Summary of Study ST001942

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 PR001230. The data can be accessed directly via it's Project DOI: 10.21228/M8QH6V 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 IDST001942
Study TitleLipidomics of esophageal adenocarcinoma
Study SummaryLipidomics of esophageal adenocarcinoma
Institute
QIMR Berghofer Medical Research Institute
Last NameMolendijk
First NameJeffrey
AddressBuilding 181, Parkville VIC 3010 Australia
Emailjeff.molendijk@unimelb.edu.au
Phone0000000000
Submit Date2021-08-22
Raw Data AvailableYes
Raw Data File Type(s)d
Analysis Type DetailLC-MS
Release Date2021-11-19
Release Version1
Jeffrey Molendijk Jeffrey Molendijk
https://dx.doi.org/10.21228/M8QH6V
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

Select appropriate tab below to view additional metadata details:

Project:

Project ID:PR001230
Project DOI:doi: 10.21228/M8QH6V
Project Title:Lipidomics of esophageal adenocarcinoma
Project Summary:Lipidomics of esophageal adenocarcinoma
Institute:QIMR Berghofer Medical Research Institute
Last Name:Molendijk
First Name:Jeffrey
Address:Building 181, Parkville VIC 3010 Australia
Email:jeff.molendijk@unimelb.edu.au
Phone:0000000000

Subject:

Subject ID:SU002034
Subject Type:Human
Subject Species:Homo sapiens
Taxonomy ID:9606

Factors:

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

mb_sample_id local_sample_id Group
SA1841204B_f1Barretts esophagus
SA1841213B_f1Barretts esophagus
SA1841222B_f1Barretts esophagus
SA1841235B_f1Barretts esophagus
SA1841248B_f1Barretts esophagus
SA18412510B_f1Barretts esophagus
SA1841269B_f1Barretts esophagus
SA1841271B_f1Barretts esophagus
SA1841287B_f1Barretts esophagus
SA1841299B_NegBarretts esophagus
SA1841304B_NegBarretts esophagus
SA1841313B_NegBarretts esophagus
SA1841322B_NegBarretts esophagus
SA1841335B_NegBarretts esophagus
SA1841346B_NegBarretts esophagus
SA1841351B_f2Barretts esophagus
SA1841368B_NegBarretts esophagus
SA1841377B_NegBarretts esophagus
SA18413810B_NegBarretts esophagus
SA1841393B_f2Barretts esophagus
SA1841405B_a1Barretts esophagus
SA1841414B_a1Barretts esophagus
SA1841423B_a1Barretts esophagus
SA1841436B_a1Barretts esophagus
SA1841447B_a1Barretts esophagus
SA18414510B_a1Barretts esophagus
SA1841469B_a1Barretts esophagus
SA1841478B_a1Barretts esophagus
SA1841482B_a1Barretts esophagus
SA1841491B_a1Barretts esophagus
SA1841505B_f2Barretts esophagus
SA1841514B_f2Barretts esophagus
SA1841521B_NegBarretts esophagus
SA1841536B_f2Barretts esophagus
SA1841547B_f2Barretts esophagus
SA18415510B_f2Barretts esophagus
SA1841569B_f2Barretts esophagus
SA1841578B_f2Barretts esophagus
SA1841582B_f2Barretts esophagus
SA1841596B_f1Barretts esophagus
SA1841606B_PosBarretts esophagus
SA1841615B_PosBarretts esophagus
SA1841624B_PosBarretts esophagus
SA1841637B_PosBarretts esophagus
SA1841648B_PosBarretts esophagus
SA1841651B_PosBarretts esophagus
SA1841662B_PosBarretts esophagus
SA18416710B_PosBarretts esophagus
SA1841683B_PosBarretts esophagus
SA1841699B_PosBarretts esophagus
SA1841705EAC_f1Esophageal adenocarcinoma
SA1841714EAC_f1Esophageal adenocarcinoma
SA1841726EAC_f1Esophageal adenocarcinoma
SA1841737EAC_f1Esophageal adenocarcinoma
SA1841748EAC_f1Esophageal adenocarcinoma
SA1841753EAC_f1Esophageal adenocarcinoma
SA1841762EAC_f1Esophageal adenocarcinoma
SA18417710EAC_f2Esophageal adenocarcinoma
SA1841785EAC_PosEsophageal adenocarcinoma
SA1841794EAC_PosEsophageal adenocarcinoma
SA1841803EAC_PosEsophageal adenocarcinoma
SA1841819EAC_f1Esophageal adenocarcinoma
SA18418210EAC_f1Esophageal adenocarcinoma
SA1841835EAC_f2Esophageal adenocarcinoma
SA1841846EAC_f2Esophageal adenocarcinoma
SA1841854EAC_f2Esophageal adenocarcinoma
SA1841863EAC_f2Esophageal adenocarcinoma
SA1841872EAC_f2Esophageal adenocarcinoma
SA1841887EAC_f2Esophageal adenocarcinoma
SA1841896EAC_PosEsophageal adenocarcinoma
SA1841909EAC_f2Esophageal adenocarcinoma
SA1841912EAC_PosEsophageal adenocarcinoma
SA1841921EAC_PosEsophageal adenocarcinoma
SA1841938EAC_f2Esophageal adenocarcinoma
SA1841941EAC_f2Esophageal adenocarcinoma
SA1841951EAC_f1Esophageal adenocarcinoma
SA1841965EAC_NegEsophageal adenocarcinoma
SA1841976EAC_NegEsophageal adenocarcinoma
SA1841984EAC_NegEsophageal adenocarcinoma
SA1841993EAC_NegEsophageal adenocarcinoma
SA1842002EAC_NegEsophageal adenocarcinoma
SA1842017EAC_NegEsophageal adenocarcinoma
SA1842028EAC_NegEsophageal adenocarcinoma
SA1842033EAC_a1Esophageal adenocarcinoma
SA1842042EAC_a1Esophageal adenocarcinoma
SA1842059EAC_NegEsophageal adenocarcinoma
SA1842067EAC_PosEsophageal adenocarcinoma
SA1842071EAC_a1Esophageal adenocarcinoma
SA1842081EAC_NegEsophageal adenocarcinoma
SA18420910EAC_a1Esophageal adenocarcinoma
SA18421010EAC_PosEsophageal adenocarcinoma
SA1842119EAC_PosEsophageal adenocarcinoma
SA1842128EAC_PosEsophageal adenocarcinoma
SA1842139EAC_a1Esophageal adenocarcinoma
SA1842148EAC_a1Esophageal adenocarcinoma
SA1842154EAC_a1Esophageal adenocarcinoma
SA1842165EAC_a1Esophageal adenocarcinoma
SA1842176EAC_a1Esophageal adenocarcinoma
SA1842187EAC_a1Esophageal adenocarcinoma
SA18421910EAC_NegEsophageal adenocarcinoma
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Collection:

Collection ID:CO002027
Collection Summary:Patient biopsy samples were obtained from the PROBE-NET study and from Professor Andrew Barbour’s surgical oncology group (SOG), all participants gave written informed consent. Ten esophageal biopsies were selected for BE and EAC, as well as the healthy normal esophagus (NE), initially as determined by the endoscopist. Following endoscopic/surgical removal, biopsies were collected in screw cap tubes containing RNAlater and stored at 4°C during the operation, and at - 80°C for long-term storage.
Sample Type:Esophagus

Treatment:

Treatment ID:TR002046
Treatment Summary:No treatment.

Sample Preparation:

Sampleprep ID:SP002040
Sampleprep Summary:Lipids were extracted from biopsy tissues by homogenization in ice-cold methanol with a steel bead, then washed and dried under nitrogen, resuspended in methanol and 50µg/ml BHT.

Combined analysis:

Analysis ID AN003182 AN003183 AN003184 AN003185 AN003186
Analysis type MS MS MS MS MS
Chromatography type Reversed phase Reversed phase HILIC HILIC HILIC
Chromatography system Agilent 6550 Agilent 6550 Agilent 6550 Agilent 6550 Agilent 6550
Column Agilent ZORBAX RRHD Eclipse Plus C18 (50 x 2.1mm,1.8um,95Å) Agilent ZORBAX RRHD Eclipse Plus C18 (50 x 2.1mm,1.8um,95Å) Agilent HILIC Plus RRHD (100 x 2.1mm,1.8um) Agilent HILIC Plus RRHD (100 x 2.1mm,1.8um) Agilent HILIC Plus RRHD (100 x 2.1mm,1.8um)
MS Type ESI ESI ESI ESI ESI
MS instrument type QTOF QTOF Triple quadrupole Triple quadrupole Triple quadrupole
MS instrument name Agilent 6550 QTOF Agilent 6550 QTOF Agilent 6490A QQQ Agilent 6490A QQQ Agilent 6490A QQQ
Ion Mode POSITIVE NEGATIVE POSITIVE POSITIVE NEGATIVE
Units m/z_RT m/z_RT counts counts counts

Chromatography:

Chromatography ID:CH002353
Instrument Name:Agilent 6550
Column Name:Agilent ZORBAX RRHD Eclipse Plus C18 (50 x 2.1mm,1.8um,95Å)
Chromatography Type:Reversed phase
  
Chromatography ID:CH002354
Instrument Name:Agilent 6550
Column Name:Agilent HILIC Plus RRHD (100 x 2.1mm,1.8um)
Chromatography Type:HILIC

MS:

MS ID:MS002960
Analysis ID:AN003182
Instrument Name:Agilent 6550 QTOF
Instrument Type:QTOF
MS Type:ESI
MS Comments:Agilent Masshunter
Ion Mode:POSITIVE
  
MS ID:MS002961
Analysis ID:AN003183
Instrument Name:Agilent 6550 QTOF
Instrument Type:QTOF
MS Type:ESI
MS Comments:Agilent Masshunter
Ion Mode:NEGATIVE
  
MS ID:MS002962
Analysis ID:AN003184
Instrument Name:Agilent 6490A QQQ
Instrument Type:Triple quadrupole
MS Type:ESI
MS Comments:Method F1
Ion Mode:POSITIVE
  
MS ID:MS002963
Analysis ID:AN003185
Instrument Name:Agilent 6490A QQQ
Instrument Type:Triple quadrupole
MS Type:ESI
MS Comments:Method F2
Ion Mode:POSITIVE
  
MS ID:MS002964
Analysis ID:AN003186
Instrument Name:Agilent 6490A QQQ
Instrument Type:Triple quadrupole
MS Type:ESI
MS Comments:Method A1
Ion Mode:NEGATIVE
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