<i>CreateTarget</i> and <i>Analyze This!</i>: new software assisting imaging mass spectrometry on Bruker Reflex IV and Ultraflex II instruments

Clerens, Stefan; Ceuppens, Ruben; Arckens, Lutgarde

doi:10.1002/rcm.2698

Cited by 28 publications

(33 citation statements)

References 30 publications

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“…The acquisition area was defined with the CreateTarget computer software [24], which generates files in a format compatible with the Bruker Reflex IV spectrometer. Thirty shots at each location were accumulated to construct each individual spectrum, with a total acquisition time of 2-9 h, depending on the size of the scanned area.…”

Section: Sample Preparation For Maldi-tof Ims and Tlc-maldimentioning

confidence: 99%

Anatomical Distribution of Lipids in Human Brain Cortex by Imaging Mass Spectrometry

Veloso

Astigarraga

Barreda-Gómez

et al. 2011

J. Am. Soc. Mass Spectrom.

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Molecular mass images of tissues will be biased if differences in the physicochemical properties of the microenvironment affect the intensity of the spectra. To address this issue, we have performedby means of MALDI-TOF mass spectrometry-imaging on slices and lipidomic analysis in extracts of frontal cortex, both from the same postmortem tissue samples of human brain. An external calibration was used to achieve a mass accuracy of 10 ppm (1σ) in the spectra of the extracts, although the final assignment was based on a comparison with previously reported species. The spectra recorded directly from tissue slices (imaging) show excellent s/n ratios, almost comparable to those obtained from the extracts. In addition, they retain the information about the anatomical distribution of the molecular species present in autopsied frozen tissue. Further comparison between the spectra from lipid extracts devoid of proteins and those recorded directly from the tissue unambiguously show that the differences in lipid composition between gray and white matter observed in the mass images are not an artifact due to microenvironmental influences of each anatomical area on the signal intensity, but real variations in the lipid composition.

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Section: Sample Preparation For Maldi-tof Ims and Tlc-maldimentioning

confidence: 99%

Anatomical Distribution of Lipids in Human Brain Cortex by Imaging Mass Spectrometry

Veloso

Astigarraga

Barreda-Gómez

et al. 2011

J. Am. Soc. Mass Spectrom.

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“…The software (along with documentation and lots of other useful information on ms imaging) is available from the "msimaging" website hosted by Markus Stoeckli (http: www.maldi-msi.org). The instrument control software "MMSIT" for Voyager series instruments, is required, "4000 Series Imaging" for the 4700/4800 instruments and "Create Target" for Bruker instruments [5]. For image processing "Biomap" is a freeware package developed by Novartis for the processing of ms imaging data and is freely available via the "msimaging" website (http//:www.maldi-msi.org).…”

Section: Instrumentation For Maldi-msimentioning

confidence: 99%

Instrumentation and software for mass spectrometry imaging—Making the most of what you've got

Trim

Djidja

Muharib

et al. 2012

Journal of Proteomics

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“…with the Bruker Reflex IV or the Ultraflex II are also compatible with the BioMap software after an additional conversion routine (available free of charge; details are described by Clerens et al 91 ). Load the IMS dataset into BioMap by choosing the .img file in ''file/import/MSI.''…”

Section: | Microprobe Maldi-ims (Right Aftermentioning

confidence: 99%

Imaging mass spectrometry at cellular length scales

et al. 2007

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Imaging mass spectrometry (IMS) allows the direct investigation of both the identity and the spatial distribution of the molecular content directly in tissue sections, single cells and many other biological surfaces. In this protocol, we present the steps required to retrieve the molecular information from tissue sections using matrix-enhanced (ME) and metal-assisted (MetA) secondary ion mass spectrometry (SIMS) as well as matrix-assisted laser desorption/ionization (MALDI) IMS. These techniques require specific sample preparation steps directed at optimal signal intensity with minimal redistribution or modification of the sample analytes. After careful sample preparation, different IMS methods offer a unique discovery tool in, for example, the investigation of (i) drug transport and uptake, (ii) biological processing steps and (iii) biomarker distributions. To extract the relevant information from the huge datasets produced by IMS, new bioinformatics approaches have been developed. The duration of the protocol is highly dependent on sample size and technique used, but on average takes approximately 5 h.

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CreateTarget and Analyze This!: new software assisting imaging mass spectrometry on Bruker Reflex IV and Ultraflex II instruments

Cited by 28 publications

References 30 publications

Anatomical Distribution of Lipids in Human Brain Cortex by Imaging Mass Spectrometry

Anatomical Distribution of Lipids in Human Brain Cortex by Imaging Mass Spectrometry

Instrumentation and software for mass spectrometry imaging—Making the most of what you've got

Imaging mass spectrometry at cellular length scales

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