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James J. Collins Research Group at MIT - The Collins lab focuses on synthetic biology and systems biology, with an emphasis on infectious diseases and antibiotic resistance.
Multiplexed rapid antigen tests developed using multicolored nanoparticles and cross-reactive antibody pairs: Implications for pandemic preparedness. de Puig H, Bosch I, Salcedo N, Collins JJ, Hamad-Schifferli K and Gehrke L. Enhancing nutritional niche and host defenses by modifying the gut microbiome.
James J. Collins. Termeer Professor of Medical Engineering & Science jimjc [at] mit.edu . POSTDOCTORAL scholars. Featured. Caoimhe Canavan. Ph.D. Imperial College ‘23 ccanavan [at] mit.edu. Jon Chen. Ph.D. Harvard University '21 jchen [at] broadinstitute.org. Giuliano De Carluccio. Ph.D. University of Naples Federico II ‘23 gdecarl [at] mit.edu. Helena de Puig Guixe. Ph.D. MIT ‘17 hpuig [at] mit.edu. Katherine Ilia. Ph.D. MIT ‘23
Director: Prof. James J. Collins . jimjc [at] mit.edu Massachusetts Institute of Technology E25-337, 45 Carleton Street Cambridge, MA 02139. Office: 617-324-6607 Fax: 617-253-7498
Accordingly, here, we present the Biological Automated MAchine learning Tool for Explanation and Design, or BioAutoMATED, an end-to-end AutoML framework optimized for building models with nucleic acid, peptide, and glycan sequence inputs (Figure 1).
Here, we describe a screening pipeline for the discovery of non-toxic antibiotics that kill metabolically dormant bacteria. We implement a dilution-regrowth screen to identify compounds with lethality against metabolically dormant stationary-phase.
growth inhibition of a panel of human gut commensal species (left) and human skin commensal species (right) by abaucin at 0×, 1×, 10× and 20× MIC (left to right), ampicillin (A) at 128 μg ml−1, and ciprofloxacin (C) at 2 μg ml−1. Darker red indicates more growth inhibition as analyzed by OD.
Collins Lab, MIT
James J. Collins 1,2,4,5 Genetic circuits that control transgene expression in response to pre-defined transcriptional cues would enable the development of smart therapeutics.
Gaming bacterial metabolism. https://doi.org/10.1038/s41564-023-01390-2. Jacqueline A. Valeri, Aarti Krishnan & James J. Collins. Many microorganisms remain understudied due to the challenges and complexities of culturing. An integrated lab automation and machine learning platform called BacterAI could be the future.
