Our Team
Naoki Kondo, PhD
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Education |
- Bachelor in Theoretical Physics: 2012 – 2016. “Characterization of detector modules for positron emission tomography”. BUAP, Puebla, México.
- Master’s in Applied Physics: 2017 – 2018. “Monte Carlo Simulation of supercoiled DNA plasmids for the study of direct and indirect DNA damage due to low LET ionizing radiation. Cum Laude. BUAP, Puebla, México.
- Ph. D in Applied Physics: 2019 – 2022: “Monte Carlo Track-Structure algorithm development for the study of the effect of ionizing radiation with biological tissue.” Cum Laude. BUAP, Puebla, México.
- UCLA CAMPEP Accreditation: 2023 – 2024
– PBMED XLC 205: Physics of Diagnostic Radiology. 09/26/2023 – 12/14/2023.
– PBMED XLC 216: Fundamentals of Dosimetry. 09/25/2023 – 12/13/2023.
– PBMED XLC 218: Radiological Functional Anatomy. 09/26/2023 – 12/12/2023.
– PBMED XLC 200A: Physics and Chemistry of Nuclear Medicine. 01/08/2024 – 03/20/2024.
– PBMED XLC 204: Introductory Radiation Biology. 01/09/2024 – 03/21/2024.
– PBMED XLC 203: Physics of Radiation Therapy. 04/01/2024 – 06/13/2024.
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Experience |
- Medical Physics Resident at UCSF: Medical Physics Resident: July 1st, 2024 to present
- Postdoctoral Scholar at UCSF: January 2022 – July 2024
- TOPAS-nBio Developing. UCSF, San Francisco, CA.
- Geant4-DNA application Developing. BUAP, Puebla, México | UCSF, San Francisco, CA
- Clinical Experience. UCSF, San Francisco, CA. May 2022 to present
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Awards & Honors |
- Cum Laude, BUAP, Puebla, Mexico: 2017 – 2018.
- National Fellow at CONACyT México for Master’s degree.
- Cum Laude, BUAP, Puebla, Mexico: 2019 – 2021.
- National Fellow at CONACyT México for Doctoral’s degree.
- AAPM Northern Chapter – Postdoc Category: Second Place, 2022.
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Selected Publications, Abstracts, and Posters |
- DNA damage modeled with Geant4-DNA: effects of plasmid DNA conformation and
experimental conditions. Phys Med Biol. 2021 12 15; 66(24). D-Kondo N, Moreno-Barbosa
E, Štephán V, Stefanová K, Perrot Y, Villagrasa C, Incerti S, De Celis Alonso B, Schuemann
J, Faddegon B, Ramos-Méndez J. PMID: 34787099. - TOPAS-nBio validation for simulating water radiolysis and DNA damage under low-LET
irradiation. Phys Med Biol. 2021 09 03; 66(17). Ramos-Méndez J, LaVerne JA, Domínguez-
Kondo N, Milligan J, Štepán V, Stefanová K, Perrot Y, Villagrasa C, Shin WG, Incerti S,
McNamara A, Paganetti H, Perl J, Schuemann J, Faddegon B. PMID: 34412044;
PMCID: PMC8639218. - Independent reaction times method in Geant4-DNA: Implementation and performance.
Med Phys. 2020 Nov; 47(11):5919-5930. Ramos-Méndez J, Shin WG, Karamitros M,
Domínguez-Kondo J, Tran NH, Incerti S, Villagrasa C, Perrot Y, Štepán V, Okada S, Moreno-
Barbosa E, Faddegon B. PMID: 32970844; PMCID: PMC7891885. - LET-Dependent Intertrack Yields in Proton Irradiation at Ultra-High Dose Rates Relevant
for FLASH Therapy. Radiat Res. 2020 10 02; 194(4):351-362. Ramos-Méndez J,
Domínguez-Kondo N, Schuemann J, McNamara A, Moreno-Barbosa E, Faddegon B. PMID:
32857855; PMCID: PMC7644138. - Geometrical structures for radiation biology research as implemented in the TOPAS-nBio
toolkit. Phys Med Biol. 2018 09 06; 63(17):175018. McNamara AL, Ramos-Méndez J, Perl
J, Held K, Dominguez N, Moreno E, Henthorn NT, Kirkby KJ, Meylan S, Villagrasa C, Incerti
S, Faddegon B, Paganetti H, Schuemann J. PMID: 30088810; PMCID: PMC6176684. - TOPAS-nBio simulation of temperature-dependent indirect DNA strand break yields. Phys
Med Biol. 2022 8;67(14). Ramos-Mendez J, Garcia-Garcia O, Dominguez-Kondo J, LaVerne
J A, Schuemann J, Moreno-Barbosa E, Faddegon B. PMID:35714599, PMCID: PMC9512025 - Microdosimetric analysis for boron neutron capture therapy via Monte Carlo track
structure simulation with modified lithium cross-sections, Radiation Physics and
Chemistry 2023, 209. Han Y, Geng C, D-Kondo N, Li M, Ramos-Mendez J, Altieri S, Liu Y,
Tang X. PMID: 110956. - An Integrated Monte Carlo track-structure simulation framework for modeling inter and
intra–track effects on homogeneous chemistry. Phys Med Biol. 2023 68 125008. D-Kondo
J N, Garcia-Garcia O R, LaVerne J A, Faddegon B, Schuemann J, Shin W, Ramos-Mendez J. - Review of chemical models and applications in Geant4-DNA: Report from the ESA BioRad
III Project. Medical Physics, 2024, 10.1002/mp.17256 . cea-04616961. Hoang Ngoc Tran,
Jay Archer, Gérard Baldacchino, Jeremy M C Brown, Flore Chappuis, Giuseppe Antonio
Pablo Cirrone, Laurent Desorgher, Naoki Dominguez, Serena Fattori, Susanna Guatelli, et
al. - Lithium inelastic cross-sections and their impact on micro and nano dosimetry of boron
neutron capture. Phys Med Biol. 2024 Provisionally Accepted. Naoki D-Kondo, Ramon
Ortiz, Bruce Faddegon, Sebastien Incerti, Hoang Tran, Ziad Francis, Eduardo Moreno
Barbosa, Jan Schuemann, José Ramos-Méndez. - An interface tool to parametrize treatment plans for the TrueBeam radiotherapy system
into TOPAS parameter control files for Monte Carlo simulation. Accepted in Physica
Medica. 2024. Ortiz R, Sawkey D, Faddegon B, D-Kondo N and Ramos-Méndez J. - LXII Mexican National Physics Congress: “Validation of a Geant4-DNA extension to
simulate DNA damage on plasmids using the independent pair approach”. October 7th,
2020. - 4th Loma Linda Workshop Speaker: “Plasmids in Monte Carlo Simulations”. July 8th, 2018.
- 6th Loma Linda Workshop Speaker: “DNA Damage Simulations on TOPAS-nBio/Geant4-
DNA: Current State and Future Plans”. July 8th, 2020. - AAPM Northern Chapter – Postdoc Category Speaker: “Monte Carlo Track-Structure
study of DNA damage in supercoiled plasmids”, 2022. - Benemérita Universidad Autónoma de Puebla, Medical Physics Group Invited Speaker:
“A roadmap for Monte Carlo simulation directed clinical research”, February 10th, 2023. - International Congress for Radiation Research, Poster presentation: “TOPAS-nBio H2O2
yields calculated with homogeneous chemistry algorithms”, August 28th, 2023. - 9th Loma Linda Workshop Speaker: “Nanoscopic calculation of the frequency distribution
of clusters f(nu) with track structure simulations”, August 2nd, 2023.