Summary of study ST000819

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 PR000557. The data can be accessed directly via it's Project DOI: 10.21228/M8P39J This work is supported by NIH grant, U2C- DK119886.

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Study IDST000819
Study TitleLooking for changes in lipid levels with knock out of ACADM (shACADM) (part II)
Study TypeMS analysis
Study SummaryGSC 8-11 cells (20 million) were transduced with lentivirus coding for shACADM 4, 6, or scr (control). ACADM is an enzyme responsible for the metabolism of medium chain fatty acids (C4-C12). A round of selection was performed using puromycin to ensure only cells that had been transduced survived. Knockdown of ACADM was confirmed via western blot. Pellets were collected by centrifuging cells for 10 min at max speed. The pellets were washed and each sample was split into quadruplicate.
Institute
University of Michigan
DepartmentBiomedical Research Core Facilities
LaboratoryMetabolomics core
Last NameKachman
First NameMaureen
Address6300 Brehm Tower, 1000 Wall Street, Ann Arbor, MI 48105-5714
Emailmkachman@med.umich.edu
Phone(734) 232-8175
Submit Date2017-07-14
Num Groups3
Total Subjects3
Raw Data AvailableYes
Raw Data File Type(s).d
Analysis Type DetailLC-MS
Release Date2018-02-07
Release Version1
Maureen Kachman Maureen Kachman
https://dx.doi.org/10.21228/M8P39J
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

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Project:

Project ID:PR000557
Project DOI:doi: 10.21228/M8P39J
Project Title:Changes in lipid levels with knock out of ACADM (shACADM) Lipidomics
Project Type:MS analysis
Project Summary:Looking for changes in lipid levels with knock out of ACADM
Institute:University of Michigan
Department:Molecular and Integrative Physiology (MCTP)
Laboratory:Lyssiotis Lab
Last Name:Lyssiotis
First Name:Costas
Address:Ann Arbor, MI
Email:clyssiot@umich.edu
Phone:734-615-9133

Subject:

Subject ID:SU000845
Subject Type:HUMAN
Subject Species:Homo sapiens
Taxonomy ID:9606
Species Group:Human

Factors:

Subject type: HUMAN; Subject species: Homo sapiens (Factor headings shown in green)

mb_sample_id local_sample_id Transduced with
SA045798S00021734shACADM4
SA045799S00021733shACADM4
SA045800S00021731shACADM4
SA045801S00021732shACADM4
SA045802S00021738shACADM6
SA045803S00021737shACADM6
SA045804S00021736shACADM6
SA045805S00021735shACADM6
SA045806S00021742shACADMscr
SA045807S00021740shACADMscr
SA045808S00021739shACADMscr
SA045809S00021741shACADMscr
Showing results 1 to 12 of 12

Collection:

Collection ID:CO000839
Collection Summary:-
Sample Type:Cultured cells

Treatment:

Treatment ID:TR000859
Treatment Summary:-

Sample Preparation:

Sampleprep ID:SP000852
Sampleprep Summary:-
Sampleprep Protocol Filename:A004_-_Shotgun_Lipidomics.pdf

Combined analysis:

Analysis ID AN001300 AN001301 AN001302
Analysis type MS MS MS
Chromatography type Reversed phase Reversed phase Reversed phase
Chromatography system Shimadzu CTO-20A Nexera X2 Shimadzu CTO-20A Nexera X2 Agilent
Column Waters Acquity HSS T3 (50 x 2.1mm, 1.8um) Waters Acquity HSS T3 (50 x 2.1mm, 1.8um) Waters Xbridge BEH C18 (50 x 1mm, 3.5um)
MS Type ESI ESI ESI
MS instrument type Triple TOF Triple TOF Triple quadrupole
MS instrument name ABI Sciex 5600+ TripleTOF ABI Sciex 5600+ TripleTOF Agilent 6490A QQQ
Ion Mode NEGATIVE POSITIVE POSITIVE
Units peak area normalized peak area normalized pmol/ug protein

Chromatography:

Chromatography ID:CH000910
Instrument Name:Shimadzu CTO-20A Nexera X2
Column Name:Waters Acquity HSS T3 (50 x 2.1mm, 1.8um)
Chromatography Type:Reversed phase
  
Chromatography ID:CH000911
Instrument Name:Agilent
Column Name:Waters Xbridge BEH C18 (50 x 1mm, 3.5um)
Chromatography Type:Reversed phase

MS:

MS ID:MS001193
Analysis ID:AN001300
Instrument Name:ABI Sciex 5600+ TripleTOF
Instrument Type:Triple TOF
MS Type:ESI
Ion Mode:NEGATIVE
  
MS ID:MS001194
Analysis ID:AN001301
Instrument Name:ABI Sciex 5600+ TripleTOF
Instrument Type:Triple TOF
MS Type:ESI
Ion Mode:POSITIVE
  
MS ID:MS001195
Analysis ID:AN001302
Instrument Name:Agilent 6490A QQQ
Instrument Type:Triple quadrupole
MS Type:ESI
Ion Mode:POSITIVE
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