D. J. Katz, M. A. Beer , J. M. Levorse, and S. Tilghman , Functional characterization of a novel Ku70/80 pause site at the H19/Igf2 imprinting control region. Mol. Cell Biol. 25, 3855-63 (2005).

M. A. Beer and S. Tavazoie, Predicting gene expression from sequence. Cell 177 , 185-198 (2004), highlighted in Nature Reviews Genetics 6 , 410 (2004); and The Scientist 18 (12) , 28 (2004).

M. Pritsker, Y. C. Liu, M. A. Beer , and S. Tavazoie , Whole-genome discovery of transcription factor binding sites by network topology conservation. Genome Research 14 , 99-108 (2004).

D.W. Ross, R.V. Bravenec, W. Dorland, M. A. Beer , G. W. Hammett, G. R. McKee, R. J. Fonck, M. Murakami, K. H. Burrell, G. L. Jackson, and G. M. Staebler, Comparing Simulation of Plasma Turbulence with Experiment. Phys. Plasmas 9 , 177 (2002).

W. Dorland, B. N. Rogers, F. Jenko, M. Kotschenruther, G. W. Hammett, D. Mikkelsen, D. W. Ross, M. A. Beer , P. B. Snyder, R. Bravenec, M. Greenwald, D. Ernst, R. Budny, Gyrokinetic Simulations of Tokamak Microturbulence. In Fusion Energy 2000 , Proceedings of the 18th International Conference on Plasma Physics and Controlled Fusion, Sorrento (International Atomic Energy Agency, Vienna , 2000).

A. M. Dimits, G. Bateman, M. A. Beer , B. I. Cohen, W. Dorland, G. W. Hammett, C. Kim, J. E. Kinsey, M. Kotschenreuther, A. H. Kritz, L. L. Lao, J. Mandrekas, W. M. Nevins, S. E. Parker, A. J. Redd, D. E. Shumaker, R. Sydora, and J. Weiland, Comparisons and physics basis of tokamak transport models and turbulence simulations. Phys. Plasmas 7 , 969 (2000).

P. B. Snyder, G. W. Hammett, M. A. Beer , W. Dorland, Simulations of electromagnetic turbulence and transport in tokamak plasmas. 26th EPS Conf. on Contr. Fusion and Plasma Physics, Maastricht , 1999, ECA 23J , 1685 (1999).

M. A. Beer , R. V. Budny, C. D. Challis, G. Conway, C. Gormezano, G. Rewoldt, A. C. C. Sips, F. X. Söldner, B. J. D. Tubbing, and M. Von Hellerman, Turbulence suppression by ExB shear in JET optimized shear pulses. 26th EPS Conf. on Contr. Fusion and Plasma Physics, Maastricht , 1999, ECA 23J , 1669 (1999).

T. S. Hahm, M. A. Beer , Z. Lin, G. W. Hammett, W. W. Lee, W. M. Tang, Shearing rate of time-dependent ExB flow. Phys. Plasmas 6 , 922 (1999).

E. J. Synakowski, M. A. Beer , R. E. Bell, et al., Comparative studies of core and edge transport barrier dynamics of DIII-D and TFTR tokamak plasmas. Nucl. Fusion 39, 1733 (1999).

M. A. Beer and G. W. Hammett, The dynamics of small-scale turbulence driven flows. In Theory of Fusion Plasmas , J. W. Connor, E. Sindoni , and J. Vaclavik, Eds. (Editrice Compositori, Bologna, 1999), p. 19-29.

J. M. Adams, P. Ageladarakis, B. Alper, and many others, including M. Beer , ICRF results in D-T plasmas in JET and TFTR and implications for ITER. Plasma Phys. Contr. Fusion 40 , A87-A103 (1998).

R. V. Bravenec, D.W. Ross, G. McKee, and many others, including M. A. Beer , Comparisons of Measurements and Gyrofluid Simulations of Turbulence in DIII-D. 25th EPS Conf. on Contr. Fusion and Plasma Physics, 1997, ECA 22C (1998).

E. J. Synakowski, M. A. Beer , R. E. Bell, K. H. Burrell, B. Carreras, P. H. Diamond, E. J. Doyle, D. Ernst, R. J. Fonck, P. Gohil, C. Greenfield, T. S. Hahm, G. W. Hammett, F. Levinton, E. Mazzucato, G. McKee, D. E. Newman, H. Park, C. Rettig, G. Rewoldt, T. L. Rhodes, B. Rice, G. Taylor, M. C. Zarnstorff, A Comparative Study of Core and Edge Transport Barrier Dynamics of DIII-D and TFTR Tokamak Plasmas, in Plasma Phys. Contr. Nucl. Fusion Research, 1998 , Proceedings of the 17th International Conference, Yokohama (International Atomic Energy Agency, Vienna, 1999).

D. R. Ernst, S. Batha, M. Beer , M. G. Bell, R. E. Bell, R. V. Budny, B. Coppi, W. M. Dorland, P. C. Efthimion, T. S. Hahm, G. W. Hammett, R. J. Hawryluk, K. W. Hill, M. Kotschenreuther, F. M. Levinton, Z. Lin, D. K. Mansfield, D. R. Mikkelsen, R. Nazikian, M. Porkolab, G. Rewoldt, S. D. Scott, E. J. Synakowski, M. C. Zarnstorff and the TFTR Group, The Unifying Role of Radial Electric Field Shear in the Confinement Trends of Transitionless Regimes in TFTR, in Plasma Phys. Contr. Nucl. Fusion Research, 1998, Proceedings of the 17th International Conference, Yokohama (International Atomic Energy Agency, Vienna, 1999).

R. J. Hawryluk, S. Batha , W. Blanchard, M. Beer , et al., Fusion plasma experiments on TFTR: a 20 year retrospective. Phys. Plasmas 5 , 1577 (1998).

G. Rewoldt, M. A. Beer , M. S. Chance, T. S. Hahm, Z. Lin, and W. M. Tang, Sheared Rotation Effects on Kinetic Stability in Enhanced Confinement Tokamak Plasmas, and Nonlinear Dynamics of Fluctuations and Flows in Axisymmetric Plasmas. Phys. Plasmas 5 , 1815 (1998).

J. D. Strachan, S. Batha, M. Beer , et al., TFTR DT experiments, Plasma Phys. Contr. Fusion 39 , B103 (1997).

E. J. Synakowski, S. H. Batha, M. A. Beer , M. G. Bell, R. E. Bell, R. V. Budny, C. E. Bush, P. C. Efthimion, G. W. Hammett, T. S. Hahm, B. LeBlanc, F. Levinton, E. Mazzucato, H. Park, A. T. Ramsey, G. Rewoldt, S. D. Scott, G. Schmidt, W. M. Tang, G. Taylor, and M. C. Zarnstorff, The Roles of Electric Field Shear and Shafranov Shift in Sustaining High Confinement in Enhanced Reversed Shear Plasmas on the TFTR Tokamak, Phys. Rev. Lett. 78 , 2972 (1997).

M. Kotschenreuther, W. Dorland, Q. P. Liu, G. W. Hammett, M. A. Beer , S. A. Smith, A. Bondeson, and S. C. Cowley, First principles calculations of tokamak energy transport, in Plasma Phys. Contr. Nucl. Fusion Research, 1996 , Proceedings of the 16th International Conference, Montreal (International Atomic Energy Agency, Vienna, 1997).

S. D. Scott, G. W. Hammett, C. K. Phillips, E. J. Synakowski, S. Batha, M. A. Beer , M. G. Bell, R. E. Bell, R. V. Budny, C. E. Bush, W. Dorland, P. C. Efthimion, D. Ernst, E. D. Fredrickson, J. C. Hosea, S. Kaye, M. Kotschenreuther, F. M. Levinton, Q. P. Liu, R. Majeski, D. M. McCune, D. R. Mikkelsen, S. von Goeler, H. K. Park, A. T. Ramsey, J. H. Rogers, S. A. Sabbagh, G. Schilling, C. H. Skinner, G. Taylor, R. Waltz, J. R. Wilson, and M. C. Zarnstorff, Isotope Scaling of Heating and Confinement in Multiple Regimes of TFTR, in Plasma Phys. Contr. Nucl. Fusion Research, 1996, Proceedings of the 16th International Conference, Montreal (International Atomic Energy Agency, Vienna, 1997), Vol. I, p. 573.

K. M. McGuire, C.W. Barnes, S. Batha, M. Beer , et al., Physics of high performance deuterium-tritium plasmas in TFTR, in Plasma Phys. Contr. Nucl. Fusion Research, 1996, Proceedings of the 16th International Conference, Montreal (International Atomic Energy Agency, Vienna, 1997), Vol. I, p. 19.

E. J. Synakowski, S. H. Batha, M. A. Beer , M. G. Bell, R. E. Bell, R. V. Budny, C. E. Bush, P. C. Efthimion, G. W. Hammett, T. S. Hahm, B. LeBlanc, F. Levinton, E. Mazzucato, H. Park, A. T. Ramsey, G. Rewoldt, S. D. Scott, G. Schmidt, W. M. Tang, G. Taylor, and M. C. Zarnstorff, Local Transport Barrier Formation and Relaxation in Reversed Shear Plasmas on TFTR, Phys. Plasmas 4 , 1736 (1997).

M. G. Bell, S. Batha, M. Beer , et al., Deuterium-Tritium Plasmas in Novel Regimes in TFTR, Phys. Plasmas 4 , 1714 (1997).

E. Mazzucato, S. H. Batha, M. A. Beer , M. Bell, R. E. Bell, R. V. Budny, C. Bush, T. S. Hahm, G. W. Hammett, B. LeBlanc, F. M. Levinton, R. Nazikian, H. Park, S. Paul, G. Rewoldt, G. L. Schmidt, S. D. Scott, E. J. Synakowski, W. M. Tang, G. Taylor, and M. C. Zarnstorff, Turbulent Fluctuations in the Main Core of TFTR Plasmas with Negative Magnetic Shear, in Plasma Phys. Contr. Nucl. Fusion Research, 1996, Proceedings of the 16th International Conference, Montreal (International Atomic Energy Agency, Vienna, 1997), Vol. I, p. 913.

F. M. Levinton, S. H. Batha, M. A. Beer , M. G. Bell, R. E. Bell, R. V. Budny, C. Bush, P. Efthimion, E. Mazzucato, R. Nazikian, H. Park, A. Ramsey, G. L. Schmidt, S. D. Scott, E. J. Synakowski, G. Taylor, S. Von Goeler, M. C. Zarnstorff, Transport Physics in Reversed Shear Plasmas, in Plasma Phys. Contr. Nucl. Fusion Research, 1996, Proceedings of the 16th International Conference, Montreal (International Atomic Energy Agency, Vienna, 1997), Vol. I, p. 211.

T. S. Hahm, M. Artun, M. A. Beer , G. W. Hammett, W. W. Lee, X. Li, Z. Lin, H. E. Mynick, S. E. Parker, G. Rewoldt, and W. M. Tang, Turbulence and transport in enhanced confinement regimes of tokamaks: simulation and theory, in Plasma Phys. Contr. Nucl. Fusion Research, 1996, Proceedings of the 16th International Conference, Montreal (International Atomic Energy Agency, Vienna, 1997).

C. H. Skinner, E. Amarescu, G. Ascione, W. Blanchard, C. W. Barnes, S. H. Batha, M. Beer , et al., Plasma wall interaction and tritium retention in TFTR, J. Nucl. Mater. 241-243 , 214, (1997).

M. Ottaviani, M. A. Beer , S. C. Cowley, W. Horton, and J. Krommes, Unanswered Questions in Ion-Temperature-Gradient-Driven Turbulence, Physics Reports 283 , 121 (1997).

M. A. Beer , G. W. Hammett, G. Rewoldt, E. J. Synakowski, M. C. Zarnstorff, and W. Dorland, Gyrofluid simulations of turbulence suppression in reversed-shear experiments on the Tokamak Fusion Test Reactor, Phys. Plasmas 4 , 1792 (1997).

R. E. Bell, S. H. Batha, M. Beer , C. E. Bush, Z. Chang, P. C. Efthimion, T. S. Hahm, G. Hammett, F. Levinton, B. LeBlanc, E. Mazzucato, D. Mikkelsen, H. Park, S. Paul, G. Rewoldt, G. L. Schmidt, S. D. Scott, E. J. Synakowski, G. Taylor, M. C. Zarnstorff, and the TFTR Group, Transport Barrier Formation in TFTR Reversed Magnetic Shear Plasmas, 23rd European Conf. on Contr. Fusion and Plasma Physics, (EPS, Petit-Lancy, Switzerland, 1997).

E. Mazzucato, S. H. Batha, M. A. Beer , M. Bell, R. E. Bell, R. V. Budny, C. Bush, T. S. Hahm, G. W. Hammett, F. M. Levinton, R. Nazikian, H. Park, G. Rewoldt, G. L. Schmidt, E. J. Synakowski, W. M. Tang, G. Taylor, and M. C. Zarnstorff, Turbulent Fluctuations in TFTR Configurations with Reversed Magnetic Shear, Phys. Rev. Lett. 77 , 3145 (1996).

R. J. Hawryluk, C. W. Barnes, S. Batha , M. Beer , et al., Review of D-T Results from TFTR, Fusion Technology 30 , A648, (1996).

M. A. Beer and G. W. Hammett, Toroidal Gyrofluid Equations for Simulations of Tokamak Turbulence, Phys. Plasmas 3 , 4046 (1996).

M. A. Beer and G. W. Hammett, Bounce Averaged Trapped Electron Fluid Equations for Plasma Turbulence, Phys. Plasmas 3 , 4018 (1996).

M. G. Bell, K.M. McGuire, V. Arunasalam, and many others, including M. Beer , Overview of DT Results from TFTR, Nucl. Fusion 35 , 1429 (1995).

K. M. McGuire, H. Adler, P. Alling, and many others, including M. Beer , Review of deuterium-tritium results from the Tokamak Fusion Test Reactor, Phys. Plasmas 2 , 2176 (1995).

R. J. Hawryluk, H. Adler, P. Alling, and many others, including M. Beer , Review of Recent D-T Experiments from TFTR , in Plasma Phys. Contr. Nucl. Fusion Research, 1994, Proceedings of the 15th International Conference, Seville (International Atomic Energy Agency, Vienna, 1995), Vol. I, p. 11.

G. D. Kerbel, T. Pierce, J. L. Misovich, D. E. Schumaker, A. Verlo, R. E. Waltz, G. W. Hammett, M. A. Beer , and W. Dorland, Interactive Scientific Exploration on Gyrofluid Tokamak Turbulence, Int. J. Supercomputer Appl. 10 , 182 (1996).

D. W. Johnson, V. Arunasalam, C. W. Barnes, S. H. Batha, G. Bateman, M. Beer , et al., Recent D-T Results on TFTR, Plasma Phys. Contr. Fusion 37 , A69 (1995).

M. Kotschenreuther, W. Dorland, M. A. Beer , and G. W. Hammett, Quantitative Predictions of Tokamak Energy Confinement from First-Principles Simulations with Kinetic Effects, Phys. Plasmas 2 , 2381 (1995).

M. A. Beer , S. C. Cowley, and G. W. Hammett, Field-aligned Coordinates for Nonlinear Simulations of Tokamak Turbulence, Phys. Plasmas 2 , 2687 (1995).

W. Dorland, M. Kotschenreuther, M. A. Beer , G. W. Hammett, R. E. Waltz, R. R. Dominguez, P. M. Valanju, W. H. Miner, Jr., J. Q. Dong, W. Horton, F. L. Waelbroeck, T. Tajima, and M. J. LeBrun, Comparisons of Nonlinear Toroidal Turbulence Simulations with Experiment, in Plasma Phys. Contr. Nucl. Fusion Research, 1994, Proceedings of the 15th International Conference, Seville (International Atomic Energy Agency, Vienna, 1995), Vol. III, p. 463.

M. G. Bell, C. W. Barnes, R. V. Budny, and many others, including M. Beer , Fusion Power Production in TFTR, in Plasma Phys. Contr. Nucl. Fusion Research, 1994, Proceedings of the 15th International Conference, Seville (International Atomic Energy Agency, Vienna, 1995), Vol. I, p. 171.

G. W. Hammett, M. A. Beer , J. C. Cummings, W. Dorland, W. W. Lee, H. E. Mynick, S. E. Parker, R. A. Santoro, M. Artun, H. P. Furth, T. S. Hahm, G. Rewoldt, and W. M. Tang, Advances in Simulating Tokamak Turbulent Transport, in Plasma Phys. Contr. Nucl. Fusion Research, 1994, Proceedings of the 15th International Conference, Seville (International Atomic Energy Agency, Vienna, 1995), Vol. III, p. 273.

N. L. Bretz, H. Adler, P. Alling, and many others, including M. Beer , Deuterium-Tritium Experiments in TFTR, in Proceedings of the 1994 International Conference on Plasma Physics, Iguacu , Brazil , October 1994.

R. J. Hawryluk, H. Adler, P. Alling, and many others, including M. Beer , Preparations for deuterium-tritium experiments on the Tokamak Fusion Test Reactor, Phys. Plasmas 1 , 1560 (1994).

S. E. Parker, W. Dorland, R. A. Santoro, M. A. Beer , Q. P. Liu, W. W. Lee, and G. W. Hammett, Comparisons of Gyrofluid and Gyrokinetic Simulations, Phys. Plasmas 1 , 1461 (1994).

G. W. Hammett, W. Dorland, M. A. Beer , and F. W. Perkins, The Gyrofluid Approach to Simulating Tokamak Turbulence, in New Ideas in Tokamak Confinement, M. N. Rosenbluth, Ed., (New York, AIP, 1994).

W. Dorland, G. W. Hammett, T. S. Hahm, and M. A. Beer , Nonlinear Gyrofluid Model of ITG Turbulence, in Proceedings of the US-Japan Workshop on Ion Temperature Gradient Driven Turbulent Transport (New York, AIP, 1993).

G. W. Hammett, M. A. Beer , W. Dorland, S. C. Cowley, and S. A. Smith, Developments in the Gyrofluid Approach to Tokamak Turbulence Simulations, Plasma Phys. Contr. Fusion 35 , 973 (1993).

G. M. Staebler, R. E. Waltz, M. A. Beer , R. R. Dominguez, W. Dorland, C. M. Greenfield, G. W. Hammett, F. L. Hinton, G. D. Kerbel, T. K. Kurki-Suonio, and J. C. Wiley, Profile Characteristics of H-Mode Bifurcation Models and Turbulence Simulations with Gyro-Landau Fluid Models in Slab and Toroidal Geometry, in Plasma Phys. Contr. Nucl. Fusion Research, 1992, Proceedings of the 14th International Conference, Würzberg (International Atomic Energy Agency, Vienna, 1993), Vol. II, p. 329.

M. C. Zarnstorff, G. Bateman, S. H. Batha, M. Beer , et al., Overview of Recent TFTR Results, in Plasma Phys. Contr. Nucl. Fusion Research, 1992, Proceedings of the 14th International Conference, Würzberg (International Atomic Energy Agency, Vienna, 1993), Vol. I, p. 111.

M. A. Beer and T. S. Hahm, Atomic Physics Effects on Dissipative Toroidal Drift Wave Stability, Phys. Fluids B 4 , 2567 (1992).

R. J. Hawryluk, D. Mueller, J. Hosea, C. W. Barnes, M. Beer , et al., Status and Plans for TFTR, Fusion Technology 21 , 1324 (1992).

R. J. Hawryluk, V. Arunsalam, C. W. Barnes, M. Beer , et al., Overview of TFTR Transport Studies, Plasma Phys. Contr. Fusion 33 , 1509 (1991).

J. C. Hosea, M. Beer , M. G. Bell, et al., ICRF Heating in Several Regimes on TFTR, in Plasma Phys. Contr. Nucl. Fusion Research, 1990, Proceedings of the 13th International Conference, Washington , D. C. (International Atomic Energy Agency, Vienna, 1991), Vol. I, p. 669.

J. Stevens, P. Colestock, D. Hoffman, and many others, including M. A. Beer , ICRF Heating up to the 4.5 MW level on TFTR, 17th European Conf. on Contr. Fusion and Plasma Heating (EPS, Petit-Lancy, Switzerland, 1990), Vol. III, p. 1048.