Jaroslav Stark: 1960–2010

References

• Stark , J . Axiom a Dynamical Systems. Part III Essay, unpublished thesis, University of Cambridge, Cambridge, 1983
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• MacKay , RS and Stark , J . 1985 . Lectures on Orbits of Minimal Action for Area-preserving Maps , Coventry : Lecture Notes, unpublished thesis, University of Warwick .
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• Greene , JM , MacKay , RS and Stark , J . 1986 . Boundary circles for area-preserving maps . Phys. D: Nonlinear Phenom. , 21 ( 2–3 ) : 267 – 295 .
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• Stark , J . Invariant circles for area-preserving maps, Ph.D. thesis, University of Warwick
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• Glendinning , PA and Stark , J . 1988 . Introduction to Computational Dynamics , Trieste : Lecture Notes, ICTP Summer School .
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• Stark , J . 1988 . An exhaustive criterion for the non-existence of invariant circles for area-preserving twist maps . Commun. Math. Phys. , 117 : 177 – 189 .
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• Stark , J . 1988 . Smooth conjugacy and renormalization for diffeomorphisms of the circle . Nonlinearity , 1 : 541 – 575 .
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• MacKay , RS , Meiss , JD and Stark , J . 1989 . Converse KAM theory for symplectic twist maps . Nonlinearity, , 2 : 555 – 570 .
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• MacKay , RS and Stark , J . 1989 . Evaluation of an approximate renormalisation scheme for area-preserving maps . Phys. Lett. A, , 138 ( 3 ) : 113 – 122 .
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• Stark , J . 1989 . Unstable manifolds for the Mackay approximate renormalisation . Phys. D: Nonlinear Phenom. , 34 ( 1–2 ) : 208 – 222 .
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• Bressloff , PC and Stark , J . 1990 . Neuronal dynamics based on discontinuous circle maps . Phys. Lett. A, , 150 ( 3–4 ) : 187 – 195 .
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• Stark , J and Bressloff , PC . 1990 . Two-state representations of three-state neural networks . J. Phys. A: Math. Gen. , 23 : 1633 – 1644 .
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• Stark , J . 1990 . Comment on stochastically induced coherence in bistable systems . Phys. Rev. Lett. , 65 ( 26 ) : 3357
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• Stark , J . 1991 . A neural network to compute the Hutchinson metric in fractal image processing . IEEE Trans. Neural Netw. , 2 ( 1 ) : 156 – 158 .
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• Bressloff , PC and Stark , J . 1991 . “ Neural networks, learning automata and iterated function systems ” . In Fractals and Chaos , Edited by: Crilly , AJ , Jones , H and Earnshaw , RA . 145 – 164 . New York : Springer-Verlag .
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• Stark , J . 1991 . Iterated function systems as neural networks . Neural Netw. , 4 ( 5 ) : 679 – 690 .
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• MacKay , RS and Stark , J . 1992 . Locally most robust circles and boundary circles for area-preserving maps . Nonlinearity, , 5 : 867 – 888 .
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• Bressloff , PC and Stark , J . 1992 . Analysis of associative reinforcement learning in neural networks using iterated function systems . IEEE Trans. Syst. Man Cybern. , 22 ( 6 ) : 1348 – 1360 .
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• Marmi , S and Stark , J . 1992 . On the standard map critical function . Nonlinearity , 5 : 743 – 761 .
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• Stark , J . 1992 . Determining the critical transition for circles of arbitrary rotation number . Phys. Lett. A , 163 ( 4 ) : 258 – 265 .
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• Stark , J and Arumugam , BV . 1992 . Extracting slowly varying signals from a chaotic background . Int. J. Bifur. Chaos , 2 ( 2 ) : 413 – 419 .
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• Kearney , MJ and Stark , J . 1992 . An introduction to chaotic signal processing . GEC J. Res. , 10 : 52 – 58 .
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• Stark , J and Bressloff , PC . 1993 . “ Iterated function systems and their applications ” . In Wavelets, Fractals and Fourier Transforms , Edited by: Farge , M , Hunt , JCR and Vassilicos , JC . 65 – 90 . Oxford : Oxford University Press .
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• Stark , J . 1993 . Recursive prediction of chaotic time series . J. Nonlinear Sci. , 3 ( 1 ) : 197 – 223 .
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• Bullett , S and Stark , J . 1993 . Renormalizing the simple pendulum . SIAM Rev. , 35 : 631 – 640 .
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• Stark. , J . 1993 . Chaotic time series analysis, in AGARD Stability in Aerospace Systems. Vol. 789 pp. 2.1–2.11
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• Stark , J and Davies , ME . 1994 . Recursive filters driven by chaotic signals , 51 – 56 . IET : in IEE Colloquium on Exploiting Chaos in Signal Processing .
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• MacKay , RS , Meiss , JD and Stark , J . 1994 . An approximate renormalization for the break-up of invariant tori with three frequencies . Phys. Lett. A , 190 ( 5–6 ) : 417 – 424 .
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• Davies , ME and Stark , J . 1994 . “ Technique for estimating the dynamics in the noise-reduction problem ” . In Nonlinearity and Chaos in Engineering Dynamics , Edited by: Thompson , JMT and Bishop , SR . 329 – 344 . Wiley : IUTAM .
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• Chastell , PR , Glendinning , PA and Stark , J . 1995 . Locating bifurcations in quasiperiodically forced systems . Phys. Lett. A , 200 ( 1 ) : 17 – 26 .
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• Stark , J . 1997 . Invariant graphs for forced systems . Phys. D: Nonlinear Phenom. , 109 ( 1–2 ) : 163 – 179 .
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• Stark , J , Broomhead , DS , Davies , ME and Huke , J . 1997 . Takens embedding theorems for forced and stochastic systems . Nonlinear Anal.: Theory, Methods Appl. , 30 ( 9 ) : 5303 – 5314 .
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• Chavez-Ross , A , Franks , S , Mason , HD , Hardy , K and Stark , J . 1997 . Modelling the control of ovulation and polycystic ovary syndrome . J. Math. Biol. , 36 ( 1 ) : 95 – 118 .
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• Baigent , S , Stark , J and Warner , A . 1997 . Modelling the effect of gap junction nonlinearities in systems of coupled cells . J. Theor. Biol., , 186 ( 2 ) : 223 – 239 .
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• Stark , J . 1997 . Adaptive model selection using orthogonal least squares methods . Proc. Royal Soc. Ser. A: Math. Phys. Eng. Sci. , 453 : 21 – 42 .
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• Iannelli , P , Baigent , S and Stark , J . 1998 . Inertial manifolds for dynamics of cells coupled by gap junction . Dyn. Stabil. Syst. , 13 ( 2 ) : 187 – 213 .
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• Ørstavik , S and Stark , J . 1998 . Reconstruction and cross-prediction in coupled map lattices using spatio-temporal embedding techniques . Phys. Lett. A , 247 ( 1–2 ) : 145 – 160 .
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• Baigent , S , Stark , J and Warner , A . 1998 . Some Aspects of Gap Junction Dynamics in Embryonic Systems. Proceedings of the Second International Workshop on Information Processing in Cell and Tissues, M. Holcombe and R. Paton eds. , 7 – 15 . New York : Plenum Press .
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• Heald , J and Stark , J . Nonlinear Noise Reduction: Bayesian Perspectives, Proc. NOLTA 1998 3 (1998) pp. 1293–1296
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• Stark , J . 1999 . Delay embeddings for forced systems: I. deterministic forcing . J. Nonlinear Sci. , 9 ( 3 ) : 255 – 332 .
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• Stark , J . 1999 . Regularity of invariant graphs for forced systems . Ergodic Theory Dyn. Syst. , 19 ( 1 ) : 155 – 199 .
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• Carretero-Gonzalez , R , Ørstavik , S , Huke , J , Broomhead , DS and Stark , J . 1999 . Scaling and interleaving of subsystem Lyapunov exponents for spatio-temporal systems . Chaos , 9 ( 2 ) : 466 – 482 .
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• Carretero-Gonzalez , R , Ørstavik , S , Huke , J , Broomhead , DS and Stark , J . 1999 . Thermodynamic limit from small lattices of coupled maps . Phys. Rev. Lett. , 83 ( 18 ) : 3633 – 3636 .
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• Callard , R , George , AJ and Stark , J . 1999 . Cytokines, chaos, and complexity . Immunity , 11 ( 5 ) : 507 – 513 .
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• Chan , CCW , Stark , J and George , AJT . 1999 . Analysis of cytokine dynamics in corneal allo-graft rejection . Proc. Royal Soc. Lond. Ser. B: Biol. Sci. , 266 ( 1434 ) : 2217 – 2223 .
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• Glendinning , P , Feudel , U , Pikovsky , AS and Stark , J . 2000 . The structure of mode-locked regions in quasi-periodically forced circle maps . Phys. D: Nonlinear Phenom. , 140 ( 3–4 ) : 227 – 243 .
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• Stark , J . 2000 . Observing complexity, seeing simplicity . Philos. Trans. R. Soc. Lond. Ser. A: Math. Phys. Eng. Sci. , 358 ( 1765 ) : 41 – 61 .
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• Sturman , R and Stark , J . 2000 . Semi-uniform ergodic theorems and applications to forced systems . Nonlinearity , 13 : 113 – 143 .
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• MacKay , RS , Slijepcevic , S and Stark , J . 2000 . Optimal scheduling in a periodic environment . Nonlinearity , 13 : 257 – 297 .
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• Stark , JF and Stark , J . 2000 . Databases for congenital heart disease: A beginner's guide , Vol. 3 , W.B. Saunders, Philadelphia : Seminars in Thoracic and Cardiovascular Surgery: Pediatric Cardiac Surgery Annual . pp. 110–116, 2000
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• Heald , JPM and Stark , J . 2000 . Estimation of noise levels for models of chaotic dynamical systems . Phys. Rev. Lett. , 84 ( 11 ) : 2366 – 2369 .
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• Yates , A , Bergmann , C , Van Hemmen , JL , Stark , J and Callard , R . 2000 . Cytokine-modulated regulation of helper t cell populations . J. Theor. Biol. , 206 ( 4 ) : 539 – 560 .
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• Ørstavik , S , Carretero-Gonzalez , R and Stark , J . 2000 . Estimation of intensive quantities in spatio-temporal systems from time-series . Phys. D: Nonlinear Phenom. , 147 ( 3–4 ) : 204 – 220 .
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• Carretero-Gonzalez , R , Ørstavik , S and Stark , J . 2000 . Quasidiagonal approach to the estimation of Lyapunov spectra for spatiotemporal systems from multivariate time series . Phys. Rev. E , 62 : 6429 – 6439 .
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• Yates , A , Chan , CCW , Callard , RE , George , AJT and Stark , J . 2001 . An approach to modelling in immunology . Brief. Bioinform. , 2 ( 3 ) : 245 – 257 .
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• Chan , C , George , AJT and Stark , J . 2001 . Cooperative enhancement of specificity in a lattice of t cell receptors . Proc. Natl Acad. Sci. , 98 ( 10 ) : 5758 – 5763 .
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• Hardy , K , Spanos , S , Becker , D , Iannelli , P , Winston , RML and Stark , J . 2001 . From cell death to embryo arrest: Mathematical models of human preimplantation embryo development . Proc. Natl Acad. Sci. , 98 ( 4 ) : 1655 – 1660 .
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• Clement , F , Monniaux , D , Stark , J , Hardy , K , Thalabard , JC , Franks , S and Claude , D . 2001 . Mathematical model of FSH-induced camp production in ovarian follicles . Am. J. Physiol.–Endocrinol. Metabol. , 281 ( 1 ) : E35 – E53 .
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• Stark , J . 2001 . “ Delay reconstruction: Dynamics versus statistics ” . In Nonlinear Dynamics and Statistics , Edited by: Mees , AI . 81 – 104 . Boston : Birkhauser .
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• Baigent , S , Stark , J and Warner , A . 2001 . Convergent dynamics of two cells coupled by a nonlinear gap junction . Nonlinear Anal.: Theory, Methods Appl. , 47 ( 1 ) : 257 – 268 .
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• Stark , J , Iannelli , P and Baigent , S . 2001 . A nonlinear dynamics perspective of moment closure for stochastic processes . Nonlinear Anal.: Theory, Methods Appl. , 47 ( 2 ) : 753 – 764 .
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• Stark , J , Feudel , U , Glendinning , PA and Pikovsky , A . 2002 . Rotation numbers for quasi-periodically forced monotone circle maps . Dyn. Syst.: Int. J. , 17 ( 1 ) : 1 – 28 .
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• Hardy , K and Stark , J . 2002 . Mathematical models of the balance between apoptosis and proliferation . Apoptosis , 7 ( 4 ) : 373 – 381 .
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• Stark , J . 2003 . Transitive sets for quasi-periodically forced monotone maps . Dyn. Syst.: Int. J. , 18 ( 4 ) : 351 – 364 .
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• Stark , J , Broomhead , DS , Davies , ME and Huke , J . 2003 . Delay embeddings for forced systems: II. Stochastic forcing . J. Nonlinear Sci. , 13 ( 6 ) : 519 – 577 .
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• Stark , J , Brewer , D , Barenco , M , Tomescu , D , Callard , R and Hubank , M . 2003 . Reconstructing gene networks: What are the limits? . Biochem. Soc. Trans. , 31 ( 6 ) : 1519 – 1525 .
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• Stark , J and Hardy , K . 2003 . Chaos: Useful at last? . Sci. , 301 : 1192 – 1193 .
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• Hardy , K , Stark , J and Winston , RML . 2003 . Maintenance of the inner cell mass in human blastocysts from fragmented embryos . Biol. Reprod. , 68 ( 4 ) : 1165 – 1169 .
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• Stark , J , Callard , R and Hubank , M . 2003 . From the top down: Towards a predictive biology of signalling networks . Trends Biotechnol. , 21 ( 7 ) : 290 – 293 .
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• Chan , C , George , AJT and Stark , J . 2003 . T cell sensitivity and specificity-kinetic proofreading revisited . Discrete Contin. Dyn. Syst. Ser. B , 3 ( 3 ) : 343 – 360 .
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• Callard , RE , Stark , J and Yates , AJ . 2003 . Fratricide: A mechanism for t memory-cell homeostasis . Trends Immunol. , 24 ( 7 ) : 370 – 375 .
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• Webber , LJ , Stubbs , S , Stark , J , Trew , GH , Margara , R , Hardy , K and Franks , S . 2003 . Formation and early development of follicles in the polycystic ovary . The Lancet , 362 : 1017 – 1021 .
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• Stark , JF and Stark , J . Performance measurement in congenital heart surgery: Benefits and drawbacks. Seminars in Thoracic and Cardiovascular Surgery: Pediatric Cardiac Surgery Annual, Vol. 6, W.B. Saunders, Philadelphia, 2003, pp. 171–183
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• Stark , JF and Stark , J . 2003 . Performance monitoring in congenital heart surgery: Is it any use? . Prog. Pediat. Cardiol. , 18 ( 1 ) : 3 – 11 .
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• Broomhead , DS , Huke , JP , Muldoon , MR and Stark , J . 2004 . Iterated function system models of digital channels . Proc. Royal Soc. Lond. Ser. A: Math. Phys. Eng. Sci. , 460 : 3123 – 3142 .
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• Allan , MJ , Callard , R , Stark , J and Yates , A . 2004 . Comparing antigen-independent mechanisms oft cell regulation . J. Theor. Biol. , 228 ( 1 ) : 81 – 95 .
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• Yates , A , Callard , R and Stark , J . 2004 . Combining cytokine signalling with t-bet and gata-3 regulation in th1 and th2 differentiation: A model for cellular decision-making . J. Theor. Biol. , 231 ( 2 ) : 181 – 196 .
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• Roberts , R , Stark , J , Iatropoulou , A , Becker , DL , Franks , S and Hardy , K . 2004 . Energy substrate metabolism of mouse cumulus-oocyte complexes: Response to follicle-stimulating hormone is mediated by the phosphatidylinositol 3-kinase pathway and is associated with oocyte maturation . Biol. Reprod. , 71 ( 1 ) : 199 – 209 .
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• Chan , C , Stark , J and George , AJT . 2005 . The impact of multiple t cell–APC encounters and the role of anergy . J. Comput. Appl. Math. , 184 ( 1 ) : 101 – 120 .
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• Chan , C , Stark , J and George , AJT . 2004 . Feedback control of t-cell receptor activation . Proc. Royal Soc. B: Biol. Sci. , 271 : 931 – 939 .
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• Stubbs , S , Zachery-Jennings , C , Margara , R , Trew , G , Lavery , S , Stark , J , Hardy , K and Franks , S . 2004 . “ The effect of insulin-like growth factor I (IGF-I) on initiation of follicle growth in normal and polycystic ovaries in vitro ” . In Endocrine Abstracts , Vol. 7 , P172 Bristol : BioScientifica .
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• Stubbs , SA , Hardy , K , Da Silva-Buttkus , P , Stark , J , Webber , LJ , Flanagan , AM , Themmen , APN , Visser , JA , Groome , NP and Franks , S . 2005 . Anti-mullerian hormone protein expression is reduced during the initial stages of follicle development in human polycystic ovaries . J. Clin. Endocrinol. Metabol. , 90 ( 10 ) : 5536 – 5543 .
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• Roberts , R , Iatropoulou , A , Ciantar , D , Stark , J , Becker , DL , Franks , S and Hardy , K . 2005 . Follicle-stimulating hormone affects metaphase I chromosome alignment and increases aneuploidy in mouse oocytes matured in vitro . Biol. Reprod. , 72 ( 1 ) : 107 – 118 .
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• George , AJT , Stark , J and Chan , C . 2005 . Understanding specificity and sensitivity of t-cell recognition . Trends Immunol. , 26 ( 12 ) : 653 – 659 .
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• Jager , TH and Stark , J . 2006 . Towards a classification for quasiperiodically forced circle homeo-morphisms . J. Lond. Math. Soc. , 73 ( 3 ) : 727 – 744 .
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• Barenco , M , Tomescu , D , Brewer , D , Callard , R , Stark , J and Hubank , M . 2006 . Ranked prediction of p53 targets using hidden variable dynamic modeling . Genome Biol. , 7 ( 3 ) : R25
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• Kapellou , O , Counsell , SJ , Kennea , N , Dyet , L , Saeed , N , Stark , J , Maalouf , E , Duggan , P , Ajayi-Obe , M , Hajnal , J , Allsop , JM , Boardman , J , Rutherford , MA , Cowan , F and Edwards , AD . 2006 . Abnormal cortical development after premature birth shown by altered allometric scaling of brain growth . PLoS Med. , 3 ( 8 ) : e265
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• Ingram , P , Stumpf , M and Stark , J . 2006 . Network motifs: Structure does not determine function . BMC Genom. , 7 ( 1 ) : 108
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• Barenco , M , Stark , J , Brewer , D , Tomescu , D , Callard , R and Hubank , M . 2006 . Correction of scaling mismatches in oligonucleotide microarray data . BMC Bioinform. , 7 ( 1 ) : 251
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• Callard , RE and Stark , J . 2007 . “ Networks of the immune system ” . In Biological Networks , Edited by: Képès , F . 341 – 364 . Singapore : World Scientific .
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• Forsdike , RA , Hardy , K , Bull , L , Stark , J , Webber , LJ , Stubbs , S , Robinson , JE and Franks , S . 2007 . Disordered follicle development in ovaries of prenatally androgenized ewes . J. Endocrinol. , 192 ( 2 ) : 421 – 428 .
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• Stark , J , Chan , C and George , AJT . 2007 . Oscillations in the immune system . Immunol. Rev. , 216 ( 1 ) : 213 – 231 .
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• Chan , CCW , George , AJT and Stark , J . 2007 . Cytotoxic killing and immune evasion by repair . J. Stat. Phys. , 128 ( 1 ) : 393 – 411 .
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• Stark , J , Andl , T and Millar , SE . 2007 . Hairy math: Insights into hair-follicle spacing and orientation . Cell. , 128 ( 1 ) : 17 – 20 .
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• Webber , LJ , Stubbs , SA , Stark , J , Margara , RA , Trew , GH , Lavery , SA , Hardy , K and Franks , S . 2007 . Prolonged survival in culture of preantral follicles from polycystic ovaries . J. Clin. Endocrinol. Metabol. , 92 ( 5 ) : 1975 – 1978 .
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• Barenco , M , Shah , S , Brewer , D , Callard , R , Stark , J , Miller , C and Hubank , M . 2007 . rHVDM – a fast and user-friendly r package to predict transcription factor targets from microarray time series data . BMC Syst. Biol. , 1 ( Suppl. 1 ) : S1
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• Yates , A , Stark , J , Klein , N , Antia , R and Callard , R . 2007 . Understanding the slow depletion of memory CD4+ T cells in HIV infection . PLoS Med. , 4 ( 5 ) : e177
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• Yates , A , Chan , C , Strid , J , Moon , S , Callard , R , George , AJT and Stark , J . 2007 . Reconstruction of cell population dynamics using CFSE . BMC Bioinform. , 8 ( 1 ) : 196
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• Stubbs , SA , Stark , J , Dilworth , SM , Franks , S and Hardy , K . 2007 . Abnormal preantral folliculogenesis in polycystic ovaries is associated with increased granulosa cell division . J. Clin. Endocrinol. Metabol. , 92 ( 11 ) : 4418 – 4426 .
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• Stark , J . 2008 . Systems biology: A noisy coming of age . Curr. Opin. Biotechnol. , 19 ( 4 ) : 351 – 353 .
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• Brewer , D , Barenco , M , Callard , R , Hubank , M and Stark , J . 2008 . Fitting ordinary differential equations to short time course data . Philos. Trans. Royal Soc. A: Math. Phys. Eng. Sci. , 366 ( 1865 ) : 519 – 544 .
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• Franks , S , Stark , J and Hardy , K . 2008 . Follicle dynamics and anovulation in polycystic ovary syndrome . Hum. Reprod. Update , 14 ( 4 ) : 367 – 378 .
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• Ingram , PJ , Stumpf , MPH and Stark , J . 2008 . Nonidentifiability of the source of intrinsic noise in gene expression from single-burst data . PLoS Comput. Biol. , 4 ( 10 ) : e1000192
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• Young , D , Stark , J and Kirschner , D . 2008 . Systems biology of persistent infection: Tuberculosis as a case study . Nat. Rev. Microbiol. , 6 ( 7 ) : 520 – 528 .
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• Da Silva-Buttkus , P , Jayasooriya , GS , Mora , JM , Mobberley , M , Ryder , TA , Baithun , M , Stark , J , Franks , S and Hardy , K . 2008 . Effect of cell shape and packing density on granulosa cell proliferation and formation of multiple layers during early follicle development in the ovary . J. Cell Sci. , 121 ( 23 ) : 3890 – 3900 .
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• Yates , A , Stark , J , Klein , N , Antia , R and Callard , R . 2008 . Correction: Understanding the slow depletion of memory CD4+ T cells in HIV infection . PLoS Med. , 5 ( 1 ) : e11
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• Glendinning , PA , Jager , T and Stark , J . 2009 . Strangely dispersed minimal sets in the quasiperiodically forced Arnold circle map . Nonlinearity , 22 : 835 – 854 .
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• Da Silva-Buttkus , P , Marcelli , G , Franks , S , Stark , J and Hardy , K . 2009 . Inferring biological mechanisms from spatial analysis: Prediction of a local inhibitor in the ovary . Proc. Natl Acad. Sci. , 106 ( 2 ) : 456 – 461 .
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• Barenco , M , Brewer , D , Papouli , E , Tomescu , D , Callard , R , Stark , J and Hubank , M . 2009 . Dissection of a complex transcriptional response using genome-wide transcriptional modelling . Molec. Syst. Biol. , 5 ( 1 ) : 327
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• Skodras , A , Giannarou , S , Fenwick , M , Franks , S , Stark , J and Hardy. , K . 2009 . Object recognition in the ovary: Quantification of oocytes from microscopic images , 1 – 6 . Piscataway , NJ : 16th International Conference on Digital Signal Processing, 2009, IEEE .
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• Fenwick , M , Franks , S , Stark , J and Hardy. , K . 2009 . Spatio-temporal expression of bone morpho-genetic protein (bmp) antagonists during early follicle development , Vol. 19 , BioScientifica, Bristol : in Endocrine Abstracts . p. OC36
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• Boyle , JJ , Harrington , HA , Piper , E , Elderfield , K , Stark , J , Landis , RC and Haskard , DO . 2009 . Coronary intraplaque hemorrhage evokes a novel atheroprotective macrophage phenotype . Am. J. Pathol. , 174 ( 3 ) : 1097 – 1108 .
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