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Publications

Publications from our faculty. In order to find a specific publication, use the search box below to search by author, title, journal or date.

June 21, 2023
Cell Systems
BioAutoMATED: An end-to-end automated machine learning tool for explanation and design of biological sequences

Jacqueline A. Valeri, Luis R. Soenksen, Katherine M. Collins, Pradeep Ramesh, George Cai, Rani Powers, Nicolaas M. Angenent-Mari, Diogo M. Camacho, Felix Wong, Timothy K. Lu, James J. Collins
April 25, 2023
Advanced Materials
Localized Nanoparticle-Mediated Delivery of miR-29b Normalizes the Dysregulation of Bone Homeostasis Caused by Osteosarcoma whilst Simultaneously Inhibiting Tumor Growth

Fiona E. Freeman, Pere Dosta, Lianne C. Shanley, Natalia Ramirez Tamez, Cristobal J. Riojas Javelly, Olwyn R. Mahon, Daniel J. Kelly, Natalie Artzi
June 12, 2023
ACS Biomaterials Science & Engineering
Mucoadhesive Ionic Liquid Gel Patches for Oral Delivery

Kevin Peng, Yujie Shi, Anthony LaBarbiera, Samir Mitragotri
June 13, 2023
Advanced Materials
Mechanoresponsive drug release from a flexible, tissue-adherent, hybrid hydrogel actuator

Keegan Mendez, William Whyte, Benjamin R. Freedman, Sandra E. Rothenbucher, Yiling Fan, Manisha Singh, Juan C. Cruz, Claudia E. Varela, Jianyu Li, David J. Mooney, Ellen T. Roche
June 14, 2023
Journal of Orthopaedic Research
Aging and Injury Affect Nuclear Shape Heterogeneity in Tendon

Yann Tinguely, Vivian Shi, Franka Klatte-Schulz, Georg N Duda, Benjamin R Freedman, David J Mooney
February 1, 2023
Science Translational Medicine
Restoring arm function with a soft robotic wearable for individuals with amyotrophic lateral sclerosis

TOMMASO PROIETTI, CIARAN O’NEILL, LUCAS GEREZ, TAZZY COLE, SARAH MENDELOWITZ, KRISTIN NUCKOLS, CAMERON HOHIMER , DAVID LIN, SABRINA PAGANONI, AND CONOR WALSH
March 17, 2023
IEEE Transactions on Medical Robotics and Bionics
In-Situ Measurement of Multi-Axis Torques Applied by Wearable Soft Robots for Shoulder Assistance

C. M. McCann, C. J. Hohimer, C. T. O’Neill, H. T. Young, K. Bertoldi, and C. J. Walsh
May 3, 2023
Angewandte Chemistry International Edition
Controlled Continuous Evolution of Enzymatic Activity Screened at Ultrahigh Throughput Using Drop-Based Microfluidics

R. G. Rosenthal, X. Diana Zhang, K. Ilić Đurđić, J. J. Collins, D. A. Weitz
June 2, 2023
Nature Microbiology
Gaming bacterial metabolism

Jacqueline A. Valeri, Aarti Krishnan & James J. Collins
June 7, 2023
Matter
On-demand heart valve manufacturing using focused rotary jet spinning

Sarah E. Motta Michael M. Peters Christophe O. Chantre Huibin Chang Luca Cera Qihan Liu Elizabeth M. Cordoves Emanuela S. Fioretta Polina Zaytseva Nikola Cesarovic Maximilian Y. Emmert Simon P. Hoerstrup Kevin Kit Parker
June 6, 2023
Gastro Help Advances
Epithelial-Stromal Interactions in Barrett’s Esophagus Modeled in Human Organ Chips

E. Shimshoni, G.E. Merry, Z.D. Milot, C.Y. Oh, V. Horvath, R.A. Gould, J.A. Caruso, C. Chen-Tanyolac, P. Gascard, V. Sangwan, J. Bérubé, S.D. Bailey, S. Hall, M.D. Stachler, L. Ferri, T.D. Tlsty, D.E. Ingber
May 25, 2023
Nature Chemical Biology
Deep learning-guided discovery of an antibiotic targeting Acinetobacter baumannii

Gary Liu, Denise B. Catacutan, Khushi Rathod, Kyle Swanson, Wengong Jin, Jody C. Mohammed, Anush Chiappino-Pepe, Saad A. Syed, Meghan Fragis, Kenneth Rachwalski, Jakob Magolan, Michael G. Surette, Brian K. Coombes, Tommi Jaakkola, Regina Barzilay, James J. Collins & Jonathan M. Stokes
May 30, 2023
eLife
Improved isolation of extracellular vesicles by removal of both free proteins and lipoproteins

Dmitry Ter-Ovanesyan, Tal Gilboa, Bogdan Budnik, Adele Nikitina, Sara Whiteman, Roey Lazarovits, Wendy Trieu, David Kalish, George M Church, David R Walt
May 19, 2023
Animal Cognition
Bioelectric networks: the cognitive glue enabling evolutionary scaling from physiology to mind

Michael Levin
April 13, 2023
Bioengineering & Translational Medicine
A polymer-based systemic hemostat for managing uncontrolled bleeding

Yongsheng Gao, Mayumi Ikeda-Imafuku, Zongmin Zhao, Maithili Joshi, Samir Mitragotri
December 22, 2022
Bioengineering & Translational Medicine
Hydrogel viscoelasticity modulates migration and fusion of mesenchymal stem cell spheroids

David T. Wu, Mani Diba, Stephanie Yang, Benjamin R. Freedman, Alberto Elosegui-Artola, David J. Mooney
May 19, 2023
Biosystems
Regulative development as a model for origin of life and artificial life studies

Chris Fields, Michael Levin
April 26, 2023
Patterns
Cellular signaling pathways as plastic, proto-cognitive systems: Implications for biomedicine

Juanita Mathews, Alan Jaelyn Chang, Liam Devlin, Michael Levin
May 17, 2023
Science Advances
Breakthrough treatments for accelerated wound healing

Benjamin R Freedman, Charles Hwang, Simon Talbot, Brian Hibler, Simon Matoori, David J Mooney
May 4, 2023
Nature Aging
Discovering small-molecule senolytics with deep neural networks

Felix Wong, Satotaka Omori, Nina M. Donghia, Erica J. Zheng & James J. Collins