Author

A. A. Saei

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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Biochemistry· 4 Cancer Biology· 2 Bioengineering· 1 Cell Biology· 1 Immunology· 1

Signature Assays, Organisms & Methods

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Approach:experimental assay· 7 Assay:proteomics· 7 Research Focus:cell type annotation· 6 Organism:human· 6 Research Focus:differential expression· 4 Research Focus:drug response / drug discovery· 4 Research Focus:protein folding & dynamics· 3 Organism:mouse· 2

Frequent Co-Authors

M. Gaetani· 6 shared R. A. Zubarev· 6 shared A. Vegvari· 5 shared H. Gharibi· 5 shared H. Lyu· 4 shared C. Beusch· 3 shared P. Sabatier· 3 shared S. L. Lundstrom· 3 shared

Activity by Year

2018-2024 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 37 mutual co-author links

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6 shared papersBiochemistry

M. Gaetani

Mutual co-authors in cluster

Author profile →

9 papers

Recent·Most cited

Gel-Assisted Proteome Position Integral Shift (GAPPIS) Assay Returns Molecular Weight to Shotgun Proteomics and Identifies Novel Caspase 3 Substrates

Z. Meng, A. A. Saei, X. Zhang, H. Lyu, H. Gharibi, S. L. Lundstrom, A. Vegvari, M. Gaetani, R. A. Zubarev

The paper introduces GAPPIS, a method to recover molecular weight information from shotgun proteomics, identifying novel caspase 3 substrates in apoptotic cells.

bioRxiv · Feb 14, 2024 · PreprintBiochemistry

Chemical proteomics reveals that the anticancer drug everolimus affects ubiquitin-proteasome system

A. A. Lobas, A. A. Saei, H. Lyu, R. A. Zubarev, M. V. Gorshkov

This study shows that everolimus, a rapamycin analog, uniquely affects the ubiquitin-proteasome system by increasing ubiquitin levels and altering polyubiquitination patterns, distinct from its analogs.

bioRxiv · Oct 15, 2023Cancer Biology

Multifaceted proteome analysis at solubility, redox, and expression dimensions for target identification

A. A. Saei, A. Lundin, H. Lyu, H. Gharibi, H. Luo, J. Teppo, X. Zhang, M. Gaetani, A. Vegvari, R. Holmdahl, S. P. Gygi, R. A. Zubarev

The paper introduces PISA-REX, a high-throughput proteomics method combining redox, expression, and solubility analysis, and demonstrates its application in studying interferon responses in human monocytes and mice.

bioRxiv · Aug 31, 2023Biochemistry

Multi-Omics Analysis of Magnetically Levitated Plasma Biomolecules

A. A. Ashkarran, H. Gharibi, D. A. Zeki, I. Radu, F. Khalighinejad, K. Keyhanian, C. K. Abrahamsson, C. Ionete, A. A. Saei, M. Mahmoudi

The paper uses magnetic levitation to separate plasma biomolecules into ellipsoidal bands and performs multi-omics analysis to identify health-related differences in lipid and metabolite profiles across multiple sclerosis subtypes.

bioRxiv · Sep 6, 2022Bioengineering

Mapping the GALNT1 substrate landscape with versatile proteomics tools

A. A. Saei, S. L. Lundstrom, H. Lyu, H. Gharibi, W. Lu, P. Fang, X. Zhang, Z. Meng, J. Wang, M. Gaetani, A. Vegvari, S. P. Gygi, R. A. Zubarev

This study identifies hundreds of novel GALNT1 substrates using proteomics tools, revealing preferences for Thr residues and Pro at positions +3 and +4, and implicating GALNT1 in diverse biological pathways.

bioRxiv · Aug 24, 2022 · PreprintBiochemistry

Redox regulation of PTPN22 affects the severity of T cell dependent autoimmune inflammation

J. James, Y. Chen, C. Hernandez, F. Forster, M. Dagnell, Q. Cheng, A. A. Saei, H. Gharibi, G. F. Lahore, A. Astrand, R. Malhotra, B. Malissen, R. A. Zubarev, E. Arner, R. Holmdahl

This study shows that redox regulation of PTPN22 via cysteine 129 affects T cell-dependent autoimmune inflammation severity in mice.

bioRxiv · Dec 2, 2021 · PreprintImmunology

System-wide Identification and prioritization of Enzyme Substrates by Thermal Analysis (SIESTA)

A. A. Saei, C. Beusch, P. Sabatier, J. Astorga Wells, A. Chernobrovkin, S. Rodin, K. Nareoja, A.-G. Thorsell, T. Karlberg, Q. Cheng, S. L. Lundstrom, M. Gaetani, A. Vegvari, E. S. J. Arner, H. Schuler, R. Zubarev

SIESTA identifies and prioritizes enzyme substrates by detecting thermal stability changes caused by post-translational modifications, demonstrating effectiveness across multiple enzyme systems.

bioRxiv · Jan 21, 2020Biochemistry

Proteome Integral Stability Alteration assay dramatically increases throughput and sensitivity in profiling factor-induced proteome changes

M. Gaetani, P. Sabatier, A. A. Saei, C. Beusch, Z. Yang, S. Lundstrom, R. A. Zubarev

The paper introduces the PISA assay, which improves throughput and sensitivity in profiling factor-induced proteome stability changes by avoiding curve fitting and enabling parameter variation analysis.

bioRxiv · Dec 13, 2018Cancer Biology

ProTargetMiner: A proteome signature library of anticancer molecules for functional discovery

A. A. Saei, A. Chernobrovkin, P. Sabatier, B. Zhang, C. Beusch, U. Guler Tokat, M. Gaetani, A. Vegvari, R. Zubarev

ProTargetMiner provides a proteome signature library of anticancer molecules in A549 cells, revealing drug targets, co-regulation networks, and essential proteins for cellular functions.

bioRxiv · Sep 18, 2018Cell Biology