4.7 Article

Accessible and reproducible mass spectrometry imaging data analysis in Galaxy

Related references

Note: Only part of the references are listed.
Article Multidisciplinary Sciences

Mapping Natural Dyes in Archeological Textiles by Imaging Mass Spectrometry

Annemarie Elisabeth Kramell et al.

SCIENTIFIC REPORTS (2019)

Article Biology

Accessible and reproducible mass spectrometry imaging data analysis in Galaxy

Melanie Christine Foell et al.

GIGASCIENCE (2019)

Article Biochemistry & Molecular Biology

UniProt: a worldwide hub of protein knowledge

Alex Bateman et al.

NUCLEIC ACIDS RESEARCH (2019)

Article Biochemical Research Methods

Site-to-Site Reproducibility and Spatial Resolution in MALDI-MSI of Peptides from Formalin-Fixed Paraffin-Embedded Samples

Alice Ly et al.

PROTEOMICS CLINICAL APPLICATIONS (2019)

Article Biology

PhenoMeNal: processing and analysis of metabolomics data in the cloud

Kristian Peters et al.

GIGASCIENCE (2019)

Article Biochemical Research Methods

Round robin study of formalin-fixed paraffin-embedded tissues in mass spectrometry imaging

Achim Buck et al.

ANALYTICAL AND BIOANALYTICAL CHEMISTRY (2018)

Article Biochemical Research Methods

Single-Cell Mass Spectrometry Reveals Changes in Lipid and Metabolite Expression in RAW 264.7 Cells upon Lipopolysaccharide Stimulation

Bo Yang et al.

JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY (2018)

Letter Biochemical Research Methods

Bioconda: sustainable and comprehensive software distribution for the life sciences

Bjoern Gruening et al.

NATURE METHODS (2018)

Article Biochemistry & Molecular Biology

The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2018 update

Enis Afgan et al.

NUCLEIC ACIDS RESEARCH (2018)

Editorial Material Biochemistry & Molecular Biology

Practical Computational Reproducibility in the Life Sciences

Bjoern Gruening et al.

CELL SYSTEMS (2018)

Article Biochemistry & Molecular Biology

Community-Driven Data Analysis Training for Biology

Berenice Batut et al.

CELL SYSTEMS (2018)

Article Multidisciplinary Sciences

Raw N-glycan mass spectrometry imaging data on formalin-fixed mouse kidney

Ove J. R. Gustafsson et al.

DATA IN BRIEF (2018)

Review Toxicology

Imaging mass spectrometry in drug development and toxicology

Oskar Karlsson et al.

ARCHIVES OF TOXICOLOGY (2017)

Article Biotechnology & Applied Microbiology

Workflows for microscopy image analysis and cellular phenotyping

Thomas Wollmann et al.

JOURNAL OF BIOTECHNOLOGY (2017)

Article Biochemical Research Methods

Jupyter and Galaxy: Easing entry barriers into complex data analyses for biomedical researchers

Bjoern A. Gruening et al.

PLOS COMPUTATIONAL BIOLOGY (2017)

Article Biochemical Research Methods

BioContainers: an open-source and community-driven framework for software standardization

Felipe da Veiga Leprevost et al.

BIOINFORMATICS (2017)

Article Biochemical Research Methods

rMSI: an R package for MS imaging data handling and visualization

Pere Rafols et al.

BIOINFORMATICS (2017)

Article Biochemistry & Molecular Biology

Scores for standardization of on-tissue digestion of formalin-fixed paraffin-embedded tissue in MALDI-MS imaging

Katrin Erich et al.

BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS (2017)

Article Biochemistry & Molecular Biology

2016 update of the PRIDE database and its related tools

Juan Antonio Vizcaino et al.

NUCLEIC ACIDS RESEARCH (2016)

Article Medicine, Legal

Anti-theft device staining on banknotes detected by mass spectrometry imaging

Deleon Nascimento Correa et al.

FORENSIC SCIENCE INTERNATIONAL (2016)

Article Multidisciplinary Sciences

Assessment of pathological response to therapy using lipid mass spectrometry imaging

Nathan Heath Patterson et al.

SCIENTIFIC REPORTS (2016)

Article Multidisciplinary Sciences

Comment: The FAIR Guiding Principles for scientific data management and stewardship

Mark D. Wilkinson et al.

SCIENTIFIC DATA (2016)

Article Biochemical Research Methods

MSI.R scripts reveal volatile and semi-volatile features in low-temperature plasma mass spectrometry imaging (LTP-MSI) of chilli (Capsicum annuum)

Roberto Gamboa-Becerra et al.

ANALYTICAL AND BIOANALYTICAL CHEMISTRY (2015)

Article Biochemical Research Methods

Mass spectrometry imaging of biological tissue: an approach for multicenter studies

Andreas Roempp et al.

ANALYTICAL AND BIOANALYTICAL CHEMISTRY (2015)

Article Chemistry, Analytical

Forensic Mass Spectrometry

William D. Hoffmann et al.

ANNUAL REVIEW OF ANALYTICAL CHEMISTRY, VOL 8 (2015)

Article Biochemical Research Methods

Cardinal: an R package for statistical analysis of mass spectrometry-based imaging experiments

Kyle D. Bemis et al.

BIOINFORMATICS (2015)

Letter Biotechnology & Applied Microbiology

Multi-omic data analysis using Galaxy

Jorrit Boekel et al.

NATURE BIOTECHNOLOGY (2015)

Article Biochemical Research Methods

MALDI imaging mass spectrometry of N-linked glycans on formalin-fixed paraffin-embedded murine kidney

Ove J. R. Gustafsson et al.

ANALYTICAL AND BIOANALYTICAL CHEMISTRY (2015)

Article Biochemical Research Methods

Discussion point: reporting guidelines for mass spectrometry imaging

Liam A. McDonnell et al.

ANALYTICAL AND BIOANALYTICAL CHEMISTRY (2015)

Article Biochemical Research Methods

Workflow4Metabolomics: a collaborative research infrastructure for computational metabolomics

Franck Giacomoni et al.

BIOINFORMATICS (2015)

Article Biochemical Research Methods

Flexible and Accessible Workflows for Improved Proteogenomic Analysis Using the Galaxy Framework

Pratik D. Jagtap et al.

JOURNAL OF PROTEOME RESEARCH (2014)

Review Biochemical Research Methods

MALDI imaging mass spectrometry: Spatial molecular analysis to enable a new age of discovery

Megan M. Gessel et al.

JOURNAL OF PROTEOMICS (2014)

Article Medicine, Legal

Direct detection of blood in fingermarks by MALDI MS profiling and Imaging

R. Bradshaw et al.

SCIENCE & JUSTICE (2014)

Article Biotechnology & Applied Microbiology

Dissemination of scientific software with Galaxy ToolShed

Daniel Blankenberg et al.

GENOME BIOLOGY (2014)

Article Multidisciplinary Sciences

scikit-image: image processing in Python

Stefan van der Walt et al.

PEERJ (2014)

Article Biochemical Research Methods

MALDIquant: a versatile R package for the analysis of mass spectrometry data

Sebastian Gibb et al.

BIOINFORMATICS (2012)

Article Biochemical Research Methods

imzML - A common data format for the flexible exchange and processing of mass spectrometry imaging data

Thorsten Schramm et al.

JOURNAL OF PROTEOMICS (2012)

Article Biochemical Research Methods

Efficient spatial segmentation of large imaging mass spectrometry datasets with spatially aware clustering

Theodore Alexandrov et al.

BIOINFORMATICS (2011)

Article Biotechnology & Applied Microbiology

The minimum information about a proteomics experiment (MIAPE)

Chris F. Taylor et al.

NATURE BIOTECHNOLOGY (2007)

Article Biochemistry & Molecular Biology

LMSD: LIPID MAPS structure database

Manish Sud et al.

NUCLEIC ACIDS RESEARCH (2007)