Summary of Study ST001857

This data is available at the NIH Common Fund's National Metabolomics Data Repository (NMDR) website, the Metabolomics Workbench, https://www.metabolomicsworkbench.org, where it has been assigned Project ID PR001171. The data can be accessed directly via it's Project DOI: 10.21228/M8BM4Q This work is supported by NIH grant, U2C- DK119886.

See: https://www.metabolomicsworkbench.org/about/howtocite.php

This study contains a large results data set and is not available in the mwTab file. It is only available for download via FTP as data file(s) here.

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Study ID	ST001857
Study Title	Peak Learning of Mass Spectrometry Imaging Data Using Artificial Neural Networks (Prostate tissue)
Study Summary	The human prostate tissue sample was analyzed by 2D MALDI FT ICR MSI. For detailed information we refer to the msiPL manuscript by Abdelmoula et al.
Institute	Brigham and Women's Hospital
Last Name	Abdelmoula
First Name	Walid
Address	60 Fenwood RD, Boston, MA
Email	wahassan@bwh.harvard.edu
Phone	8572149765
Submit Date	2021-06-20
Publications	https://www.nature.com/articles/s41467-021-25744-8
Raw Data Available	Yes
Raw Data File Type(s)	h5
Analysis Type Detail	MALDI-MS
Release Date	2021-07-18
Release Version	1

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Sample Preparation:

Sampleprep ID:	SP001940
Sampleprep Summary:	As stated in the msiPL paper: For the Prostate tissue: Briefly, 12 µm thickness prostate sample diagnosed with a Gleason score of (3+4)=7 were mounted on a microscopy glass slide and coated with CHCA (5 mg/mL in 70/30 methanol/water with 0.1% trifluoroacetic acid V/V) using an automated sprayer (TM-Sprayer, HTX Imaging, Carrboro, NC). The analysis of the samples was performed on a 9.4 Tesla SolariX XR FT ICR mass spectrometer (Bruker Daltonics, Billerica, MA) using the MALDI source in positive ion mode in the mass range between 250-1000 m/z, with a spatial resolution of 120 µm. For the PDX GBM mouse brain dataset: The intracranial tumor belonging to a PDX model of GBM12 (PDX National Resource, Mayo Clinic), was analyzed by MALDI FT ICR MSI using a 9.4 Tesla SolariX mass spectrometer (Bruker Daltonics, Billerica, MA), using continuous accumulation of selected ions in the mass range between 380-620 m/z. The indium tin oxide (ITO)-coated slide with 12 µm thickness tissue sections , was coated with DHB (160 mg/mL in a 70/30 v/v solution of methanol/0.2% TFA), according to Randall et al2. The 3D MSI dataset was collected from 4 tissue sections with an inter-slice distance of 160 µm. Internal online calibration was performed using heme m/z 616.1776 during data acquisition.

Sampleprep ID:

SP001940

Sampleprep Summary:

As stated in the msiPL paper: For the Prostate tissue: Briefly, 12 µm thickness prostate sample diagnosed with a Gleason score of (3+4)=7 were mounted on a microscopy glass slide and coated with CHCA (5 mg/mL in 70/30 methanol/water with 0.1% trifluoroacetic acid V/V) using an automated sprayer (TM-Sprayer, HTX Imaging, Carrboro, NC). The analysis of the samples was performed on a 9.4 Tesla SolariX XR FT ICR mass spectrometer (Bruker Daltonics, Billerica, MA) using the MALDI source in positive ion mode in the mass range between 250-1000 m/z, with a spatial resolution of 120 µm. For the PDX GBM mouse brain dataset: The intracranial tumor belonging to a PDX model of GBM12 (PDX National Resource, Mayo Clinic), was analyzed by MALDI FT ICR MSI using a 9.4 Tesla SolariX mass spectrometer (Bruker Daltonics, Billerica, MA), using continuous accumulation of selected ions in the mass range between 380-620 m/z. The indium tin oxide (ITO)-coated slide with 12 µm thickness tissue sections , was coated with DHB (160 mg/mL in a 70/30 v/v solution of methanol/0.2% TFA), according to Randall et al2. The 3D MSI dataset was collected from 4 tissue sections with an inter-slice distance of 160 µm. Internal online calibration was performed using heme m/z 616.1776 during data acquisition.