E. Abrahamsson, R. V. Krems, and A. Dalgarno, by Impact with Atomic Hydrogen, The Astrophysical Journal, vol.654, issue.2, p.1171, 2007.
DOI : 10.1086/509631

B. Acke, M. E. Van-den-ancker, and C. P. Dullemond, [O???I] 6300???? emission in Herbig Ae/Be systems: Signature of Keplerian rotation, Astronomy and Astrophysics, vol.436, issue.1, p.209, 2005.
DOI : 10.1051/0004-6361:20042484

B. Acke, J. Bouwman, and A. Juhász, 'S VIEW ON AROMATIC AND ALIPHATIC HYDROCARBON EMISSION IN HERBIG Ae STARS, The Astrophysical Journal, vol.718, issue.1, p.558, 2010.
DOI : 10.1088/0004-637X/718/1/558

G. Aresu, I. Kamp, and R. Meijerink, X-ray impact on the protoplanetary disks around T??Tauri stars, Astronomy & Astrophysics, vol.526, issue.547, pp.163-69, 2011.
DOI : 10.1051/0004-6361/201015449

P. J. Armitage, Astrophysics of Planet Formation, 2010.
DOI : 10.1017/CBO9780511802225

R. J. Barber, J. Tennyson, G. J. Harris, and R. N. Tolchenov, A high-accuracy computed water line list, Monthly Notices of the Royal Astronomical Society, vol.368, issue.3, p.1087, 2006.
DOI : 10.1111/j.1365-2966.2006.10184.x

J. Bauschlicher, C. W. Peeters, E. Allamandola, and L. J. , The Infrared Spectra of Very Large, Compact, Highly Symmetric, Polycyclic Aromatic Hydrocarbons (PAHs), The Astrophysical Journal, vol.678, issue.1, p.316, 2008.
DOI : 10.1086/533424

C. W. Bauschlicher, E. Peeters, and L. J. Allamandola, THE INFRARED SPECTRA OF VERY LARGE IRREGULAR POLYCYCLIC AROMATIC HYDROCARBONS (PAHs): OBSERVATIONAL PROBES OF ASTRONOMICAL PAH GEOMETRY, SIZE, AND CHARGE, The Astrophysical Journal, vol.697, issue.1, p.311, 2009.
DOI : 10.1088/0004-637X/697/1/311

A. Boccaletti, J. Augereau, F. Marchis, and J. Hahn, Ground???Based Near???Infrared Imaging of the HD 141569 Circumstellar Disk, The Astrophysical Journal, vol.585, issue.1, p.494, 2003.
DOI : 10.1086/346019
URL : https://hal.archives-ouvertes.fr/hal-00009542

S. D. Brittain, T. W. Rettig, and T. Simon, CO Emission from Disks around AB Aurigae and HD 141569: Implications for Disk Structure and Planet Formation Timescales, The Astrophysical Journal, vol.588, issue.1, p.535, 2003.
DOI : 10.1086/373987

S. D. Brittain, T. Simon, J. R. Najita, and T. W. Rettig, Warm Gas in the Inner Disks around Young Intermediate???Mass Stars, The Astrophysical Journal, vol.659, issue.1, p.685, 2007.
DOI : 10.1086/511255

G. Chambaud, B. Levy, and P. Millie, collisions, Journal of Physics B: Atomic and Molecular Physics, vol.13, issue.21, p.4205, 1980.
DOI : 10.1088/0022-3700/13/21/014

M. Clampin, J. E. Krist, and D. R. Ardila, ACS Coronagraphic Imaging of the Circumstellar Disk around HD 141569A, The Astronomical Journal, vol.126, issue.1, p.385, 2003.
DOI : 10.1086/375460

F. Daniel, M. Dubernet, A. Grosjean, W. R. Dent, J. S. Greaves et al., from 5 K to 1500 K: state-to-state, effective, and thermalized rate coefficients, Astronomy & Astrophysics, vol.536, issue.359, pp.76-663, 2005.
DOI : 10.1051/0004-6361/201118049
URL : https://hal.archives-ouvertes.fr/hal-00653451

W. R. Dent, W. F. Thi, and I. Kamp, GASPS???A Herschel Survey of Gas and Dust in Protoplanetary Disks: Summary and Initial Statistics, Publications of the Astronomical Society of the Pacific, vol.125, issue.927, p.477, 2013.
DOI : 10.1086/670826

B. T. Draine and A. Li, Era, The Astrophysical Journal, vol.657, issue.2, p.810, 2007.
DOI : 10.1086/511055

D. R. Flower and J. M. Launay, (interstellar medium application), Journal of Physics B: Atomic and Molecular Physics, vol.10, issue.18, p.3673, 1977.
DOI : 10.1088/0022-3700/10/18/024

D. R. Flower and G. Pineau-des-forêts, The influence of grains on the propagation and structure of C-type shock waves in interstellar molecular clouds, Monthly Notices of the Royal Astronomical Society, vol.343, issue.2, p.390, 2003.
DOI : 10.1046/j.1365-8711.2003.06716.x

M. E. Galavis, C. Mendoza, and C. J. Zeippen, Atomic data from the IRON Project, Astronomy and Astrophysics Supplement Series, vol.123, issue.1, p.159, 1997.
DOI : 10.1051/aas:1997344

G. Lopez, R. Natta, A. Testi, L. Habart, and E. , Accretion rates in Herbig Ae stars, Astronomy and Astrophysics, vol.459, issue.3, p.837, 2006.
DOI : 10.1051/0004-6361:20065575

V. C. Geers, J. Augereau, and K. M. Pontoppidan, C2D Spitzer-IRS spectra of disks around T Tauri stars, Astronomy and Astrophysics, vol.459, issue.2, p.545, 2006.
DOI : 10.1051/0004-6361:20064830
URL : https://hal.archives-ouvertes.fr/hal-00479951

M. Goto, T. Usuda, and C. P. Dullemond, Inner Rim of a Molecular Disk Spatially Resolved in Infrared CO Emission Lines, The Astrophysical Journal, vol.652, issue.1, p.758, 2006.
DOI : 10.1086/506582

K. Hammami, O. Owono, L. C. Stäuber, and P. , ) by a helium atom at high temperature, Astronomy and Astrophysics, vol.507, issue.2, p.1083, 2009.
DOI : 10.1051/0004-6361/200912663

D. J. Hollenbach and A. G. Tielens, Photodissociation regions in the interstellar medium of galaxies, Reviews of Modern Physics, vol.71, issue.1, p.173, 1999.
DOI : 10.1103/RevModPhys.71.173

A. M. Hughes, D. J. Wilner, S. M. Andrews, and C. Qi, EMPIRICAL CONSTRAINTS ON TURBULENCE IN PROTOPLANETARY ACCRETION DISKS, The Astrophysical Journal, vol.727, issue.2, p.85, 2011.
DOI : 10.1088/0004-637X/727/2/85

C. Jäger, J. Dorschner, H. Mutschke, T. Posch, and T. Henning, Steps toward interstellar silicate mineralogy, Astronomy & Astrophysics, vol.408, issue.1, p.193, 2003.
DOI : 10.1051/0004-6361:20030916

P. Jankowski and K. Szalewicz, interaction energy surface and high-resolution spectra of the H2???CO van der Waals complex, The Journal of Chemical Physics, vol.123, issue.10, p.104301, 2005.
DOI : 10.1063/1.2008216

B. Jonkheid, I. Kamp, J. Augereau, and E. F. Van-dishoeck, Modeling the gas-phase chemistry of the transitional disk around HD??141569A, Astronomy and Astrophysics, vol.453, issue.1, p.163, 2006.
DOI : 10.1051/0004-6361:20054769
URL : https://hal.archives-ouvertes.fr/hal-00398216

I. Kamp, I. Tilling, P. Woitke, W. Thi, and M. Hogerheijde, Radiation thermo-chemical models of protoplanetary disks, Astronomy and Astrophysics, vol.510, p.18, 2010.
DOI : 10.1051/0004-6361/200913076

M. J. Kaufman, M. G. Wolfire, D. J. Hollenbach, and M. L. Luhman, Far???Infrared and Submillimeter Emission from Galactic and Extragalactic Photodissociation Regions, The Astrophysical Journal, vol.527, issue.2, p.795, 1999.
DOI : 10.1086/308102

L. D. Keller, G. C. Sloan, and W. J. Forrest, PAH Emission from Herbig Ae/Be Stars, The Astrophysical Journal, vol.684, issue.1, p.411, 2008.
DOI : 10.1086/589818
URL : http://arxiv.org/abs/0809.2389

S. Lacour, P. Tuthill, and P. Amico, Sparse aperture masking at the VLT, Astronomy & Astrophysics, vol.532, p.72, 2011.
DOI : 10.1051/0004-6361/201116712

P. O. Lagage, J. W. Pel, and M. Authier, The Messenger, p.12, 2004.

J. Launay and E. Roueff, ions by hydrogen atoms, Journal of Physics B: Atomic and Molecular Physics, vol.10, issue.5, p.879, 1977.
DOI : 10.1088/0022-3700/10/5/024

A. Li and B. T. Draine, Infrared Emission from Interstellar Dust. II. The Diffuse Interstellar Medium, The Astrophysical Journal, vol.554, issue.2, p.778, 2001.
DOI : 10.1086/323147

A. Li and J. I. Lunine, Modeling the Infrared Emission from the HD 141569A Disk, The Astrophysical Journal, vol.594, issue.2, p.987, 2003.
DOI : 10.1086/376939

R. Liseau, K. Justtanont, and A. G. Tielens, Outflows from young objects observed with the ISO-LWS, Astronomy and Astrophysics, vol.446, issue.2, p.561, 2006.
DOI : 10.1051/0004-6361:20053925

D. Lorenzetti, T. Giannini, and B. Nisini, The complete far infrared spectroscopic survey of Herbig AeBe stars obtained by ISO-LWS, Astronomy and Astrophysics, vol.395, issue.2, p.637, 2002.
DOI : 10.1051/0004-6361:20020977

K. A. Marsh, M. D. Silverstone, and E. E. Becklin, Mid???Infrared Images of the Debris Disk around HD 141569, The Astrophysical Journal, vol.573, issue.1, p.425, 2002.
DOI : 10.1086/340488

C. Martin-zaïdi, M. Deleuil, L. Bourlot, and J. , Molecular hydrogen in the circumstellar environments of Herbig Ae/Be stars probed by FUSE, Astronomy and Astrophysics, vol.484, issue.1, p.225, 2008.
DOI : 10.1051/0004-6361:20079325

G. S. Mathews, W. R. Dent, and J. P. Williams, GAS in Protoplanetary Systems (GASPS), Astronomy and Astrophysics, vol.518, issue.419, pp.127-124, 2004.
DOI : 10.1051/0004-6361/201014595
URL : https://hal.archives-ouvertes.fr/hal-00631860

M. Min, C. P. Dullemond, C. Dominik, A. De-koter, and J. W. Hovenier, Radiative transfer in very optically thick circumstellar disks, Astronomy and Astrophysics, vol.497, issue.1, p.155, 2009.
DOI : 10.1051/0004-6361/200811470

M. M. Moerchen, C. M. Telesco, and C. Packham, HIGH SPATIAL RESOLUTION IMAGING OF THERMAL EMISSION FROM DEBRIS DISKS, The Astrophysical Journal, vol.723, issue.2, p.1418, 2010.
DOI : 10.1088/0004-637X/723/2/1418

J. R. Najita, J. S. Carr, and K. M. Pontoppidan, THE HCN-WATER RATIO IN THE PLANET FORMATION REGION OF DISKS, The Astrophysical Journal, vol.766, issue.2, p.134, 2013.
DOI : 10.1088/0004-637X/766/2/134

B. E. Penprase, Photometric and spectroscopic analysis of high Galactic latitude molecular clouds. I - Distances and extinctions of stars toward 25 selected regions, The Astrophysical Journal Supplement Series, vol.83, p.273, 1992.
DOI : 10.1086/191738

C. Pinte, P. Woitke, and F. Ménard, view of GAS in Protoplanetary Systems (GASPS), Astronomy and Astrophysics, vol.518, issue.504, pp.126-128, 1998.
DOI : 10.1051/0004-6361/201014591
URL : https://hal.archives-ouvertes.fr/hal-00631861

C. Salyk, G. A. Blake, A. C. Boogert, and J. M. Brown, CO ROVIBRATIONAL EMISSION AS A PROBE OF INNER DISK STRUCTURE, The Astrophysical Journal, vol.743, issue.2, p.112, 2011.
DOI : 10.1088/0004-637X/743/2/112

G. Sandell, D. A. Weintraub, and M. Hamidouche, A SUBMILLIMETER MAPPING SURVEY OF HERBIG AeBe STARS, The Astrophysical Journal, vol.727, issue.1, p.26, 2011.
DOI : 10.1088/0004-637X/727/1/26

F. L. Schöier, F. F. Van-der-tak, E. F. Van-dishoeck, and J. H. Black, An atomic and molecular database for analysis of submillimetre line observations$^,$, Astronomy & Astrophysics, vol.432, issue.1, p.369, 2005.
DOI : 10.1051/0004-6361:20041729

G. C. Sloan, L. D. Keller, and W. J. Forrest, Mid???Infrared Spectra of Polycyclic Aromatic Hydrocarbon Emission in Herbig Ae/Be Stars, The Astrophysical Journal, vol.632, issue.2, p.956, 2005.
DOI : 10.1086/444371

S. E. Stein and A. Fahr, High-temperature stabilities of hydrocarbons, The Journal of Physical Chemistry, vol.89, issue.17, p.3714, 1985.
DOI : 10.1021/j100263a027

R. J. Sylvester, C. J. Skinner, M. J. Barlow, and V. Mannings, Optical, infrared and millimetre-wave properties of Vega-like systems, Monthly Notices of the Royal Astronomical Society, vol.279, issue.3, p.915, 1996.
DOI : 10.1093/mnras/279.3.915

W. Thi, G. Mathews, and F. Ménard, -PACS observation of the 10??Myr old T??Tauri disk TW??Hya, Astronomy and Astrophysics, vol.518, pp.125-711, 2010.
DOI : 10.1051/0004-6361/201014578
URL : https://hal.archives-ouvertes.fr/hal-00309817

R. Visser, V. C. Geers, and C. P. Dullemond, PAH chemistry and IR emission from circumstellar disks, Astronomy and Astrophysics, vol.466, issue.1, p.229, 2007.
DOI : 10.1051/0004-6361:20066829
URL : https://hal.archives-ouvertes.fr/hal-00398329

R. Visser, E. F. Van-dishoeck, and J. H. Black, The photodissociation and chemistry of CO isotopologues: applications to interstellar clouds and circumstellar disks, Astronomy and Astrophysics, vol.503, issue.2, p.323, 2009.
DOI : 10.1051/0004-6361/200912129

H. J. Walker and R. D. Wolstencroft, Cool circumstellar matter around nearby main-sequence stars, Publications of the Astronomical Society of the Pacific, vol.100, p.1509, 1988.
DOI : 10.1086/132357

A. J. Weinberger, E. E. Becklin, and G. Schneider, The Circumstellar Disk of HD 141569 Imaged with NICMOS, The Astrophysical Journal, vol.525, issue.1, pp.53-409, 1999.
DOI : 10.1086/312334

N. J. Wilson and K. L. Bell, Effective collision strengths for ground-state and 2s22p-2s2p2 fine-structure transitions in C II, Monthly Notices of the Royal Astronomical Society, vol.337, issue.3, p.1027, 2002.
DOI : 10.1046/j.1365-8711.2002.05982.x

P. Woitke, I. Kamp, and W. Thi, Radiation thermo-chemical models of protoplanetary disks, Astronomy and Astrophysics, vol.501, issue.1, p.383, 2009.
DOI : 10.1051/0004-6361/200911821

P. Woitke, B. Riaz, and G. Duchêne, The unusual protoplanetary disk around the T???Tauri star ET???Chamaeleontis, Astronomy & Astrophysics, vol.534, p.44, 2011.
DOI : 10.1051/0004-6361/201116684

J. Woodall, M. Agúndez, A. J. Markwick-kemper, and T. J. Millar, The UMIST database for astrochemistry 2006, Astronomy and Astrophysics, vol.466, issue.3, p.1197, 2007.
DOI : 10.1051/0004-6361:20064981

M. C. Wyatt, Spiral structure when setting up pericentre glow: possible giant planets at hundreds of AU in the HD 141569 disk, Astronomy and Astrophysics, vol.440, issue.3, p.937, 2005.
DOI : 10.1051/0004-6361:20053391

B. Yang, P. C. Stancil, N. Balakrishnan, and R. C. Forrey, Quenching of rotationally excited CO by collisions with H2, The Journal of Chemical Physics, vol.124, issue.10, p.104304, 2006.
DOI : 10.1063/1.2178299