Summary of Study ST002327

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 PR001491. The data can be accessed directly via it's Project DOI: 10.21228/M80M7R This work is supported by NIH grant, U2C- DK119886.

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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 IDST002327
Study TitleEffect of PARK7 gene KO on midbrain organoids
Study SummaryDJ1 KO was generated in BJsips iPSC and differentiated into midbrain organoids with the respective iPSC controls. The midbrain organoids were collected at day 40, 100 and 200 after differentiation.
Institute
Icahn School of Medicine at Mount Sinai
Last NameMorrone Parfitt
First NameGustavo
AddressOne Gustave L. Levy Place, Box 1065
Emailgustavo.parfitt@mssm.edu
Phone212-659-5993
Submit Date2022-09-06
Raw Data AvailableYes
Raw Data File Type(s)mzXML
Analysis Type DetailLC-MS
Release Date2022-11-18
Release Version1
Gustavo Morrone Parfitt Gustavo Morrone Parfitt
https://dx.doi.org/10.21228/M80M7R
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

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Combined analysis:

Analysis ID AN003796
Analysis type MS
Chromatography type HILIC
Chromatography system Dionex Ultimate 3000TM
Column Millipore(TM) ZIC-pHILIC
MS Type ESI
MS instrument type Orbitrap
MS instrument name Thermo Q Exactive HF hybrid Orbitrap
Ion Mode POSITIVE
Units intensity

MS:

MS ID:MS003538
Analysis ID:AN003796
Instrument Name:Thermo Q Exactive HF hybrid Orbitrap
Instrument Type:Orbitrap
MS Type:ESI
MS Comments:Method duration was 30 min with polarity switching data-dependent Top 5method for both positive and negative modes. Spray voltage for both positive and negative modes was 3.5kV and the capillary temperature was set to 320 ⁰C with a sheath gas rate of 35, aux gas of 10, and max spray current of 100 μA. The full MS scan for both polarities utilized 120,000 resolution with an AGC target of 3e6 and a maximum IT of 100 ms, and the scan range was from 67-1000 m/z. Tandem MS spectra for both positive and negative modes used a resolution of 15,000, AGC target of 1 e5, maximum IT of 50 ms, isolation window of 0.4 m/z, isolation offset of 0.1 m/z, fixed first mass of 50 m/z, and 3-way multiplexed normalized collision energies (nCE) of 10, 35, 80. The minimum AGC target was 1e4 with an intensity threshold of 2e5. All data were acquired in profile mode.
Ion Mode:POSITIVE
Analysis Protocol File:metabolomics_methods.pdf
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