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Lisa Cuneo
Research center
About

I am a postdoctoral researcher at the Italian Institute of Technology (IIT), working between the Molecular Microscopy and Spectroscopy (MMS) and the Computational Statistics and Machine Learning (CSML) research lines. My background is in applied mathematics, with a strong focus on inverse problems, biomedical data analysis, and machine learning. I hold a PhD in Physics and Nanosciences (bio-nanosciences curriculum), and I have carried out research stays at Aalto University (Finland) and the University of Cambridge (UK), where I deepened my expertise in imaging, data analysis, deep learning, and generative models.

My work sits at the intersection of advanced optical microscopy and computational modelling. I act as a bridge between the experimental imaging side—where biological samples are imaged and complex datasets are generated—and the machine learning side, where these data are decoded and transformed into meaningful information. I develop computational methods based on inverse problems, optimization, and machine learning to extract the biological signals of interest from what the physical instrument can measure.

My goal is to design tools that enhance the interpretability, resolution, and quantitative power of microscopy data, helping researchers uncover the physical, cellular, and molecular processes hidden within photon-level measurements.

Education

Title: PhD
Institute: Istituto Italiano di Tecnologia
Location: Genova
Country: Italy
From: 2020 To: 2024

Title: Masters of Applied Mathematics
Institute: Università degli studi di Genova
Location: Genova
Country: Italy
From: 2017 To: 2020

Title: Traineeship
Institute: Aalto University
Location: Helsinki
Country: Finland
From: 2019 To: 2020

All Publications
2025
Del Bufalo F., Garrè G., Donato M., Oneto M., Diaspro A., Cuneo L., Zunino A., Vicidomini G.
A unified computational strategy for multi target super resolution imaging with SPAD array detectors
30th International Workshop on “Single Molecule Spectroscopy and Super-resolution Microscopy”
Poster Conference
2024
Zeaiter L. Z., Baldini F., Cuneo L., Diab F., Bianchini P., Dabbous A., Vergani L., Diaspro A.
Elucidating the spatial distribution of genomic and epigenetic lamina-associated domains implicated in adipocyte differentiation and hypertrophy
Medical Image Analysis, pp. 1361-8415
Article Journal
2024
Zeaiter L., Baldini F., Cuneo L., Diab F., Bianchini P., Dabbous A., Vergani L., Diaspro A.
Elucidating the spatial distribution of genomic and epigenetic lamina-associated domains implicated in adipocyte differentiation and hypertrophy
Biophysical Journal, vol. 123, (no. 3), pp. 291a
Article Journal
2024
Nan Y., Xing X., ShiyiWang T. Z., Felder F.N., Zhang S., Ledda R.E., Ding X., Yu R., Liu W., Shi F., Sun T., Cao Z., Zhang M., Gu Y., Zhang H., Gao J., Wang P., Tang W., Yu P., Kang H., Chen J., Lu X., Zhang B., Mamalakis M., Prinzi F., Carlini G., Cuneo L., Banerjee A., Xing Z., Zhu L., Mesbah Z., Jain D., Mayet T., Yuan H., Lyu Q., Qayyum A., Mazher M., Wells A., Walsh S.L., Yang G.
Hunting imaging biomarkers in pulmonary fibrosis: Benchmarks of the AIIB23 challenge
Medical Image Analysis, vol. 97
2024
Baldini F., Zeaiter L. Z., Cuneo L., Bianchini P., Vergani L., Pagano A., Diaspro A.
Remodeling of the nuclear landscapes and epigenome during retro-transformation of neuroblastoma cells mediated by the non-coding RNA NDM29
Biophysical Journal, vol. 123, (no. 3)
Article Journal
Oral presentations
2023
Cuneo L., Castello M., Piazza S., Nepita I., Bianchini P., Vicidomini G., Diaspro A.
A deep learning method to separate fluorophores based on their fluorescence lifetime
Biophysical Journal, vol. 122, (no. 3), pp. 462a-463a
Journal
2023
Cuneo L., Civita S., Bianchini P., Diaspro A.
Scattering networks: A tool to remove the background
Proceedings of the International School of Physics "Enrico Fermi", vol. 210, pp. 143-145
Conference
2022
Cuneo L., Castello M., Baldini F., Diaspro A.
An automated tool to estimate chromatin compaction in stained nuclei
Il Nuovo cimento della Societá italiana di fisica. C, vol. 45, (no. 6)
Journal
2021
Cuneo L., Baldini F., Castello M., Nepita I., Piazza S., Vergani L., Diaspro A.
An Automated Tool to Analyse 3D Fluorescence Images of Stained Nuclei
Optics InfoBase Conference Papers
Conference