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Hire Dr. Antoine B.

Switzerland

USD 50 /hr

Bioinformatician with a decade of experience spanning human genetics, cancer biology, and microbial ecology

Profile Summary

Originally trained in biochemistry, I spent the last ~10 years in multidisciplinary research ranging human genetics, cancer biology, and microbial ecology. I love to answer relevant questions in biology using math and computational modelling.

Subject Matter Expertise

• ☆ Computational Biology
• ☆ Microbiology
• ☆ Microbiome Research
• ☆ Phycology/Algae
• ☆ Mycology/Fungi
• ☆ Industrial Microbiology
• ☆ Mathematical Biology
• ☆ Biochemistry
• ☆ Structural Biology
• ☆ Molecular Biology
• ☆ Genetics
• ☆ Molecular Evolution
• ☆ Epigenetics
• ☆ Next Generation Sequencing (NGS)
• ☆ DNA Sequencing
• ☆ Gene Expression Analysis
• ☆ Genome Sequencing
• ☆ Mutagenesis
• ☆ Exome Sequencing
• ☆ Recombinant DNA
• ☆ RNA Sequencing
• ☆ Cell Biology
• ☆ Cell Signaling Pathways
• ☆ Mycology
• ☆ Biophysics
• ☆ Biotechnology & Bioengineering
• ☆ Microbial Biotechnology
• ☆ Biomedical Engineering
• ☆ Biological Systems Engineering
• ☆ Clinical Microbiology
• ☆ Biomarker Discovery
• ☆ Industrial Biotechnology
• ☆ Synthetic Biology
• ☆ Microbial Fermentation
• ☆ Chemical Biology
• ☆ Phylogenetics
• ☆ Population Genetics

Services

• Writing
• Research
• Consulting
• Data & AI
• Product Development

Writing Technical Writing

Research Technology Scouting

Consulting Business Strategy Consulting, Healthcare Consulting, Operations Consulting

Data & AI Predictive Modeling, Statistical Analysis, Image Processing, Image Analysis, Algorithm Design-Non ML, Algorithm Design-ML, Data Visualization, Big Data Analytics, Text Mining & Analytics, Data Mining

Product Development Product Evaluation, Product Validation

Work Experience

Nextflow Ambassador

Nextflow

December 2024 - Present

Data Engineer

Zurich Data Scientists

December 2024 - Present

BIoinformatician

NOVIGENIX

June 2024 - November 2024

Bioinformatics Expert

SOPHiA Genetics

July 2022 - October 2023

Bioinformatics lead

SUPSI - University of Applied Sciences Southern Switzerland

July 2019 - June 2022

Researcher in Scientific Computing

USI Institute of Computer Science

January 2017 - December 2018

Postdoc/Researcher in Computational Chemistry and Biochemistry

LNU

October 2012 - December 2018

Postdoc/Researcher in Systems Biology of Microorganisms

LNU

June 2013 - June 2014

Education

PhD, Biochemistry

University of Zürich - Switzerland

October 2007 - September 2011

M.Sc (Master of Science)

University of Zürich - Switzerland

October 2003 - October 2007

Certifications

• Higher education, university-level teaching qualifications

  LNU

  February 2015 - Present

Publications

PREPRINT

Antoine Buetti-Dinh, Francesco Di Nezio, Samuele Roman, Oscar Sepúlveda Steiner, Damien Bouffard, Anupam Sengupta, Nicola Storelli (2023). Motile bacteria leverage bioconvection for eco-physiological benefits in a natural aquatic environment .

JOURNAL ARTICLE

Roger König, Maurizio Cuomo, Elisa Pianta, Antoine Buetti, Federica Mauri, Matteo Tanadini, Pamela Principi (2022). Addition of Conductive Materials to Support Syntrophic Microorganisms in Anaerobic Digestion . Fermentation.

Antoine Buetti-Dinh, Roger König, Maurizio Cuomo, Elisa Pianta, Federica Mauri, Matteo Tanadini, Pamela Principi (2022). Addition of Conductive Materials to Support Syntrophic Microorganisms in Anaerobic Digestion . Fermentation.

Antoine Buetti-Dinh, Elena Della Bella, Ginevra Licandro, Paras Ahmad, Valentina Basoli, Mauro Alini, Martin J. Stoddart (2021). Dexamethasone Induces Changes in Osteogenic Differentiation of Human Mesenchymal Stromal Cells via SOX9 and PPARG, but Not RUNX2 . International Journal of Molecular Sciences.

Antoine Buetti-Dinh, Elena Della Bella, Ginevra Licandro, Paras Ahmad, Valentina Basoli, Mauro Alini, Martin J. Stoddart (2021). Dexamethasone Induces Changes in Osteogenic Differentiation of Human Mesenchymal Stromal Cells via <i>SOX9</i> and <i>PPARG</i>, but Not <i>RUNX2</i> . International Journal of Molecular Sciences.

Antoine Buetti-Dinh, Erika Kothe, Michela Ruinelli, Dorota Czerski, Cristian Scapozza, Agathe Martignier, Samuele Roman, Annapaola Caminada, Mauro Tonolla(2021). Geochemical and metagenomics study of a metal-rich, green-turquoise-coloured stream in the southern Swiss Alps . PLOS ONE. 16. (3). p. e0248877. Public Library of Science ({PLoS})

Antoine Buetti-Dinh, Malte Herold, Stephan Christel, Mohamed El Hajjami, Francesco Delogu, Olga Ilie, S&#246;ren Bellenberg, Paul Wilmes, Ansgar Poetsch, Wolfgang Sand, et al.(2020). Reverse engineering directed gene regulatory networks from transcriptomics and proteomics data of biomining bacterial communities with approximate Bayesian computation and steady-state signalling simulations . BMC Bioinformatics. 21. (1). Springer Science and Business Media {LLC}

(2020). Systems biology of acidophile biofilms for efficient metal extraction . Scientific Data.

(2019). Deep neural networks outperform human expert's capacity in characterizing bioleaching bacterial biofilm composition .

Antoine Buetti-Dinh, Rebecca Jensen, Ran Friedman(2018). A computational study of hedgehog signalling involved in basal cell carcinoma reveals the potential and limitation of combination therapy . BMC Cancer. 18. (1). Springer Nature

Antoine Buetti-Dinh, Ran Friedman(2018). Computer simulations of the signalling network in FLT3 +-acute myeloid leukaemia – indications for an optimal dosage of inhibitors against FLT3 and CDK6 . BMC Bioinformatics. 19. (1). Springer Nature

Antoine Buetti-Dinh, S&#246;ren Bellenberg, Vanni Galli, Olga Ilie, Malte Herold, Stephan Christel, Mariia Boretska, Igor V. Pivkin, Paul Wilmes, Wolfgang Sand, et al.(2018). Automated Microscopic Analysis of Metal Sulfide Colonization by Acidophilic Microorganisms . Applied and Environmental Microbiology. 84. (20). American Society for Microbiology

Antoine Buetti-Dinh, Stephan Christel, Malte Herold, S&#246;ren Bellenberg, Mohamed El Hajjami, Igor V. Pivkin, Wolfgang Sand, Paul Wilmes, Ansgar Poetsch, Mark Dopson, et al.(2018). Multi-omics Reveals the Lifestyle of the Acidophilic, Mineral-Oxidizing Model Species Leptospirillum ferriphilum T . Applied and Environmental Microbiology. 84. (3). American Society for Microbiology

Emma Ahlstrand, Antoine Buetti‐Dinh, Ran Friedman (2018). An interactive computer lab of the galvanic cell for students in biochemistry . Biochemistry and Molecular Biology Education.

Antoine Buetti-Dinh, Stephan Christel, Malte Herold, S&#246;ren Bellenberg, Mohamed El Hajjami, Igor V. Pivkin, Wolfgang Sand, Paul Wilmes, Ansgar Poetsch, Mark Dopson(2017). Multi-omics reveal the lifestyle of the acidophilic, mineral-oxidizing model speciesLeptospirillum ferriphilumT . Applied and Environmental Microbiology. p. AEM.02091--17. American Society for Microbiology

Antoine Buetti-Dinh, Thomas O’Hare, Ran Friedman, Ken Mills(2016). Sensitivity Analysis of the NPM-ALK Signalling Network Reveals Important Pathways for Anaplastic Large Cell Lymphoma Combination Therapy . PLOS ONE. 11. (9). p. e0163011. Public Library of Science ({PLoS})

Antoine Buetti-Dinh, Olga Dethlefsen, Ran Friedman, Mark Dopson(2016). Transcriptomic analysis reveals how a lack of potassium ions increases Sulfolobus acidocaldarius sensitivity to pH changes . Microbiology. 162. (8). p. 1422--1434. Microbiology Society

Antoine Buetti-Dinh, Stephan Christel, Jimmy Fridlund, Moritz Buck, Elizabeth L. Watkin, Mark Dopson, Rich Boden(2016). RNA transcript sequencing reveals inorganic sulfur compound oxidation pathways in the acidophileAcidithiobacillus ferrivorans . FEMS Microbiology Letters. 363. (7). p. fnw057. Oxford University Press ({OUP})

(2016). RNA transcript sequencing reveals inorganic sulfur compound oxidation pathways in the acidophile Acidithiobacillus ferrivorans. FEMS Microbiol. Lett.

Antoine Buetti-Dinh, Stephan Christel, Mark Dopson, Mario Vera, Wolfgang Sand, Malte Herold, Paul Wilmes, Igor Pivkin, Christian Tr&#246;tschel, Ansgar Poetsch, et al.(2015). Systems Biology of Acidophile Biofilms for Efficient Metal Extraction . Advanced Materials Research. 1130. p. 312--315. Trans Tech Publications

Buetti-Dinh, A. and Pivkin, I. V. and Friedman, R. (2015). S100A4 and its role in metastasis - computational integration of data on biological networks. Mol Biosyst. 11. (8). p. 2238--2246.

Buetti-Dinh, A. and Pivkin, I. V. and Friedman, R. (2015). S100A4 and its role in metastasis - simulations of knockout and amplification of epithelial growth factor receptor and matrix metalloproteinases. Mol Biosyst. 11. (8). p. 2247--2254.

Antoine Buetti-Dinh, Igor V. Pivkin, Ran Friedman(2015). S100A4 and its role in metastasis – computational integration of data on biological networks . Molecular BioSystems. 11. (8). p. 2238--2246. Royal Society of Chemistry ({RSC})

Antoine Buetti-Dinh, Igor V. Pivkin, Ran Friedman(2015). S100A4 and its role in metastasis – simulations of knockout and amplification of epithelial growth factor receptor and matrix metalloproteinases . Molecular BioSystems. 11. (8). p. 2247--2254. Royal Society of Chemistry ({RSC})

Antoine Buetti-Dinh, Chieh Hsu, Simone Scherrer, Prasuna Ratna, Julia Pizzolato, Vincent Jaquet, Attila Becskei(2012). Stochastic signalling rewires the interaction map of a multiple feedback network during yeast evolution . Nature Communications. 3. p. 682. Springer Nature

(2012). Stochastic signalling rewires the interaction map of a multiple feedback network during yeast evolution. Nat Commun.

Antoine Buetti-Dinh, Rosemarie Ungricht, J&#225;nos Z Kelemen, Chetak Shetty, Prasuna Ratna, Attila Becskei(2009). Control and signal processing by transcriptional interference . Molecular Systems Biology. 5. Wiley-Blackwell

(2009). Control and signal processing by transcriptional interference. Mol. Syst. Biol.

CONFERENCE PAPER

(2015). Systems Biology of Acidophile Biofilms for Efficient Metal Extraction. 1130Trans Tech Publications

DISSERTATION THESIS

(2012). Gene Regulation by Numbers: Steady-State and Equilibrium Binding Applied to Gene Regulation Systems .