Publications

2026

• Reconciling Jupiter's vertical motions with the observed cloud structure in the upper troposphere
  Mendonça, João M., Schneider, Tapio, Liu, Junjun, Lian, Yuan
  Icarus

2025

• Hot Rocks Survey I: A possible shallow eclipse for LHS 1478 b
  August, P. C., Buchhave, L. A., Diamond-Lowe, H., Mendonça, J. M., Gressier, A. et al.
  Astronomy and Astrophysics
• Stellar Contamination Correction Using Back-to-back Transits of TRAPPIST-1 b and c
  Rathcke, Alexander D., Buchhave, Lars A., de Wit, Julien, Rackham, Benjamin V., August, Prune C. et al.
  The Astrophysical Journal
• Hot Rocks Survey: II. The thermal emission of TOI-1468 b reveals a bare hot rock
  Meier Valdés, E. A., Demory, B. -O., Diamond-Lowe, H., Mendonça, J. M., August, P. C. et al.
  Astronomy and Astrophysics
• Limits on the atmospheric metallicity and aerosols of the sub-Neptune GJ 3090 b from high-resolution CRIRES+ spectroscopy
  Parker, Luke T., Mendonça, João M., Diamond-Lowe, Hannah, Birkby, Jayne L., Meech, Annabella et al.
  Monthly Notices of the Royal Astronomical Society
• Hot Rocks Survey IV: Emission from LTT 3780 b is consistent with a bare rock
  Allen, Natalie H., Espinoza, Néstor, Diamond-Lowe, Hannah, Mendonça, João M., Demory, Brice-Olivier et al.
  arXiv e-prints
• Global flow regimes of hot Jupiters
  Akιn, C., Heng, K., Mendonça, J. M., Deitrick, R., Gkouvelis, L.
  Astronomy and Astrophysics
• Extreme Learning Machines for Exoplanet Simulations: A Faster, Lightweight Alternative to Deep Learning
  Tahseen, Tara P. A., Simões, Luís F., Hou Yip, Kai, Nikolaou, Nikolaos, Mendonça, João M. et al.
  arXiv e-prints
• Is ozone a reliable proxy for molecular oxygen?: II. The impact of N<SUB>2</SUB>O on the O<SUB>2</SUB>-O<SUB>3</SUB> relationship for Earth-like atmospheres
  Kozakis, Thea, Mendonça, João M., Buchhave, Lars A., Lara, Luisa M.
  Astronomy and Astrophysics
• Is ozone a reliable proxy for molecular oxygen? III. The impact of CH$_4$ on the O$_2$-O$_3$ relationship for Earth-like atmospheres
  Kozakis, Thea, Mendonça, João M., Buchhave, Lars A., Lara, Luisa M.
  arXiv e-prints
• Hot Rocks Survey: II. The thermal emission of TOI-1468 b reveals a bare hot rock (Corrigendum)
  Meier Valdés, E. A., Demory, B. -O., Diamond-Lowe, H., Mendonça, J. M., August, P. C. et al.
  Astronomy and Astrophysics
• Adaptive Online Emulation for Accelerating Complex Physical Simulations
  Tahseen, Tara P. A., Nikolaou, Nikolaos, Simões, Luís F., Hou Yip, Kai, Mendonça, João M. et al.
  arXiv e-prints
• Hot Rocks Survey: III. A deep eclipse for LHS 1140c and a new Gaussian process method to account for correlated noise in individual pixels
  Fortune, Mark, Gibson, Neale P., Diamond-Lowe, Hannah, Mendonça, João M., Gressier, Amélie et al.
  Astronomy and Astrophysics

2024

• Nightside clouds and disequilibrium chemistry on the hot Jupiter WASP-43b
  Bell, Taylor J., Crouzet, Nicolas, Cubillos, Patricio E., Kreidberg, Laura, Piette, Anjali A. A. et al.
  Nature Astronomy
• High-energy spectra of LTT 1445A and GJ 486 reveal flares and activity
  Diamond-Lowe, H., King, G. W., Youngblood, A., Brown, A., Howard, W. S. et al.
  Astronomy and Astrophysics
• Two-dimensional Eclipse Mapping of the Hot-Jupiter WASP-43b with JWST MIRI/LRS
  Hammond, Mark, Bell, Taylor J., Challener, Ryan C., Lewis, Neil T., Weiner Mansfield, Megan et al.
  The Astronomical Journal
• Simultaneous retrieval of orbital phase resolved JWST/MIRI emission spectra of the hot Jupiter WASP-43b: evidence of water, ammonia, and carbon monoxide
  Yang, Jingxuan, Hammond, Mark, Piette, Anjali A. A., Blecic, Jasmina, Bell, Taylor J. et al.
  Monthly Notices of the Royal Astronomical Society
• Global Chemical Transport on Hot Jupiters: Insights from the 2D VULCAN Photochemical Model
  Tsai, Shang-Min, Parmentier, Vivien, Mendonça, João M., Tan, Xianyu, Deitrick, Russell et al.
  The Astrophysical Journal
• Identifying and fitting eclipse maps of exoplanets with cross-validation
  Hammond, Mark, Lewis, Neil T., Boone, Sasha, Chen, Xueqing, Mendonça, João M. et al.
  Monthly Notices of the Royal Astronomical Society
• Enhancing 3D planetary atmosphere simulations with a surrogate radiative transfer model
  Tahseen, Tara P. A., Mendonça, João M., Yip, Kai Hou, Waldmann, Ingo P.
  Monthly Notices of the Royal Astronomical Society
• Stringent upper limits of minor species at the cloud top of Venus: PH<SUB>3</SUB>, HCN, and NH<SUB>3</SUB>
  Encrenaz, T., Greathouse, T. K., Giles, R., Widemann, T., Bézard, B. et al.
  Astronomy and Astrophysics
• An investigation into Venusian atmospheric chemistry based on an open-access photochemistry-transport model at 0–112 km
  Dai, Longkang, Shao, Wencheng, Sheng, Zheng
  Astronomy and Astrophysics
• Three-Dimensional Venus Cloud Structure Simulated by a General Circulation Model
  Shao, Wencheng D., Mendonça, João. M., Dai, Longkang
  Journal of Geophysical Research (Planets)

2023

• Transmission Spectroscopy of the Lowest-density Gas Giant: Metals and a Potential Extended Outflow in HAT-P-67b
  Bello-Arufe, Aaron, Knutson, Heather A., Mendonça, João M., Zhang, Michael M., Cabot, Samuel H. C. et al.
  The Astronomical Journal
• Ground-based Optical Transmission Spectroscopy of the Nearby Terrestrial Exoplanet LTT 1445Ab
  Diamond-Lowe, Hannah, Mendonça, João M., Charbonneau, David, Buchhave, Lars A.
  The Astronomical Journal
• Exploring the Interior of Europa with the Europa Clipper
  Roberts, James H., McKinnon, William B., Elder, Catherine M., Tobie, Gabriel, Biersteker, John B. et al.
  Space Science Reviews
• Multiepoch Detections of the Extended Atmosphere and Transmission Spectra of KELT-9b with a 1.5 m Telescope
  Lowson, Nataliea, Zhou, George, Wright, Duncan J., Huang, Chelsea X., Mendonça, João M. et al.
  The Astronomical Journal
• HDO and SO<SUB>2</SUB> thermal mapping on Venus. VI. Anomalous SO<SUB>2</SUB> behavior during late 2021
  Encrenaz, T., Greathouse, T. K., Giles, R., Widemann, T., Bézard, B. et al.
  Astronomy and Astrophysics
• HST PanCET programme: a flat optical transmission spectrum for the Hot Jupiter WASP-101b
  Rathcke, Alexander D., Buchhave, Lars A., Mendonça, João M., Sing, David K., López-Morales, Mercedes et al.
  Monthly Notices of the Royal Astronomical Society
• Correction to: HST PanCET programme: a flat optical transmission spectrum for the Hot Jupiter WASP-101b
  Rathcke, Alexander D., Buchhave, Lars A., Mendonça, João M., Sing, David K., López-Morales, Mercedes et al.
  Monthly Notices of the Royal Astronomical Society
• Determination of the eddy diffusion in the Venusian clouds from VeRa sulfuric acid observations
  Dai, Longkang, Shao, Wencheng, Gu, Hao, Sheng, Zheng
  Astronomy and Astrophysics

2022

• Mining the Ultrahot Skies of HAT-P-70b: Detection of a Profusion of Neutral and Ionized Species
  Bello-Arufe, Aaron, Cabot, Samuel H. C., Mendonça, João M., Buchhave, Lars A., Rathcke, Alexander D.
  The Astronomical Journal
• Exoplanet atmospheres at high resolution through a modest-size telescope. Fe II in MASCARA-2b and KELT-9b with FIES on the Nordic Optical Telescope
  Bello-Arufe, Aaron, Buchhave, Lars A., Mendonça, João M., Tronsgaard, René, Heng, Kevin et al.
  Astronomy and Astrophysics
• A survey of exoplanet phase curves with Ariel
  Charnay, Benjamin, Mendonça, João M., Kreidberg, Laura, Cowan, Nicolas B., Taylor, Jake et al.
  Experimental Astronomy
• Is ozone a reliable proxy for molecular oxygen?. I. The O<SUB>2</SUB>-O<SUB>3</SUB> relationship for Earth-like atmospheres
  Kozakis, Thea, Mendonça, João M., Buchhave, Lars A.
  Astronomy and Astrophysics
• The THOR + HELIOS general circulation model: multiwavelength radiative transfer with accurate scattering by clouds/hazes
  Deitrick, Russell, Heng, Kevin, Schroffenegger, Urs, Kitzmann, Daniel, Grimm, Simon L. et al.
  Monthly Notices of the Royal Astronomical Society
• Local-time Dependence of Chemical Species in the Venusian Mesosphere
  Shao, Wencheng D., Zhang, Xi, Mendonça, João, Encrenaz, Thérèse
  The Planetary Science Journal
• Mass transport in a moist planetary climate model
  Mendonça, J. M.
  Astronomy and Astrophysics

2021

• HELIOS-K 2.0 Opacity Calculator and Open-source Opacity Database for Exoplanetary Atmospheres
  Grimm, Simon L., Malik, Matej, Kitzmann, Daniel, Guzmán-Mesa, Andrea, Hoeijmakers, H. Jens et al.
  The Astrophysical Journal Supplement Series
• TOI-1518b: A Misaligned Ultra-hot Jupiter with Iron in Its Atmosphere
  Cabot, Samuel H. C., Bello-Arufe, Aaron, Mendonça, João M., Tronsgaard, René, Wong, Ian et al.
  The Astronomical Journal
• The obliquity and atmosphere of the ultra-hot Jupiter TOI-1431b (MASCARA-5b): A misaligned orbit and no signs of atomic or molecular absorptions
  Stangret, M., Pallé, E., Casasayas-Barris, N., Oshagh, M., Bello-Arufe, A. et al.
  Astronomy and Astrophysics
• HST PanCET Program: A Complete Near-UV to Infrared Transmission Spectrum for the Hot Jupiter WASP-79b
  Rathcke, Alexander D., MacDonald, Ryan J., Barstow, Joanna K., Goyal, Jayesh M., Lopez-Morales, Mercedes et al.
  The Astronomical Journal
• General Circulation Model Errors Are Variable across Exoclimate Parameter Spaces
  Kopparla, Pushkar, Deitrick, Russell, Heng, Kevin, Mendonça, João M., Hammond, Mark
  The Astrophysical Journal

2020

• THOR 2.0: Major Improvements to the Open-source General Circulation Model
  Deitrick, Russell, Mendonça, João M., Schroffenegger, Urs, Grimm, Simon L., Tsai, Shang-Min et al.
  The Astrophysical Journal Supplement Series
• Angular momentum and heat transport on tidally locked hot Jupiter planets
  Mendonça, João M.
  Monthly Notices of the Royal Astronomical Society
• Modelling the 3D climate of Venus with OASIS
  Mendonça, João M., Buchhave, Lars A.
  Monthly Notices of the Royal Astronomical Society

2019

• Self-luminous and Irradiated Exoplanetary Atmospheres Explored with HELIOS
  Malik, Matej, Kitzmann, Daniel, Mendonça, João M., Grimm, Simon L., Marleau, Gabriel-Dominique et al.
  The Astronomical Journal

2018

• Three-dimensional Circulation Driving Chemical Disequilibrium in WASP-43b
  Mendonça, João M., Tsai, Shang-min, Malik, Matej, Grimm, Simon L., Heng, Kevin
  The Astrophysical Journal
• Toward Consistent Modeling of Atmospheric Chemistry and Dynamics in Exoplanets: Validation and Generalization of the Chemical Relaxation Method
  Tsai, Shang-Min, Kitzmann, Daniel, Lyons, James R., Mendonça, João, Grimm, Simon L. et al.
  The Astrophysical Journal
• Revisiting the Phase Curves of WASP-43b: Confronting Re-analyzed Spitzer Data with Cloudy Atmospheres
  Mendonça, João M., Malik, Matej, Demory, Brice-Olivier, Heng, Kevin
  The Astronomical Journal
• HELIOS: Radiative transfer code for exoplanetary atmospheres
  Malik, Matej, Grosheintz, Luc, Mendonça, João M., Grimm, Simon L., Lavie, Baptiste et al.
  Astrophysics Source Code Library
• THOR: Global Circulation Model for planetary atmospheres
  Mendonca, J. M., Grimm, S. L., Grosheintz, L., Heng, K.
  Astrophysics Source Code Library

2017

• HELIOS: An Open-source, GPU-accelerated Radiative Transfer Code for Self-consistent Exoplanetary Atmospheres
  Malik, Matej, Grosheintz, Luc, Mendonça, João M., Grimm, Simon L., Lavie, Baptiste et al.
  The Astronomical Journal
• HELIOS-RETRIEVAL: An Open-source, Nested Sampling Atmospheric Retrieval Code; Application to the HR 8799 Exoplanets and Inferred Constraints for Planet Formation
  Lavie, Baptiste, Mendonça, João M., Mordasini, Christoph, Malik, Matej, Bonnefoy, Mickaël et al.
  The Astronomical Journal
• Using high-resolution laboratory and ground-based solar spectra to assess CH<SUB>4</SUB> absorption coefficient calculations
  Mendonca, J., Strong, K., Sung, K., Devi, V. M., Toon, G. C. et al.
  Journal of Quantitative Spectroscopy and Radiative Transfer
• Erratum: Analytical Models of Exoplanetary Atmospheres. II. Radiative Transfer via the Two-stream Approximation (<A href="https://doi.org/10.1088/0067-0049/215/1/4">2014, ApJS, 215, 4</A>)
  Heng, Kevin, Mendonça, João M., Lee, Jae-Min
  The Astrophysical Journal Supplement Series

2016

• THOR: A New and Flexible Global Circulation Model to Explore Planetary Atmospheres
  Mendonça, João M., Grimm, Simon L., Grosheintz, Luc, Heng, Kevin
  The Astrophysical Journal
• Global energy budgets and 'Trenberth diagrams' for the climates of terrestrial and gas giant planets
  Read, P. L., Barstow, J., Charnay, B., Chelvaniththilan, S., Irwin, P. G. J. et al.
  Quarterly Journal of the Royal Meteorological Society
• Exploring the Venus global super-rotation using a comprehensive general circulation model
  Mendonça, J. M., Read, P. L.
  Planetary and Space Science

2015

• A new, fast and flexible radiative transfer method for Venus general circulation models
  Mendonça, J. M., Read, P. L., Wilson, C. F., Lee, C.
  Planetary and Space Science

2014

• Analytical Models of Exoplanetary Atmospheres. II. Radiative Transfer via the Two-stream Approximation
  Heng, Kevin, Mendonça, João M., Lee, Jae-Min
  The Astrophysical Journal Supplement Series

2013

• Models of Venus Atmosphere
  Lebonnois, Sebastien, Lee, Christopher, Yamamoto, Masaru, Dawson, Jonathan, Lewis, Stephen R. et al.
  Towards Understanding the Climate of Venus
• Studies of Venus using a comprehensive General Circulation Model
  Mendonca, J.
  Ph.D. Thesis

2012

• Zonal winds at high latitudes on Venus: An improved application of cyclostrophic balance to Venus Express observations
  Mendonça, João M., Read, Peter L., Wilson, Colin F., Lewis, Stephen R.
  Icarus
• The New Oxford Planetary Unified Model System for Venus (OPUS-V)
  Mendonca, J. M., Read, P. L., Lewis, S. R., Lee, C.
  Comparative Climatology of Terrestrial Planets
• Super-Rotating Jets in the Atmospheres of Terrestrial Planets
  Lewis, S. R., Dawson, J., Read, P. L., Mendonca, J., Ruan, T. et al.
  Comparative Climatology of Terrestrial Planets
• Climate Regimes on Terrestrial Planets Within a Hierarchy of Dynamical Models
  Read, P. L., Lewis, S. R., Mendonca, J., Montabone, L., Mulholland, D. P. et al.
  Comparative Climatology of Terrestrial Planets