figshare
Browse
.IMZML
v11t17-105_a1.imzML (7.33 MB)
.IMZML
v11t17-105_b1.imzML (7.28 MB)
.IBD
v11t17-105_b1.ibd (44.29 GB)
.IBD
v11t17-105_a1.ibd (44.65 GB)
.IMZML
v11t17-105_c1.imzML (7.51 MB)
.IMZML
v11l12-038-a1.imzML (6.83 MB)
.IMZML
v11l12-038-b1.imzML (7.74 MB)
.IBD
v11l12-038-a1.ibd (42.28 GB)
.IBD
v11t17-105_c1.ibd (45.73 GB)
.IMZML
v11l12-038-d1.imzML (6.78 MB)
.IMZML
v11l12-109-a1.imzML (5.36 MB)
.IBD
v11l12-038-d1.ibd (43.04 GB)
.IBD
v11l12-038-b1.ibd (47.92 GB)
.IMZML
v11l12-109-b1.imzML (6.61 MB)
.IBD
v11l12-109-a1.ibd (32.66 GB)
.IMZML
v11l12-109-c1.imzML (6.69 MB)
.IBD
v11l12-109-b1.ibd (40.25 GB)
.IMZML
v11t17-085_a1.imzML (7.21 MB)
.IBD
v11l12-109-c1.ibd (40.72 GB)
.IMZML
v11t17-085_b1.imzML (9.09 MB)
1/0
43 files

Spatial Multimodal analysis (SMA) - Mass Spectrometry Imaging (MSI)

Version 2 2023-07-04, 13:05
Version 1 2023-05-10, 08:31
dataset
posted on 2023-07-04, 13:05 authored by Patrik BjärterotPatrik Bjärterot, Anna Nilsson, Reza Shariatgorji, Per AndrénPer Andrén

The files above are MALDI-MSI (Matrix Assisted Laser Desorption Ionization - Mass Spectrometry Imaging) experiments. The dataset contains both imzML, which is the common MSI open file type, and csv, containing x, y positions in tissue as well as m/z and intensity, which is a more user friendly format. A major difference between the two types is that the imzML contains raw data, whereas the csv data is peak-picked, explaining the discrepancy in file sizes. The data contained in this dataset should be enough to recreate the MSI parts of the manuscript.


The purpose of the experiments was to demonstrate that MALDI-MSI and ST (Spatial Transcriptomics) could be done on the same tissue. MALDI-MSI was done first, and ST second, so there is no expected difference in the tissue compared to a regular MALDI-MSI run, however, the experiments where ST was run subsequent to MALDI-MSI required non-conductive glass which is not the standard in the MSI- field. To compare, experiments done on the commonly used conductive (ITO) glass slides are also contained in this dataset


For any questions about the dataset or to request access to any files not uploaded here, please contact per.andren@farmbio.uu.se

Funding

Vetenskapsrådet (Swedish Research Council) - 2022-04198

Hjärnfonden (Swedish Brain Foundation) - FO2021-0318

Spatial Omics Enable Improved Pathophysiology-based Diagnosis of Parkinson´s Disease Dementia and Dementia with Lewy Bodies

Swedish Research Council

Find out more...

History

Publisher

Science for Life Laboratory, Uppsala University

Usage metrics

    Statistical Biotechnology

    Licence

    Exports

    RefWorks
    BibTeX
    Ref. manager
    Endnote
    DataCite
    NLM
    DC