Publications

All SPL publications.

A chronological list from the most recent work to the earliest publications. Research-theme metadata stays in the database for routing papers into lab areas.

Chronological inventory

46 publications

Peer-reviewed article

MicroSplit: semantic unmixing of fluorescent microscopy data

Ashesh Ashesh, Federico Carrara, Igor Zubarev, Vera Galinova, Melisande Croft, Melissa Pezzotti, Daozheng Gong, Francesca Casagrande, Elisa Colombo, Stefania Giussani, Elena Restelli, Eugenia Cammarota, Juan Manuel Battagliotti, Nikolai Klena, Moises Di Sante, Raghabendra Adhikari, Daniel Feliciano, Gaia Pigino, Elena Taverna, Oliver Harschnitz, Nicola Maghelli, Norbert Scherer, Damian Edward Dalle Nogare, Joran Deschamps, Francesco Pasqualini, Florian Jug

Nature Methods · 2026 · DOI 10.1038/s41592-026-03082-1

Peer-reviewed article

Micro-comb 3D printing: rapid fabrication of tissue-guiding substrates using micro-embossed nozzles

Sarkhan Butdayev, Stefan Leone, Shayla Nikzad, Janko Kajtez, Katrine Bech Lauritzen, Moises Di Sante, Francesco S Pasqualini, Kirstine Calloe, Rodolphe Marie, Stephan S Keller, Anne Z Eriksen, Johan U Lind

Biofabrication · 2026 · DOI 10.1088/1758-5090/ae5fd9

Peer-reviewed article

Bioimage analysis for multiplexed FUCCI acquisitions powered by deep learning

J. Zimmermann, M. Pezzotti, E. Torchia, A. Enrico, M. Di Sante, F.S. Pasqualini

npj Imaging · 2026 · DOI 10.1038/s44303-026-00159-6

Peer-reviewed article

A vertically integrated system for tracking and assessing cell-cycle-aware phenotypes under confinement

Melissa Pezzotti, Eloisa Torchia, Julius Zimmermann, Sara Rigolli, Alessandro Enrico, Moises Di Sante, Francesco S. Pasqualini

APL Bioengineering · 2026 · DOI 10.1063/5.0306480

Peer-reviewed article

Fabrication of cell culture hydrogels by robotic liquid handling automation for high-throughput drug testing

Eloisa Torchia, Moises Di Sante, Bohdana Horda, Marko Mihajlovic, Julius Zimmermann, Melissa Pezzotti, Elisa Cimetta, Sylvain Gabriele, Ferdinando Auricchio, Johan Ulrik Lind, Alessandro Enrico, Francesco Silvio Pasqualini

Communications Engineering · 2025 · DOI 10.1038/s44172-025-00575-3

Pre-print article

LiGHTS: Massively Parallel Biomimetic Photo-Functionalization for Imaging-Based Ultra-High-Throughput Screening

Alessandro Enrico, Sara Rigolli, Julius Zimmermann, Melissa Pezzotti, Eloisa Torchia, Moises Di Sante, Ferdinando Auricchio, Francesco S. Pasqualini

bioRxiv · 2025 · DOI 10.1101/2025.10.23.683892

Peer-reviewed article

BIOPOINT: A particle-based model for probing nuclear mechanics and cell-ECM interactions via experimentally derived parameters

Sandipan Chattaraj, Julius Zimmermann, Francesco Silvio Pasqualini

PLOS Computational Biology · 2025 · DOI 10.1371/journal.pcbi.1014113

Peer-reviewed article

An Open-Science Computational Model of Organelle Acidification to Integrate Putative Mechanisms of Synaptic Vesicle Acidification and Filling

Baraglia EC, Fattorini G, Chattaraj S, Pasqualini F, Conti F

Neurochemical Research · 2025 · DOI 10.1007/s11064-025-04432-9

Peer-reviewed article

Molecular Dynamics Simulation of Structural Assembly and Hydration of Hyaluronic Acid in Salt Aqueous Buffer

Vasudevan S, Chattaraj S, Enrico A, Pasqualini FS

Langmuir · 2025 · DOI 10.1021/acs.langmuir.4c03966

Pre-print article

CALIPERS: Cell cycle-aware live imaging for phenotyping experiments and regeneration studies

Moises Di Sante, Melissa Pezzotti, Julius Zimmermann, Alessandro Enrico, Joran Deschamps, Elisa Balmas, Silvia Becca, Alessandro Reali, Alessandro Bertero, Florian Jug, Francesco S. Pasqualini

bioRxiv · 2024 · DOI 10.1101/2024.12.19.629259

Peer-reviewed article

An efficient active-stress electromechanical isogeometric shell model for muscular thin-film simulations

Torre M, Morganti S, Nitti A, de Tullio M D, Kiendl J, Pasqualini F S, Reali A

Mechanics of Materials · 2024

Editorials or commentary

When art and science collide

Pasqualini F

Biophysical Reviews · 2024 · DOI 10.1063/5.0203543

Peer-reviewed article

SEM2: Introducing mechanics in cell and tissue modeling using coarse-grained homogeneous particle dynamics

Chattaraj S, Torre M, Kalcher C, Stukowski A, Morganti S, Reali A, Pasqualini FS

APL Bioengineering · 2023 · DOI 10.1063/5.0166829

Peer-reviewed article

muSplit: image decomposition for fluorescence microscopy

Ashesh, Alexander Krull, Moises Di Sante, Francesco Silvio Pasqualini, Florian Jug

IEEE/CVF International Conference on Computer Vision · 2023 · DOI 10.1109/iccv51070.2023.01940

Review

Current progress toward isogeometric modeling of the heart biophysics

Torre M, Morganti S, Pasqualini FS, Reali A

Biophysical Reviews · 2023 · DOI 10.1063/5.0152690

Peer-reviewed article

Isogeometric mixed collocation of nearly-incompressible electromechanics in finite deformations for cardiac muscle simulations

Michele Torre, Simone Morganti, Alessandro Nitti, Marco D. de Tullio, Francesco S. Pasqualini, Alessandro Reali

Computer Methods in Applied Mechanics and Engineering · 2023 · DOI 10.1016/j.cma.2023.116055

Peer-reviewed article

Immersed isogeometric analysis based on a hybrid collocation/finite cell method

Torre M, Morganti S, Pasqualini F S, Duster A, Reali A

Computer Methods in Applied Mechanics and Engineering · 2023

Review

Organotypic and Microphysiological Human Tissue Models for Drug Discovery and Development: Current State-of-the-Art and Future Perspectives

Sonia Youhanna, Aurino M. Kemas, Lena Preiss, Yitian Zhou, Joanne X. Shen, Selgin D. Cakal, Francesco S. Pasqualini, Sravan K. Goparaju, Reza Zandi Shafagh, Johan Ulrik Lind, Carl M. Sellgren, Volker M. Lauschke

Pharmacological Reviews · 2022 · DOI 10.1124/pharmrev.120.000238

Book chapter

Emerging strategies in 3D printed tissue models for in vitro biomedical research

Christian J. Pless, Carmen Radeke, Selgin D. Cakal, Janko Kajtez, Francesco S. Pasqualini, Johan U. Lind

Bioprinting · 2022 · DOI 10.1016/b978-0-323-85430-6.00007-8

Peer-reviewed article

An efficient isogeometric collocation approach to cardiac electrophysiology

Torre M, Morganti S, Nitti A, de Tullio M D, Pasqualini F S, Reali A

Computer Methods in Applied Mechanics and Engineering · 2022

Editorials or commentary

Tackling the ERC paradox / Come affrontare il paradosso ERC

Manuela Raimondi, Francesco Pasqualini, Gianni Ciofani, Luca Biferale

Nature Italy · 2021 · DOI 10.1038/d43978-021-00140-4 / 10.1038/d43978-021-00141-3

Peer-reviewed article

A Pulsatile Flow System to Engineer Aneurysm and Atherosclerosis Mimetic Extracellular Matrix

Hosseini V, Mallone A, Mirkhani N, Noir J, Salek M, Pasqualini FS, Schuerle S, Khademhosseini A, Hoerstrup SP, Vogel V

Advanced Science · 2020 · DOI 10.1002/advs.202000173

Peer-reviewed article

Insights Into the Pathogenesis of Catecholaminergic Polymorphic Ventricular Tachycardia From Engineered Human Heart Tissue

Park SJ, Zhang D, Qi Y, Li Y, Lee KY, Bezzerides VJ, Yang P, Xia S, Kim SL, Liu X, Lu F, Pasqualini FS, Campbell PH, Geva J, Roberts AE, Kleber AG, Abrams DJ, Pu WT, Parker KK

Circulation · 2019 · DOI 10.1161/CIRCULATIONAHA.119.039711

Peer-reviewed article

A tissue-engineered scale model of the heart ventricle

Luke A MacQueen, Sean P Sheehy, Christophe O Chantre, John F Zimmerman, Francesco S Pasqualini, Xujie Liu, Josue A Goss, Patrick H Campbell, Grant M Gonzalez, Sung-Jin Park, Andrew K Capulli, John P Ferrier, T Fettah Kosar, L Mahadevan, William T Pu, Kevin Kit Parker

Nature Biomedical Engineering · 2018 · DOI 10.1038/s41551-018-0271-5

Peer-reviewed article

Traction force microscopy of engineered cardiac tissues

Francesco S. Pasqualini, A. Agarwal, O. B. O'Connor, Q. Liu, S. P. Sheehy, K. K. Parker

PLOS ONE · 2018 · DOI 10.1371/journal.pone.0194706

Peer-reviewed article

JetValve: Rapid manufacturing of biohybrid scaffolds for biomimetic heart valve replacement

Capulli AK, Emmert MY, Pasqualini FS, Kehl D, Caliskan E, Lind JU, Sheehy SP, Park SJ, Ahn S, Weber B, Goss JA, Hoerstrup SP, Parker KK

Biomaterials · 2017 · DOI 10.1016/j.biomaterials.2017.04.033

Review

Translational cardiac stem cell therapy: advancing from first-generation to next-generation cell types

Cambria E, Pasqualini FS, Wolint P, Gunter J, Steiger J, Bopp A, Hoerstrup SP, Emmert MY

npj Regenerative Medicine · 2017 · DOI 10.1038/s41536-017-0024-1

Peer-reviewed article

Safety and efficacy of cardiopoietic stem cells in the treatment of post-infarction left-ventricular dysfunction - From cardioprotection to functional repair in a translational pig infarction model

Emmert MY, Wolint P, Jakab A, Sheehy SP, Pasqualini FS, Nguyen TDL, Hilbe M, Seifert B, Weber B, Brokopp CE, Macejovska D, Caliskan E, von Eckardstein A, Schwartlander R, Vogel V, Falk V, Parker KK, Gyongyosi M, Hoerstrup SP

Biomaterials · 2017 · DOI 10.1016/j.biomaterials.2016.11.029

Peer-reviewed article

Instrumented cardiac microphysiological devices via multimaterial three-dimensional printing

Johan U Lind, Travis A Busbee, Alexander D Valentine, Francesco S Pasqualini, Hongyan Yuan, Moran Yadid, Sung-Jin Park, Arda Kotikian, Alexander P Nesmith, Patrick H Campbell, Joost J Vlassak, Jennifer A Lewis, Kevin Kit Parker

Nature Materials · 2017 · DOI 10.1038/nmat4782

Review

Organ Chips: Quality Assurance Systems in Regenerative Medicine

Francesco S. Pasqualini, Maximilian Y. Emmert, Kevin K. Parker, Simon P. Hoerstrup

Clinical Pharmacology & Therapeutics · 2016 · DOI 10.1002/cpt.527

Review

Mechanotransduction and Metabolism in Cardiomyocyte Microdomains

Pasqualini FS, Nesmith AP, Horton RE, Sheehy SP, Parker KK

BioMed Research International · 2016 · DOI 10.1155/2016/4081638

Peer-reviewed article

A human in vitro model of Duchenne muscular dystrophy muscle formation and contractility

Nesmith AP, Wagner MA, Pasqualini FS, O'Connor BB, Pincus MJ, August PR, Parker KK

Journal of Cell Biology · 2016 · DOI 10.1083/jcb.201603111

Review

Heart Valve Replacements with Regenerative Capacity

Dijkman PE, Fioretta ES, Frese L, Pasqualini FS, Hoerstrup SP

Transfusion Medicine and Hemotherapy · 2016 · DOI 10.1159/000448181

Peer-reviewed article

Phototactic guidance of a tissue-engineered soft-robotic ray

Sung-Jin Park, Mattia Gazzola, Kyung Soo Park, Shirley Park, Valentina Di Santo, Erin L Blevins, Johan U Lind, Patrick H Campbell, Stephanie Dauth, Andrew K Capulli, Francesco S Pasqualini, Seungkuk Ahn, Alexander Cho, Hongyan Yuan, Ben M Maoz, Ragu Vijaykumar, Jeong-Woo Choi, Karl Deisseroth, George V Lauder, L Mahadevan, Kevin Kit Parker

Science · 2016 · DOI 10.1126/science.aaf4292

Peer-reviewed article

Laminar ventricular myocardium on a microelectrode array-based chip

Kujala VJ, Pasqualini FS, Goss JA, Nawroth JC, Parker KK

Journal of Materials Chemistry B · 2016 · DOI 10.1039/c6tb00324a

Peer-reviewed article

Coupling primary and stem cell-derived cardiomyocytes in an in vitro model of cardiac cell therapy

Aratyn-Schaus Y, Pasqualini FS, Yuan H, McCain ML, Ye GJ, Sheehy SP, Campbell PH, Parker KK

Journal of Cell Biology · 2016 · DOI 10.1083/jcb.201508026

Peer-reviewed article

Angiotensin II Induced Cardiac Dysfunction on a Chip

Horton RE, Yadid M, McCain ML, Sheehy SP, Pasqualini FS, Park SJ, Cho A, Campbell P, Parker KK

PLOS ONE · 2016 · DOI 10.1371/journal.pone.0146415

Peer-reviewed article

Late Na(+) current and protracted electrical recovery are critical determinants of the aging myopathy

Signore S, Sorrentino A, Borghetti G, Cannata A, Meo M, Zhou Y, Kannappan R, Pasqualini F, O'Malley H, Sundman M, Tsigkas N, Zhang E, Arranto C, Mangiaracina C, Isobe K, Sena BF, Kim J, Goichberg P, Nahrendorf M, Isom LL, Leri A, Anversa P, Rota M

Nature Communications · 2015 · DOI 10.1038/ncomms9803

Peer-reviewed article

Structural phenotyping of stem cell-derived cardiomyocytes

Francesco Silvio Pasqualini, Sean Paul Sheehy, Ashutosh Agarwal, Yvonne Aratyn-Schaus, Kevin Kit Parker

Stem Cell Reports · 2015 · DOI 10.1016/j.stemcr.2015.01.020

Review

Origin of cardiomyocytes in the adult heart

Leri A, Rota M, Pasqualini FS, Goichberg P, Anversa P

Circulation Research · 2015 · DOI 10.1161/CIRCRESAHA.116.303595

Peer-reviewed article

Modeling the mitochondrial cardiomyopathy of Barth syndrome with induced pluripotent stem cell and heart-on-chip technologies

Wang G, McCain ML, Yang L, He A, Pasqualini FS, Agarwal A, Yuan H, Jiang D, Zhang D, Zangi L, Geva J, Roberts AE, Ma Q, Ding J, Chen J, Wang DZ, Li K, Wang J, Wanders RJ, Kulik W, Vaz FM, Laflamme MA, Murry CE, Chien KR, Kelley RI, Church GM, Parker KK, Pu WT

Nature Medicine · 2014 · DOI 10.1038/nm.3545

Peer-reviewed article