Publications
High-throughput feedback-enabled optogenetic stimulation and spectroscopy in microwell plates
by William Benman, Saachi Datta, David Gonzalez-Martinez, Gloria Lee, Juliette Hooper, Grace Qian, Gabrielle Leavitt, Lana Salloum, Gabrielle Ho, Sharvari Mhatre, Michael S. Magaraci, Michael Patterson, Sevile G. Mannickarottu, Saurabh Malani, Jose L. Avalos, Brian Y. Chow & Lukasz J. Bugaj.
This paper describes the development and testing of the optoPlateReader (oPR) which enables high throughput optical stimulation and spectroscopy in a 96-well format. This was part of the 2021 iGEM team project.
Multiscale design of cell-free biologically active architectural structures
by Gabrielle Ho, V. Kubusova, C. Irabien, V. Li, A. Weinstein, Sh. Chawla, D. Yeung, A. Mershin, K. Zolotovsky, and L. Mogas-Soldevila.
This paper, a multidisciplinary venture with Penn Engineering, Penn's Weitzman School of Design and institutes around the world, included extensive work done in our Bio-MakerSpace. It explored the possibility of combining in vitro protein expression with biopolymer mixes to create activatable structures upon rehydration.
Paper: https://www.frontiersin.org/articles/10.3389/fbioe.2023.1125156/full
Under the Hood of a Bio-MakerSpace: Automating Lab Operations
by Michael G. Patterson, Carolyne H. Godon, Dr. LeAnn Dourte Segan, and Sevile G. Mannickarottu.
This paper, presented and published in 2020 at the American Society for Engineering Education conference, discusses our Bio-MakerSpace's (Biomakerspace) novel and low-cost behind-the-scenes methods for lab operations for serving over 1000 students per year and managing over 50 unique pieces of equipment and over unique 500 supplies.
Paper: https://www.asee.org/public/conferences/172/papers/29661/view
From Course Instruction to Bio-MakerSpace: Creating a Lab Space for Independent Investigation and Innovation
by Sevile G. Mannickarottu.
This paper, presented and published in 2019 at the American Society for Engineering Education conference, discusses our lab's unique lab organization and lab program which encourages independent learning and innovation.
Paper: https://www.asee.org/public/conferences/140/papers/25721/view
An Open-Source Plate Reader
by Karol P. Szymula, Michael S. Magaraci, Michael Patterson, Andrew Clark, Sevile G. Mannickarottu, and Brian Y. Chow.
This paper, published in 2019 in Biochemistry, discusses an open-source plate reader developed through our 2018 iGEM team. This cutting edge project combines biology, chemistry, mechanical, and electrical engineering to create a phenomenal device. This paper was referenced in the journal Nature. More information and photos.
Paper: https://pubs.acs.org/doi/10.1021/acs.biochem.8b00952
Nature article: https://www.nature.com/articles/d41586-019-01590-z
Toolbox for Exploring Modular Gene Regulation in Synthetic Biology Training
by Michael S. Magaraci, Jessica G. Bermudez, Deeksha Yogish, Daniel H. Pak, Viktor Mollov, Josh Tycko, David Issadore, Sevile G. Mannickarottu, and Brian Y. Chow.
This paper, published in 2016 in ACS Synthetic Biology, discusses a state-of-the-art lab education model for synthetic biology.
Paper: https://pubs.acs.org/doi/abs/10.1021/acssynbio.6b00057
Engineering Escherichia coli for Light-Activated Cytolysis of Mammalian Cells
by Michael S. Magaraci, Avin Veerakumar, Peter Qiao, Ashwin Amurthur, Justin Y. Lee, Jordan S. Miller, Mark Goulian, and Casim A. Sarkar.
This paper, published in 2014 in ACS Synthetic Biology, discusses a novel genetic circuit developed by our 2012 iGEM team. More information