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About RamanProSeq

Objective

RamanProSeq aims to develop a label-free optical single-molecule protein sequencing technology capable of reading protein primary sequence at single-amino-acid resolution with high accuracy. The project will be based on the partners' approaches: ultrafast Raman spectroscopy with 1 microsecond time resolution[1] and plasmonic nanopore-enhanced Raman sensors that have demonstrated single-molecule identification of 20 proteogenic amino acids[2], their post-translational modifications[3,4] and discrimination of single amino acid residues within single peptides[5]. The proposed technology consists of 5 work packages (WPs) below. If successfully achieved, the RamanProSeq will revolutionize the field of proteomics towards personalized medicine and early diagnosis of diseases.

WP1

Plasmonic nanopore fabrication

WP2

Nanopore surface engineering

WP3

Ultrafast Raman detection

WP4

Automatic protein manipulation

WP5

Computational nanopore engineering

WP6

Peptide basecalling algorithm

Reference

# Reference Citation DOI Link
[1] Khozeymeh Sarbishe, Foroogh, et al. "High‐Speed Raman Readout of Single Polypeptides via Plasmonic Nanopores." Advanced Materials 37.39 (2025): 2504436. 10.1002/adma.202504436
[2] Zhao, Yingqi, et al., Label-Free Optical Analysis of Biomolecules in Solid-State Nanopores: Toward Single-Molecule Protein Sequencing, ACS Photonics, 2022, 9 (3), 730-742. 10.1021/acsphotonics.1c01825
[3] Zhao, Yingqi, et al. "Single-Molecule SERS Discrimination of Proline from Hydroxyproline Assisted by a Deep Learning Model." Nano Letters 25.18 (2025): 7499-7506. 10.1021/acs.nanolett.5c01177
[4] Yaltaye, Mulusew W., et al. "Single-Molecule SERS Detection of Phosphorylation in Serine and Tyrosine Using Deep Learning-Assisted Plasmonic Nanopore." The Journal of Physical Chemistry Letters 16.33 (2025): 8418-8426. 10.1021/acs.jpclett.5c01753
[5] J.A. Huang* et al., Multiplex characterization of single amino acid residue in polypeptide by single SERS hot spot, Angewandte Chemie International Edition, 59, 11424-11432 (2020). 10.1002/anie.202000489