Author

Mojtaba Samoudi

University of California San Diego

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Systems Biology· 3 Synthetic Biology· 1

Signature Assays, Organisms & Methods

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Approach:statistical model· 3 Assay:bulk RNA-seq· 2 Research Focus:cell-cell communication· 2 Research Focus:gene regulatory network inference· 2 Organism:human· 2 Organism:mouse· 2 Research Focus:benchmarking· 1 Research Focus:cell type annotation· 1

Frequent Co-Authors

Caressa M. Robinson· 4 shared Nathan E. LewisiD· 4 shared Chih‐Chung Kuo· 3 shared Alexandre Rosa CamposiD· 2 shared Bjørn Gunnar Rude VoldborgiD· 2 shared Helen O. MassoniD· 2 shared Km Shams‐Ud‐DohaiD· 2 shared Linus WeißiD· 2 shared

Activity by Year

2020-2025 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 37 mutual co-author links

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4 shared papersSystems Biology

Caressa M. Robinson

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4 papers

Recent·Most cited

A reconstruction of the mammalian secretory pathway identifies mechanisms regulating antibody production

Helen O. Masson, Jasmine Tat, Pablo Di Giusto, Athanasios Antonakoudis, Isaac Shamie, Hratch Baghdassarian, Mojtaba Samoudi, Caressa M. Robinson, Chih‐Chung Kuo, Natalia Koga, Sonia Singh, Angel Gezalyan, Zerong Li, Alexia Movsessian, Anne Richelle, Nathan E. Lewis

The paper presents secRecon, a comprehensive secretory pathway reconstruction, and uses it to identify secretory differences in plasma cells and CHO cells, highlighting potential targets for improving secretion capacity.

Cell Systems · Dec 1, 2025Peer-reviewedSystems Biology

Improving Recombinant Antibody Production Using FcBAR: An In Situ Approach to Detect and Amplify Protein-Protein Interactions

Mina Ying Min Wu, Frances Rocamora, Mojtaba Samoudi, Caressa M. Robinson, Chih‐Chung Kuo, Nuša Pristovšek, Lise Marie Grav, Helene Faustrup Kildegaard, Gyun Min Lee, Alexandre Rosa Campos, Nathan E. Lewis

The paper introduces FcBAR, a method to detect protein-protein interactions in situ for recombinant proteins, and identifies factors that enhance rituximab production.

Metabolic Engineering · Nov 1, 2025Peer-reviewedSystems Biology

Inferring secretory and metabolic pathway activity from omic data with secCellFie

Helen O. Masson, Mojtaba Samoudi, Caressa M. Robinson, Chih-Chung Kuo, Linus Weiß, Km Shams‐Ud‐Doha, Alex Rosa Campos, Vijay Tejwani, Hussain Dahodwala, P Ménard, Bjørn Gunnar Rude Voldborg, Bradley Robasky, Susan T. Sharfstein, Nathan E. Lewis

The paper introduces secCellFie, a tool that infers secretory and metabolic pathway activity from omic data, demonstrating its application in immune cells, NAFLD hepatokine secretion, and antibody production in Chinese Hamster Ovary cells.

Metabolic Engineering · Jan 1, 2024Peer-reviewedSystems Biology

In situ detection of protein interactions for recombinant therapeutic enzymes

Mojtaba Samoudi, Chih‐Chung Kuo, Caressa M. Robinson, Km Shams‐Ud‐Doha, Song‐Min Schinn, Stefan Kol, Linus Weiß, Sara Petersen Bjørn, Bjørn Gunnar Rude Voldborg, Alexandre Rosa Campos, Nathan E. Lewis

The paper identifies protein-protein interactions supporting recombinant protein secretion using BioID and Bayesian modeling, finding key roles for oxidative folding enzymes in disulfide bond formation.

Biotechnology and Bioengineering · Nov 10, 2020Peer-reviewedSynthetic Biology