The main reference of the TM5 model are [Krol et al., 2005] and, for the tropospheric chemistry version, [Huijnen et al., 2010b]

References on specific subjects are:


Aan de Brugh et al., 2010
Aan de Brugh, J. M. J., Schaap, M., Vignati, E., Dentener, F., Kahnert, M., Sofiev, M., Huijnen, V., and Krol, M. C. (2010).
The european aerosol budget in 2006.
Atmospheric Chemistry and Physics Discussions, 10(9):21391-21437.
Paper in ACPD.

Bergamaschi et al., 2007
Bergamaschi, P., Frankenberg, C., Meirink, J. F., Krol, M., Dentener, F., Wagner, T., Platt, U., Kaplan, J. O., Körner, S., Heimann, M., Dlugokencky, E. J., and Goede, A. (2007).
Satellite chartography of atmospheric methane from SCIAMACHY on board ENVISAT: 2. Evaluation based on inverse model simulations.
J. Geophys. Res., 112:D02304.

Bergamaschi et al., 2009
Bergamaschi, P., Frankenberg, C., Meirink, J. F., Krol, M., G.Villani, Houweling, S., Dentener, F., Dlugokencky, E. J., Engel, A., Miller, J. B., Gatti, L. V., and Levin, I. (2009).
Inverse modeling of global and regional CH4 emissions using SCIAMACHY satellite retrievals.
J. Geophys. Res., 114:-.

Bergamaschi et al., 2005
Bergamaschi, P., Krol, M., Dentener, F., Vermeulen, A., Meinhardt, F., Graul, R., Ramonet, M., Peters, W., and Dlugokencky, E. J. (2005).
Inverse modelling of national and European CH4 emissions using the atmospheric zoom model TM5.
Atmos. Chem. Phys., 5:2431-2460.
Paper in ACP.

Bergamaschi et al., 2010
Bergamaschi, P., Krol, M., Meirink, J. F., Dentener, F., Segers, A., van Aardenne, J., Monni, S., Vermeulen, A., Schmidt, M., Ramonet, M., Yver, C., Meinhardt, F., Nisbet, E. G., Fisher, R., O'Doherty, S., and Dlugokencky, E. J. (2010).
Inverse modeling of European CH4 emissions 2001-2006.
J. Geophys. Res., 115:D22309.
Paper in JGR.

Bergamaschi et al., 2006
Bergamaschi, P., Meirink, J. F., Müller, J. F., Körner, S., Heimann, M., Bousquet, P., Dlugokencky, E. J., Kaminski, U., Vecchi, R., Marcazzan, G., Meinhardt, F., Ramonet, M., Sartorius, H., and Zahorowski, W. (2006).
Model Inter-comparison on Transport and Chemistry - report on model inter-comparison performed within European Commission FP5 project EVERGREEN.
Scientific and Technical Research series EUR 22241 EN, DG Joint Research Centre, Institute for Environment and Sustainability.
ISBN 92-79-02001-3, 53 pp.
Report on JRC website.

Berkvens et al., 1999
Berkvens, P. J. F., Botchev, M. A., Lioen, W. M., and Verwer, J. G. (1999).
A zooming technique for wind transport of air pollution.
In Vilsmeier, R., Hanel, D., and Benkhaldoun, F., editors, Finite Volumes for Complex Applications, Proceedings of the 2nd International Symposium on Finite Volumes for Complex Applications (Duisburg, Germany, July 19-22, 1999), pages 499-506. Hermes Publisher.
An extended version is available as CWI Report MAS-R9921 with a full description of the zoom algorithm.

Bönisch et al., 2008
Bönisch, H., Hoor, P., Gurk, C., Feng, W., Chipperfield, M., Engel, A., and Bregman, B. (2008).
Model evaluation of CO2 and SF6 in the extratropical ut/ls region.
J. Geophys. Res., 113:D06101.

Bregman et al., 2003
Bregman, A., Segers, A. J., Krol, M. C., Meijer, E., and van Velthoven, P. (2003).
On the use of mass-conserving wind fields in chemistry-transport models.
Atmos. Chem. Phys., 3(2):447-457.
Paper in ACP.

Bregman et al., 2006
Bregman, B., Meijer, E., and Scheele, R. (2006).
Key aspects of stratospheric tracer modeling using assimilated winds.
Atmos. Chem. Phys., 6(12):4529-4543.
Paper in ACP.

Clarisse et al., 2009
Clarisse, L., Clerbaux, C., Dentener, F., Hurtmans, D., and Coheur, P.-F. (2009).
Infrared space observations unveil global concentration of ammonia.
Nature Geosciences, -.
Published online.

Corazza et al., 2010
Corazza, M., Bergamaschi, P., Vermeulen, A. T., Aalto, T., Haszpra, L., Meinhardt, F., O'Doherty, S., Thompson, R., Moncrieff, J., Popa, E., Steinbacher, M., Jordan, A., Dlugokencky, E., Brühl, C., Krol, M., and Dentener, F. (2010).
Inverse modelling of European N2O emissions: assimilating observations from different networks.
Atmos. Chem. Phys. Discuss., 10.
Paper in ACPD.

de Laat et al., 2007
de Laat, A. T. J., Landgraf, J., Aben, I., Hasekamp, O., and Bregman, B. (2007).
Validation of Global Ozone Monitoring Experiment ozone profiles and evaluation of stratospheric transport in a global chemistry-transport model.
J. Geophys. Res., 112.

de Laat et al., 2009
de Laat, A. T. J., van der A, R., and van Weele, M. (2009).
Evaluation of tropospheric ozone columns derived from assimilated GOME ozone profile observations.
Atmos. Chem. Phys. Discuss., 9.
Paper in ACPD.

de Meij et al., 2006
de Meij, A., Thunis, P., Cuvelier, C., Vignati, E., Dentener, F., and Krol, M. (2006).
The sensitivity of aerosol in Europe to two different emission inventories and temporal distribution of emissions.
Atmos. Chem. Phys., 6:4287-4309.
Paper in ACP.

Dentener et al., 2006a
Dentener et al., F. (2006a).
The global atmospheric environment for the next generation.
Environ. Sci. Technol., 40(11):3586-3594.

Dentener et al., 2006b
Dentener et al., F. (2006b).
Nitrogen and sulfur deposition on regional and global scales: a multimodel evaluation.
Global Biogeochem. Cycles, 20:GB4003.

Dingenen et al., 2009
Dingenen, R. V., Dentener, F., Raes, F., Krol, M., Emberson, L., and J.Cofala (2009).
The global impact of ozone on agricultural crop yields under current and future air quality legislation.
Atmos. Env., 43(3):605-618.

Dirksen et al., 2009
Dirksen, R. J., Boersma, F., de Laat, J., Stammes, P., van der Werf, G. R., Martin, M. V., and Kelder, H. M. (2009).
An aerosol boomerang: Rapid around-the-world transport of smoke from the December 2006 Australian forest fires observed from space.
JGR, 114:D21201.

Elguindi et al., 2010
Elguindi, N., Clark, H., Ordóñez, C., Thouret, V., Flemming, J., Stein, O., Huijnen, V., Moinat, P., Inness, A., Peuch, V.-H., Stohl, A., Turquety, S., Athier, G., Cammas, J.-P., and Schultz, M. (2010).
Current status of the ability of the gems/macc models to reproduce the tropospheric co vertical distribution as measured by mozaic.
Geoscientific Model Development, 3(2):501-518.
Paper in GMD.

Eyring et al., 2007
Eyring et al., V. (2007).
Multi-model simulations of the impact of international shipping on atmospheric chemistry and climate in 2000 and 2030.
Atmos. Chem. Phys., 7:757-780.
Paper in ACP.

Fiore et al., 2009
Fiore, A. M., Dentener, F. J., Wild, O., Cuvelier, C., Schultz, M. G., Hess, P., Textor, C., Schulz, M., Doherty, R. M., Horowitz, L. W., MacKenzie, I. A., Sanderson, M. G., Shindell, D. T., Stevenson, D. S., Szopa, S., Dingenen, R. V., Zeng, G., Atherton, C., Bergmann, D., Bey, I., Carmichael, G., Collins, W. J., Duncan, B. N., Faluvegi, G., Folberth, G., Gauss, M., Gong, S., Hauglustaine, D., Holloway, T., Isaksen, I. S. A., Jacob, D. J., Jonson, J. E., Kaminski, J. W., Keating, T. J., Lupu, A., Marmer, E., Montanaro, V., Park, R. J., Pitari, G., Pringle, K. J., Pyle, J. A., Schroeder, S., Vivanco, M. G., Wind, P., Wojcik, G., Wu, S., and Zuber, A. (2009).
Multi-model estimates of intercontinental source-receptor relationships for ozone pollution.
JGR, 114:D04301.
in press.

Flemming et al., 2009
Flemming, J., Inness, A., Flentje, H., Huijnen, V., Moinat, P., Schultz, M. G., and Stein, O. (2009).
Coupling global chemistry transport models to ECMWF's integrated forecast system.
Geosci. Model Dev., 2:253-265.

Flemming et al., 2010
Flemming, J., Inness, A., Jones, L., Eskes, H. J., Huijnen, V., Schultz, M. G., Stein, O., Cariolle, D., Kinnison, D., and Brasseur, G. (2010).
Forecasts and assimilation experiments of the antarctic ozone hole 2008.
Atmospheric Chemistry and Physics Discussions, 10(4):9173-9217.
paper in ACPD.

Galloway et al., 2008
Galloway, J. N., Dentener, F. J., Marmer, E., Cai, Z., Abrol, Y. P., Dadhwal, V. K., and Murugan, A. V. (2008).
The environmental reach of asia.
Annu. Rev. Environ. Resour., 33:461-481.

Ganzeveld et al., 1998
Ganzeveld, L., Lelieveld, J., and Roelofs, G.-J. (1998).
A dry deposition parameterization for sulfur oxides in a chemistry and general circulation model.
J. Geophys. Res., 103(D5):5679-5694.

Gloudemans et al., 2006
Gloudemans, A. M. S., Krol, M. C., Meirink, J. F., de Laat, A. T. J., van der Werf, G. R., Schrijver, H., van den Broek, M. M. P., and Aben, I. (2006).
Evidence for long-range transport of carbon monoxide in the Southern Hemisphere from SCIAMACHY observations.
Geophys. Res. Lett., 33:L16807.

Guelle et al., 1998
Guelle, W., Balkanski, Y. J., Schulz, M., Dulac, F., and Monfray, P. (1998).
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J. Geophys. Res., 103(D10):11429-11446.

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Heimann, M., Monfray, P., and Polian, G. (1988).
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Chem. Geol., 70:98-98.

Hicks et al., 2008
Hicks, W. K., Kuylenstierna, J. C. I., Owen, A., Seip, H.-M., Dentener, F., and Rodhe, H. (2008).
Soil sensitivity to acidification in Asia: status and prospects.
Ambio, 37(4):295-303.
DOI: 10.1579/0044-7447(2008).

Holtslag and Boville, 1993
Holtslag, A. A. and Boville, B. A. (1993).
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Hooghiemstra et al., 2011
Hooghiemstra, P. B., Krol, M. C., Meirink, J. F., Bergamaschi, P., van der Werf, G. R., Novelli, P. C., Aben, I., and Röckmann, T. (2011).
Optimizing global co emissions using a four-dimensional variational data assimilation system and surface network observations.
Atmospheric Chemistry and Physics Discussions, 11(1):341-386.
Paper in APCD.

Houweling et al., 2010
Houweling, S., Aben, I., Breon, F.-M., Chevallier, F., Deutscher, N., Engelen, R., Gerbig, C., Griffith, D., Hungershoefer, K., Macatangay, R., Marshall, J., Notholt, J., Peters, W., and Serrar, S. (2010).
The importance of transport model uncertainties for the estimation of co$_{2}$ sources and sinks using satellite measurements.
Atmospheric Chemistry and Physics, 10(20):9981-9992.
Paper in ACP.

Houweling et al., 1998
Houweling, S., Dentener, F., and Lelieveld, J. (1998).
The impact of non-methane hydrocarbon compounds on tropospheric photochemistry.
J. Geophys. Res., 103(D9):10673-10696.

Huijnen et al., 2010a
Huijnen, V., Eskes, H. J., Poupkou, A., Elbern, H., Boersma, K. F., Foret, G., Sofiev, M., Valdebenito, A., Flemming, J., Stein, O., Gross, A., Robertson, L., D'Isidoro, M., Kioutsioukis, I., Friese, E., Amstrup, B., Bergstrom, R., Strunk, A., Vira, J., Zyryanov, D., Maurizi, A., Melas, D., Peuch, V.-H., and Zerefos, C. (2010a).
Comparison of omi no$_{2}$ tropospheric columns with an ensemble of global and european regional air quality models.
Atmospheric Chemistry and Physics, 10(7):3273-3296.
Paper in ACP.

Huijnen et al., 2010b
Huijnen, V., Williams, J., van Weele, M., van Noije, T., Krol, M., Dentener, F., Segers, A., Houweling, S., Peters, W., de Laat, J., Boersma, F., Bergamaschi, P., van Velthoven, P., Le Sager, P., Eskes, H., Alkemade, F., Scheele, R., Nédélec, P., and Pätz, H.-W. (2010b).
The global chemistry transport model tm5: description and evaluation of the tropospheric chemistry version 3.0.
Geoscientific Model Development, 3(2):445-473.
Paper in GMD.

Jeuken et al., 2001
Jeuken, A., Veefkind, J. P., Dentener, F., Metzger, S., and Gonzalez, C. R. (2001).
Simulation of the aerosol optical depth over Europe for August 1997 and a comparison with observations.
J. Geophys. Res., 106(D22):28295-28312.

Kinne et al., 2006
Kinne et al., S. (2006).
An AeroCom initial assessment optical properties in aerosol component modules of global models.
Atmos. Chem. Phys., 6:1815-1834.
Paper in ACP.

Koch et al., 2009
Koch, D., Schulz, M., Kinne, S., McNaughton, C., Spackman, J. R., Balkanski, Y., Bauer, S., Berntsen, T., Bond, T. C., Boucher, O., Chin, M., Clarke, A., De Luca, N., Dentener, F., Diehl, T., Dubovik, O., Easter, R., Fahey, D. W., Feichter, J., Fillmore, D., Freitag, S., Ghan, S., Ginoux, P., Gong, S., Horowitz, L., Iversen, T., Kirkevag;g, A., Klimont, Z., Kondo, Y., Krol, M., Liu, X., Miller, R., Montanaro, V., Moteki, N., Myhre, G., Penner, J. E., Perlwitz, J., Pitari, G., Reddy, S., Sahu, L., Sakamoto, H., Schuster, G., Schwarz, J. P., Seland, ¯., Stier, P., Takegawa, N., Takemura, T., Textor, C., van Aardenne, J. A., and Zhao, Y. (2009).
Evaluation of black carbon estimations in global aerosol models.
Atmospheric Chemistry and Physics, 9(22):9001-9026.
Paper in ACP.

Krol et al., 2005
Krol, M., Houweling, S., Bregman, B., van den Broek, M., Segers, A., van Velthoven, P., Peters, W., Dentener, F., and Bergamaschi, P. (2005).
The two-way nested global chemistry-transport zoom model TM5: algorithm and applications.
Atmos. Chem. Phys., 5(2):417-432.
Paper in ACP.

Krol et al., 2003
Krol, M., Lelieveld, J., Oram, D., Sturrock, G., Penkett, S., Brenninkmeijer, C., Gros, V., Williams, J., and Scheeren, H. (2003).
Continuing emissions of methyl chloroform from Europe.
Nature, 421:131-135.
Download pdf.

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Krol, M. C., Peters, W., Berkvens, P., and Botchev, M. (2002).
A new algorithm for two-way nesting in global models: principles and applications.
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Marmer et al., 2009
Marmer, E., Dentener, F., v. Aardenne, J., Cavalli, F., Vignati, E., Velchev, K., Hjorth, J., Boersma, F., Vinken, G., Mihalopoulos, N., and Raes, F. (2009).
What can we learn about ship emission inventories from measurements of air pollutants over the mediterranean sea?
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Paper in ACPD.

Meirink et al., 2008a
Meirink, J., Bergamaschi, P., Frankenberg, C., d'Amelio, M., Dlugokencky, E., Gatti, L., Houweling, S., Miller, J., Röckmann, T., Villani, M., and Krol, M. (2008a).
Four-dimensional variational data assimilation for inverse modelling of atmospheric methane emissions: 2. analysis of sciamachy observations.
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Four-dimensional variational data assimilation for inverse modelling of atmosp heric methane emissions: Method and comparison with synthesis inversion.
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Paper in ACP.

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Paper in ACP.

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Global model simulations of air pollution during the 2003 european heat wave.
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Paper in ACP.

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Peters, W., Krol, M. C., Dlugokencky, E. J., Dentener, F. J., Bergamaschi, P., Dutton, G., van Velthoven, P., Miller, J. B., Bruhwiler, L., and Tans, P. P. (2004).
Toward regional-scale modeling using the two-way nested global model TM5: Characterization of transport using SF6.
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An ensemble data assimilation system to estimate CO2 surface fluxes from atmospheric trace gas observations.
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Ammonia in the environment: from ancient times to present.
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Atmos. Chem. Phys., 4(7):1869-1883.
Paper in ACP.

van Noije et al., 2006
van Noije et al., T. P. C. (2006).
Multi-model ensemble simulations of tropospheric NO2 compared with GOME retrievals for the year 2000.
Atmos. Chem. Phys., 6:2493-2979.
Paper in ACP.

Verwer et al., 1999
Verwer, J. G., SPee, E. J., Blom, J. G., and Hundsdorfer, W. (1999).
A second order rosenbrock method applied to photochemical dispersion problems.
SIAM J. Sci. Comp., 20:1456-1480.
Paper at CWI.

Villani et al., 2009
Villani, M. G., Bergamaschi, P., Krol, M., Meirink, J.-F., and Dentener, F. (2009).
Inverse modeling of Eropean CH4 emissions: sensitivity to the observational network.
ACP, 10(3):1249-1267.
Paper in ACP.

Williams et al., 2006
Williams, J. E., Landgraf, J., Bregman, A., and Walter, H. H. (2006).
A modified band approach for the accurate calculation of online photolysis rates in stratospheric-tropospheric chemistry transport models.
Atmos. Chem. Phys., 6(12):4137-4161.
Paper in ACP.

Wittrock et al., 2006
Wittrock, F., Richter, A., Oetjen, H., Burrows, J. P., Kanakidou, M., Myriokefalitakis, S., Volkamer, R., Beirle, S., Platt, U., and Wagner, T. (2006).
Simultaneous global observations of glyoxal and formaldehyde from space.
Geophys. Res. Lett., 33:L16804.

Pim Hooghiemstra 2011-02-09