “Control analysis of the eukaryotic cell cycle using gene copy-number series in yeast tetraploids”, BMC Genomics, 14, 744.

Smallbone K., H. L. Messiha, K. M. Carroll, C. L. Winder, N. Malys, W. B. Dunn, E. Murabito, N. Swainston, J. O. Dada, F. Khan, P. Pir, E. Simeonidis, I. Spasić, J. Wishart, D. Weichart, N. W. Hayes, D. Jameson, D. S. Broomhead, S. G. Oliver, S. J. Gaskell, J. E. G. McCarthy, N. W. Paton, H. V. Westerhoff, D. B. Kell, P. Mendes, 2013, “A model of yeast glycolysis based on a consistent kinetic characterisation of all its enzymes“, FEBS Letters, 587, 17, 2832-2841.

Dikicioğlu D., P. Pir, S. G. Oliver, 2013, “Predicting complex phenotype–genotype interactions to enable yeast engineering: Saccharomyces cerevisiae as a model organism and a cell factory”, Biotechnology Journal, 8, 9, 1017-1034.

Bilsland E., A. Sparkes, K. Williams, H. J. Moss, M. de Clare, P. Pir, J. Rowland, W. Aubrey, R. Pateman, M. Young, M. Carrington, R. D. King, S.G. Oliver, 2013, “Yeast-based automated high-throughput screens to identify anti-parasitic lead compounds”, Open Biology, 3,2.

Mülleder M., F. Capuano, P. Pir, S. Christen, U. Sauer, S. G. Oliver, M. Ralser, 2012, “A prototrophic deletion mutant collection for yeast metabolomics and systems biology”, Nature Biotechnology, 30, 12, 1176-1178.

Pir P., A. Gutteridge, J. Wu, B. Rash, D.B. Kell, N. Zhang, S.G. Oliver, 2012, “The genetic control of growth rate: A systems biology study in yeast”, BMC Systems Biology, 6,4

Carroll, K. M. , D. M. Simpson, C. E. Eyers, C. G. Knight, P. Brownridge, W. Dunn, C. L. Winder, K. Lanthaler, P. Pir, N. Malys, D. B. Kell, S. G. Oliver, S. J. Gaskell, R. J. Beynon, 2011, “Absolute quantification of a metabolic pathway in yeast: deployment of a complete QconCAT approach”, Molecular and Cellular Proteomics, 10,12.

Lanthaler, K., E. Bilsland, P. D. Dobson, H. J. Moss, P. Pir, D. B. Kell, S. G. Oliver, 2011, “Genome-wide assessment of the carriers involved in the cellular uptake of drugs: a model system in yeast”, BMC Biology, 9, 70.

Bilsland E., P. Pir, A. Gutteridge, A. Johns , R. D. King, S. G. Oliver, 2011, “Functional Expression of Parasite Drug Targets and Their Human Orthologs in Yeast.”, PLoS Neglected Tropical Diseases, 5, 10, e1320.

Dikicioğlu, D., E. Karabekmez, B. Rash, P. Pir, B. Kirdar, S. G. Oliver, 2011, “How yeast re-programmes its transcriptional profile in response to different nutrient impulses”, BMC Systems Biology, 5, 148.

M. de Clare, P. Pir, S. G. Oliver, 2011, “Haploinsufficiency and the sex chromosomes from yeasts to humans”, BMC Biology, 9, 15.

Dobson, P., K. Smallbone, K., D. Jameson, E. Simenodis, K. Lanthaler, P. Pir, C. Lu, N. Swainston, W.B. Dunn, P. Fisher, D. Hull, M. Brown, O. Oshota, N. Stanford, D.B. Kell, R. King, S.G. Oliver, R. Stevens, P. Mendes, 2010, “Further developments towards a genome-scale metabolic model of yeast”, BMC Systems Biology, 4, 1, 145-150

Gutteridge*, A., P. Pir*, J.I. Castrillo, P.D. Charles, K. Lilley, S.G. Oliver, 2010, “Nutrient control of eukaryote cell growth: A systems biology study in yeast”, BMC Biology, 8, 68. (* equal contribution authors)

King R., J. Rowland, W. Aubrey, M. Liakata, M. Markham, L.N. Soldatova, K.E. Whelan, A. Clare, M. Young, A. Sparkes, S.G. Oliver, P. Pir, 2009, "The Robot Scientist Adam," Computer, 42, 8, 46-54.

King, R.D., J. Jowland, S.G. Oliver, M. Young, W. Aubrey, E. Byrne, M. Liakata, M. Markham, P. Pir, L.N. Soldatova, A. Sparkes, K.E. Whelan, A. Clare, 2009, “The Automation of Science”, Science, 324, 5923, 85-89.

Dikicioğlu, D., P. Pir, Z. I. Önsan, B. Kırdar, K. Ö. Ülgen, A. Hayes, S. G. Oliver, 2008, “Integration of metabolic modeling and phenotypic data in the evaluation and improvement of ethanol production using respiratory deficient mutants of Saccharomyces cerevisiae”, Applied and Environmental Microbiology, 74, 18, 5809-5816.

Pir, P., B. Kırdar, A. Hayes, Z. I. Önsan, K. Ö. Ülgen, S. G. Oliver, 2008, “Exometabolic and transcriptional response in relation to phenotype and gene copy number in respiration-related deletion mutants of S. cerevisiae”, Yeast, 25, 9, 661-672.

Pir, P., B. Kırdar, Z. I. Önsan, K. Ö. Ülgen, A. Hayes, S. G. Oliver, 2006, “Annotation of unknown yeast ORFs by correlation analysis of microarray data and extensive literature searches”, Yeast, 23, 553-571

Pir, P., B. Kırdar, Z. I. Önsan, K. Ö. Ülgen, A. Hayes, S. G. Oliver, 2006, ”Integrative investigation of metabolic and transcriptomic data”, BMC Bioinformatics, 7, 203

Arga, K.Y.,T. Çakır, P. Pir, N. Özer, M. M. Altıntaş and K.Ö. Ülgen, 2004, “Transfer function approach in structured modeling of recombinant yeast utilizing starch”, Process Biochemistry, 39,10,1237-1248.

Pir, P., and M. Arıkol, 2002, “Modelling and simulation of a wet scrubber”, Appropriate Environmental and Solid Waste Management and Technologies for Developing Countries, Proceedings of ISWA 2002, 2521-2528.

  • Doktora: Bogazici University, Department of Chemical Engineering : Ph.D., 2001- 2005
    Thesis: Integrated Analysis of Metabolome Profiles and Gene Expression in Respiratory Deficient Deletion Mutants of Saccharomyces cerevisiae
  • Yüksek lisans: Bogazici University, Department of Chemical Engineering: M.Sc., 1998-2001
    Thesis: Modelling and Simulation of a Wet Scrubber
  • Lisans: Bogazici University, Department of Chemical Engineering: M.Sc., 1993-1998
Projeler:

Tubitak Bideb 2232 116C062 (Yurutucu) - Eubacterium limosum soylarının metabolik ağlarının ve karbon asimilasyonu yol izlerinin oluşturulması yoluyla biyoyakıt üretimine yeni nesil çözümlerin geliştirilmesi: Sistem biyolojisi yaklaşımı 01/05/2016-01/05/2018

Tubitak Ardeb 1001 116S388 (Yurutucu) - Uyarılmış Kök Hücrelerin Oluşum ve Başkalaşım Süreçlerinin Sistem Biyolojisi ve Biyomühendislik Yaklaşımlarıyla Modellenerek Geliştirilmesi 01/05/2017-01/05/2020

Tubitak Ardeb 1003 216S489 (Arastirmaci) - Küçük Hücreli Dışı Akciğer Kanseri Modelleri Oluşturulması Ve Etiyopatogenezinin Omik Yöntemlerle Araştırılması - (Butcesi onay asamasindadir)

Babraham Institute (Cambridge, UK), Misafir araştırmacı
http://lenoverelab.org/members/Pinar_Pir

ORCID: 0000-0002-0078-4904
Europe PMC open citation report http://europepmc.org/authors/0000-0002-0078-4904