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SMASH Imaging: A Serial Matrix-Assisted Laser Desorption/Ionization Mass Spectrometry Strategy for High-Resolution Imaging Facilitates Dual-Polarity and MS2 Spatial Lipidomics on a Single Tissue Section.

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Paper

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The authors' code

Shell · 15 lines · 434 B · CC-BY-4.0

  1. #!/bin/bash
  3. ###
  4. # very basic compilation script to create the Splash.dll and the SplashRunner.exe in the './out' dir
  5. ###
  7. if [ ! -d "out" ]; then
  8. mkdir "out"
  9. fi
  11. # compile the library
  12. dmcs -optimize -t:library -r:System.Numerics.dll -out:out/Splash.dll -recurse:'impl/*.cs' ISplash.cs ISpectrum.cs Splash.cs
  14. # compile the runner
  15. dmcs -optimize -t:exe -out:out/SplashRunner.exe -r:out/Splash.dll SplashRunner.cs StatisticBuilder.cs

compile.sh at commit f058349, under CC-BY-4.0 · at the source

Overview

Authors: Haruki Uchino1, Hiroshi Tsugawa1,2,3, Makoto Arita1,4,5,6
ORCID iDs: Haruki Uchino, Hiroshi Tsugawa, Makoto Arita
  1. Laboratory for Metabolomics, RIKEN Center for Integrative Medical Sciences, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama, Kanagawa 230-0045, Japan
  2. Department of Biotechnology and Life Science, Tokyo University of Agriculture and Technology, 2-24-16 Nakamachi, Koganei-shi, Tokyo 184-8588, Japan
  3. RIKEN Center for Sustainable Resource Science, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama, Kanagawa 230-0045, Japan
  4. Cellular and Molecular Epigenetics Laboratory, Graduate School of Medical Life Science, Yokohama City University, Tsurumi-ku, Yokohama, Kanagawa 230-0045, Japan
  5. Division of Physiological Chemistry and Metabolism, Graduate School of Pharmaceutical Sciences, Keio University, 1-5-30 Shibakoen, Minato-ku, Tokyo 105-8512, Japan
  6. Human Biology-Microbiome-Quantum Research Center (WPI-Bio2Q), Keio University, 35 Shinanomachi, Shinjuku-ku, Tokyo 160-8582, Japan
Institutions: RIKEN Center for Integrative Medical Sciences (Japan); RIKEN Center for Sustainable Resource Science (Japan); Tokyo University of Agriculture and Technology (Japan); Keio University (Japan); Yokohama City University (Japan)
Journal: Analytical chemistry, volume 98, issue 13, pages 9540-9554
Dates: received 26 June 2025; accepted 24 February 2026; published online 26 March 2026; in print April 2026
Type: Research article · Language: English
License: CC BY-NC-ND
Identifiers: DOI 10.1021/acs.analchem.5c03738 · PMID 41887250 · PMCID PMC13063216 · OpenAlex W7140872699
Open access: hybrid, a free copy (OpenAlex)
Status: code verified (how the code is found and verified)
Categories: genetics / omics (modality), other (modality), mouse (organism)
MeSH: Lipidomics*, Lipids*, Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization*, Acetophenones, Animals, Brain, Mice (* major topic)
Topic: Mass Spectrometry Techniques and Applications (Spectroscopy, Chemistry), according to OpenAlex
Funding: Exploratory Research for Advanced Technology (JPMJER2101); National Bioscience Database Center (JPMJND2305); Japan Agency for Medical Research and Development (JP22zf0127007)
Citations: not cited yet (Europe PMC); 47 references in the paper

Abstract

The abstract is not reproduced here: the paper's license (CC BY-NC-ND) does not allow it. Read it in the paper, at the publisher or on Europe PMC.

Repository

Its files are read in the Code ↔ Paper reader above.

systemsomicslab/MsdialWorkbench

License: CC-BY-4.0
State: the link answers, verified on 30 September 2026
Evidence: files inventoried
Commit: f0583493a44e73723f53ae312e33955f62052dd7, 29 September 2026
Languages: JavaScript (84), R (2), Shell (1)
Size: 5,248 files, 87 scripts
Software Heritage: not archived
Found in: “Data Availability Statement”
Holds: README, continuous integration, documentation
Not found: license file, CITATION.cff, environment file, tests
Tools: cowplot (1 file), ggpubr (1 file), tidyverse (1 file)
Availability: 1 check, the latest on 30 September 2026: the link answers
  • 30 September 2026: the link answers
88 files
At the source: github.com/systemsomicslab/MsdialWorkbench

The paper's code and data availability statement is in the Data section.

Tracing map

Proposed by the machine: these links were found in the paper and verified at the source, without human review. The map will receive a Zenodo DOI once one of the paper's authors has validated it with their ORCID.

What the map holds:

  • 1 repository of the authors' code, each at its verified commit, with its license and how the link was found in the paper;
  • 87 scripts, each with its path and the digest of its content;
  • no match between paragraphs and code yet;
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Its JSON (tracing-map.json) is deposited on Zenodo with its DOI once the map is validated.

Data

No dataset and no data link were found in the paper.

Code and data availability statement

The paper has a code and data availability statement. Its license (CC BY-NC-ND) does not allow reproducing it here; in short, from what the harvester recognized in it:

Read it in the paper: doi.org/10.1021/acs.analchem.5c03738.

Versions

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Version 1, 30 September 2026: the first record

Recorded: type, language, journal, volume, issue, pages, dates, 3 authors, 7 MeSH terms, 3 funders, 47 references.

Cite

This paper

Uchino, H., Tsugawa, H., & Arita, M. (2026). SMASH Imaging: A Serial Matrix-Assisted Laser Desorption/Ionization Mass Spectrometry Strategy for High-Resolution Imaging Facilitates Dual-Polarity and MS2 Spatial Lipidomics on a Single Tissue Section. Analytical chemistry, 98(13), 9540-9554. https://doi.org/10.1021/acs.analchem.5c03738

BibTeX

@article{uchino2026smash,
author = {Uchino, Haruki and Tsugawa, Hiroshi and Arita, Makoto},
title = {{SMASH Imaging: A Serial Matrix-Assisted Laser Desorption/Ionization Mass Spectrometry Strategy for High-Resolution Imaging Facilitates Dual-Polarity and MS2 Spatial Lipidomics on a Single Tissue Section}},
journal = {Analytical chemistry},
year = {2026},
month = mar,
volume = {98},
number = {13},
pages = {9540--9554},
publisher = {American Chemical Society},
issn = {0003-2700},
doi = {10.1021/acs.analchem.5c03738},
url = {https://doi.org/10.1021/acs.analchem.5c03738},
pmid = {41887250},
pmcid = {PMC13063216}
}

RIS

TY - JOUR
AU - Uchino, Haruki
AU - Tsugawa, Hiroshi
AU - Arita, Makoto
TI - SMASH Imaging: A Serial Matrix-Assisted Laser Desorption/Ionization Mass Spectrometry Strategy for High-Resolution Imaging Facilitates Dual-Polarity and MS2 Spatial Lipidomics on a Single Tissue Section
T2 - Analytical chemistry
J2 - Anal Chem
PY - 2026
DA - 2026/03/26
VL - 98
IS - 13
SP - 9540
EP - 9554
SN - 0003-2700
PB - American Chemical Society
DO - 10.1021/acs.analchem.5c03738
UR - https://doi.org/10.1021/acs.analchem.5c03738
LA - en
ER -

CSL-JSON

{
"id": "10.1021/acs.analchem.5c03738",
"type": "article-journal",
"title": "SMASH Imaging: A Serial Matrix-Assisted Laser Desorption/Ionization Mass Spectrometry Strategy for High-Resolution Imaging Facilitates Dual-Polarity and MS2 Spatial Lipidomics on a Single Tissue Section",
"container-title": "Analytical chemistry",
"author": [
{
"family": "Uchino",
"given": "Haruki"
},
{
"family": "Tsugawa",
"given": "Hiroshi"
},
{
"family": "Arita",
"given": "Makoto"
}
],
"container-title-short": "Anal Chem",
"volume": "98",
"issue": "13",
"page": "9540-9554",
"DOI": "10.1021/acs.analchem.5c03738",
"PMID": "41887250",
"PMCID": "PMC13063216",
"ISSN": "0003-2700",
"publisher": "American Chemical Society",
"URL": "https://doi.org/10.1021/acs.analchem.5c03738",
"language": "en",
"issued": {
"date-parts": [
[
2026,
3,
26
]
]
}
}

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