DOI: 10.5281/zenodo.17470425
title: Ramanomes for "Rapid and Quantitative Phage Susceptibility Test by Ramanome"

description: # Raw Raman Spectral Dataset for "Rapid and Quantitative Phage Susceptibility Test by Ramanome"

## Brief DescriptionThis dataset comprises the complete set of raw ramanomes used in the research paper "Rapid and Quantitative Phage Susceptibility Test by Ramanome". The data were acquired from a diverse collection of phage-bacteria co-incubation systems, encompassing multiple bacterial species and their corresponding lytic phages. All spectra are provided in their raw form, prior to any preprocessing, to serve as a foundational resource for the development of spectral analysis methods and reproducibility of the study.

## Detailed Description### Research ContextThis data supports a ramanone-based approach for rapid phage susceptibility testing (PST) . The raw spectra capture the biochemical changes in bacterial cells upon exposure to lytic phages, enabling quantitative and rapid assessment of phage susceptibility.

### Data Content- **Data Type:** Raw, unprocessed Raman spectra.- **Biological Samples:** The dataset includes spectra from:  - **Bacteria:** *Escherichia coli* (strains: ATCC 11303, ATCC 25922, DH5α), *Salmonella enterica* (Sal2, Sal8, Sal28), *Pseudomonas aeruginosa* (Pae1, Pae5, Pae307), and *Klebsiella pneumoniae* (Kpn6, Kpn25, Kpn30).  - **Phages:** Lytic phages targeting the above hosts, including T1, T4, and a panel of clinical phages (Ecp2, Ecp5, etc., Salp6, Pap12, Kpnp4).  - **Experimental Groups:** Spectra from phage-bacteria co-incubations, as well as uninfected bacterial controls.- **Data Volume:** Approximately 60 spectra were acquired per sample, amounting to a total of **[Please fill in the total number]** spectra across all experimental conditions and replicates.

### Methods- **Instrument:** Confocal Raman microscope (RAMS, Qingdao Single-Cell Biotechnology Co., Ltd., China).- **Acquisition Parameters:**  - Laser Wavelength: 532 nm  - Grating: 1200 lines/mm  - Objective: 100× (NA = 1.25; Olympus, Japan)  - Laser Power: 30 mW at the sample  - Integration Time: 1 second per spectrum  - Spectral Range: 400 – 3500 cm⁻¹- **Data Preprocessing (as performed in the associated paper):** The published results were obtained after baseline correction, Savitzky-Golay smoothing, and peak area normalization using the RamEx package (v1.0.0). This dataset contains the *raw* data before these steps.

### File Structure and Format- **File Format:** `.txt` files.- **Naming Convention:** Files are named to reflect the experimental metadata (e.g., `Bacteria_Phage_MOI=0_0min_batch_cell (Spectrum1).txt`).- **File Content:** Each file is a two-column tab-delimited text file:  - Column 1: Raman Shift (cm⁻¹)  - Column 2: Intensity (Arbitrary Units, Counts)

### Usage Notes- This raw dataset is ideal for:  - Reproducing the analysis from the associated publication.  - Developing and benchmarking new preprocessing algorithms for Raman spectroscopy.  - Training machine learning models for phage susceptibility prediction.  - Comparative metabolic studies of phage-host interactions.- Users are advised to perform standard preprocessing (cosmic ray removal, baseline correction, normalization) before analysis.

### Related PublicationThese data are directly linked to the research article: **"Rapid and Quantitative Phage Susceptibility Test by Ramanome"**. Please cite both this dataset and the article when using this data.