Author

Samuel M. D. Oliveira

Boston UniversityORCID 0000-0002-6914-5529Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Bioengineering· 1 Cell Biology· 1 Synthetic Biology· 1 Systems Biology· 1

Signature Assays, Organisms & Methods

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Organism:E. coli· 2 Approach:experimental assay· 2 Assay:bulk RNA-seq· 1 Research Focus:cell type annotation· 1 Research Focus:clustering· 1 Approach:deep learning· 1 Research Focus:differential expression· 1 Assay:fluorescence / live-cell microscopy· 1

Frequent Co-Authors

Andre Sanches RibeiroiD· 2 shared Ines S. C. BaptistaiD· 2 shared Suchintak DashiD· 2 shared Vatsala ChauhaniD· 2 shared Vinodh K. KandavalliiD· 2 shared Abhishekh GuptaiD· 1 shared Antti HäkkineniD· 1 shared Arsalan TaassobiD· 1 shared

Activity by Year

2022-2025 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 29 mutual co-author links

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2 shared papersSynthetic Biology

Andre Sanches RibeiroORCID

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Author profile →

4 papers

Recent·Most cited

Generative frame interpolation enhances tracking of biological objects in time-lapse microscopy

Swaraj Kaondal, Arsalan Taassob, Sara Jeon, S. Lee, Henrique L. Nuñez, Bukola A. Akindipe, Hyun‐Sook Lee, So Young Joo, Samuel M. D. Oliveira, Orlando Argüello‐Miranda

This paper shows that generative frame interpolation improves object tracking in time-lapse microscopy without requiring algorithm fine-tuning.

bioRxiv · Mar 23, 2025 · PreprintCell Biology

A Continuous, Low-Flow, and Multiplexing Pumping System for Microfluidics Applications

Kara A. Walp, Yash H. Patel, Woud Alsadoun, Hailey L. Gordon, Hamed Rastaghi, Samuel M. D. Oliveira

The paper introduces a low-cost, continuous microfluidic pump with multiplexing capability, validated for use in cell traps without disrupting microbial growth.

bioRxiv · Aug 16, 2024 · PreprintBioengineering

A library of reporters of the global regulators of gene expression of Escherichia coli

Suchintak Dash, Rahul Jagadeesan, Ines S. C. Baptista, Vatsala Chauhan, Vinodh K. Kandavalli, Samuel M. D. Oliveira, Andre Sanches Ribeiro

The paper develops a library of fluorescent reporters for 16 global regulators in E. coli to track their activity under various growth and stress conditions.

bioRxiv · Nov 28, 2023 · PreprintSynthetic Biology

The transcription factor network of E. coli steers global responses to shifts in RNAP concentration

Bilena L.B. Almeida, Mohamed N. M. Bahrudeen, Vatsala Chauhan, Suchintak Dash, Vinodh K. Kandavalli, Antti Häkkinen, Jason Lloyd‐Price, Cristina S.D. Palma, Ines S. C. Baptista, Abhishekh Gupta, Juha Kesseli, Éric Dufour, Olli‐Pekka Smolander, Matti Nykter, Petri Auvinen, , Andre Sanches Ribeiro

The paper examines how changes in RNA polymerase concentration affect gene expression in E. coli, finding that mid-term responses correlate with transcription factor network topology.

bioRxiv · Mar 7, 2022 · PreprintSystems Biology