Summary of Study ST002135

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 PR001352. The data can be accessed directly via it's Project DOI: 10.21228/M8ZD7C 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 IDST002135
Study TitleAlignment and Analysis of a Disparately Acquired Multi-Batch Metabolomics Study of Maternal Pregnancy Samples. (Part 2)
Study SummaryThis is an untargeted RPLC-MS metabolomics study of mother-infant pairs from the State of Michigan. Maternal plasma was collected in the first and third trimesters of gestation, as well as umbilical cord blood, with the aim of studying metabolic changes throughout pregnancy and influences on the infant's metabolome. The data is split into two experiment subsets, assayed with different H2O-methanol gradients and mass spectrometers 2-3 years apart, inducing major chromatographic and signal measurement shifts. Analysis steps consisted of disparate LC-MS alignment and data normalization, followed by differential timepoint comparisons and partial correlation network construction.
Institute
University of Michigan
DepartmentComputational Medicine and Bioinformatics
Last NameHabra
First NameHani
Address100 Washtenaw Ave., Palmer Commons Bldg. Ann Arbor, MI 48109-2218
Emailhhani@umich.edu
Phone734-615-9314
Submit Date2022-04-13
Raw Data AvailableYes
Raw Data File Type(s)d, wiff
Analysis Type DetailLC-MS
Release Date2022-05-02
Release Version1
Hani Habra Hani Habra
https://dx.doi.org/10.21228/M8ZD7C
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

Select appropriate tab below to view additional metadata details:

Project:

Project ID:PR001352
Project DOI:doi: 10.21228/M8ZD7C
Project Title:Influence of prenatal exposures to metals, BPA, and phthalates on mother and child metabolite and lipid profiles
Project Summary:The goal of the project is to examine relationships between prenatal exposures (to metals, BPA, and phthalates) and metabolite and lipid profiles using untargeted approaches in mother-infant pairs from the Michigan Mother Infant Pairs (MMIP) cohort. We are interested in differences/correlations between family samples over time, and the extent to which maternal exposures impact the lipidomes and metabolomes of both family members. Three plasma samples were analyzed from each family: two maternal samples (from first trimester and time of admission for labor and delivery) and one child sample (from cord blood). Placentas were also collected. Mothers provided detailed demographic information and clinical phenotypes were obtained, including mid-gestation fetal ultrasound.
Institute:University of Michigan
Department:Biomedical Research Core Facilities
Laboratory:Metabolomics core
Last Name:Kachman
First Name:Maureen
Address:2900 Huron Parkway, Ann Arbor, MI, 48105, USA
Email:mkachman@med.umich.edu
Phone:734-232-0842

Subject:

Subject ID:SU002220
Subject Type:Human
Subject Species:Homo sapiens
Taxonomy ID:9606
Species Group:Mammals

Factors:

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

mb_sample_id local_sample_id SampleType BATCH LIPIDOMICS_BATCH
SA205024-- - -
SA205027M3_VP_ARMII_064Delivery maternal plasma 1 1
SA205028M3_VP_ARMII_054Delivery maternal plasma 1 1
SA205029M3_VP_ARMII_063Delivery maternal plasma 1 1
SA205030M3_VP_ARMII_031Delivery maternal plasma 1 1
SA205031M3_VP_ARMII_015Delivery maternal plasma 1 1
SA205032M3_VP_ARMII_020Delivery maternal plasma 1 1
SA205033M3_VP_ARMII_033Delivery maternal plasma 1 1
SA205034M3_VP_ARMII_051Delivery maternal plasma 1 1
SA205035M3_VP_ARMII_041Delivery maternal plasma 1 1
SA205036M3_VP_ARMII_055Delivery maternal plasma 1 2
SA205037M3_VP_ARMII_056Delivery maternal plasma 1 2
SA205038M3_VP_ARMII_052Delivery maternal plasma 1 2
SA205039M3_VP_ARMII_037Delivery maternal plasma 1 2
SA205040M3_VP_ARMII_017Delivery maternal plasma 1 2
SA205041M3_VP_ARMII_035Delivery maternal plasma 1 2
SA205042M3_VP_ARMII_065Delivery maternal plasma 1 2
SA205043M3_VP_ARMII_023Delivery maternal plasma 1 2
SA205044M3_VP_ARMII_030Delivery maternal plasma 1 3
SA205045M3_VP_ARMII_039Delivery maternal plasma 1 3
SA205046M3_VP_ARMII_021Delivery maternal plasma 1 3
SA205047M3_VP_ARMII_019Delivery maternal plasma 1 3
SA205048M3_VP_ARMII_016Delivery maternal plasma 1 3
SA205049M3_VP_ARMII_049Delivery maternal plasma 1 3
SA205050M3_VP_ARMII_018Delivery maternal plasma 1 3
SA205051M3_VP_ARMII_068Delivery maternal plasma 1 3
SA205052M3_VP_ARMII_267Delivery maternal plasma 2 1
SA205053M3_VP_ARMII_087Delivery maternal plasma 2 1
SA205054M3_VP_ARMII_069Delivery maternal plasma 2 1
SA205055M3_VP_ARMII_075Delivery maternal plasma 2 1
SA205056M3_VP_ARMII_102Delivery maternal plasma 2 1
SA205057M3_VP_ARMII_100Delivery maternal plasma 2 1
SA205058M3_VP_ARMII_089Delivery maternal plasma 2 1
SA205059M3_VP_ARMII_107Delivery maternal plasma 2 2
SA205060M3_VP_ARMII_079Delivery maternal plasma 2 2
SA205061M3_VP_ARMII_078Delivery maternal plasma 2 2
SA205062M3_VP_ARMII_278Delivery maternal plasma 2 2
SA205063M3_VP_ARMII_085Delivery maternal plasma 2 2
SA205064M3_VP_ARMII_254Delivery maternal plasma 2 2
SA205065M3_VP_ARMII_140Delivery maternal plasma 2 2
SA205066M3_VP_ARMII_265Delivery maternal plasma 2 2
SA205067M3_VP_ARMII_080Delivery maternal plasma 2 3
SA205068M3_VP_ARMII_203Delivery maternal plasma 2 3
SA205069M3_VP_ARMII_243Delivery maternal plasma 2 3
SA205070M3_VP_ARMII_105Delivery maternal plasma 2 3
SA205071M3_VP_ARMII_271Delivery maternal plasma 2 3
SA205072M3_VP_ARMII_086Delivery maternal plasma 2 3
SA205073M3_VP_ARMII_081Delivery maternal plasma 2 3
SA205074M3_VP_ARMII_274Delivery maternal plasma 2 3
SA205025M3_VP_ARMII_072Delivery maternal plasma #N/A 1
SA205026M3_VP_ARMII_061Delivery maternal plasma #N/A 2
SA205081M1_VP_ARMII_051First trimester maternal plasma 1 1
SA205082M1_VP_ARMII_031First trimester maternal plasma 1 1
SA205083M1_VP_ARMII_033First trimester maternal plasma 1 1
SA205084M1_VP_ARMII_041First trimester maternal plasma 1 1
SA205085M1_VP_ARMII_020First trimester maternal plasma 1 1
SA205086M1_VP_ARMII_064First trimester maternal plasma 1 1
SA205087M1_VP_ARMII_063First trimester maternal plasma 1 1
SA205088M1_VP_ARMII_015First trimester maternal plasma 1 1
SA205089M1_VP_ARMII_054First trimester maternal plasma 1 1
SA205090M1_VP_ARMII_023First trimester maternal plasma 1 2
SA205091M1_VP_ARMII_061First trimester maternal plasma 1 2
SA205092M1_VP_ARMII_056First trimester maternal plasma 1 2
SA205093M1_VP_ARMII_065First trimester maternal plasma 1 2
SA205094M1_VP_ARMII_037First trimester maternal plasma 1 2
SA205095M1_VP_ARMII_055First trimester maternal plasma 1 2
SA205096M1_VP_ARMII_052First trimester maternal plasma 1 2
SA205097M1_VP_ARMII_068First trimester maternal plasma 1 3
SA205098M1_VP_ARMII_039First trimester maternal plasma 1 3
SA205099M1_VP_ARMII_049First trimester maternal plasma 1 3
SA205100M1_VP_ARMII_019First trimester maternal plasma 1 3
SA205101M1_VP_ARMII_030First trimester maternal plasma 1 3
SA205102M1_VP_ARMII_100First trimester maternal plasma 2 1
SA205103M1_VP_ARMII_102First trimester maternal plasma 2 1
SA205104M1_VP_ARMII_069First trimester maternal plasma 2 1
SA205105M1_VP_ARMII_089First trimester maternal plasma 2 1
SA205106M1_VP_ARMII_087First trimester maternal plasma 2 1
SA205107M1_VP_ARMII_075First trimester maternal plasma 2 1
SA205108M1_VP_ARMII_267First trimester maternal plasma 2 1
SA205109M1_VP_ARMII_085First trimester maternal plasma 2 2
SA205110M1_VP_ARMII_107First trimester maternal plasma 2 2
SA205111M1_VP_ARMII_140First trimester maternal plasma 2 2
SA205112M1_VP_ARMII_278First trimester maternal plasma 2 2
SA205113M1_VP_ARMII_265First trimester maternal plasma 2 2
SA205114M1_VP_ARMII_254First trimester maternal plasma 2 2
SA205115M1_VP_ARMII_079First trimester maternal plasma 2 2
SA205116M1_VP_ARMII_078First trimester maternal plasma 2 2
SA205117M1_VP_ARMII_081First trimester maternal plasma 2 3
SA205118M1_VP_ARMII_080First trimester maternal plasma 2 3
SA205119M1_VP_ARMII_105First trimester maternal plasma 2 3
SA205120M1_VP_ARMII_274First trimester maternal plasma 2 3
SA205121M1_VP_ARMII_243First trimester maternal plasma 2 3
SA205122M1_VP_ARMII_203First trimester maternal plasma 2 3
SA205123M1_VP_ARMII_086First trimester maternal plasma 2 3
SA205124M1_VP_ARMII_271First trimester maternal plasma 2 3
SA205075M1_VP_ARMII_072First trimester maternal plasma #N/A 1
SA205076M1_VP_ARMII_035First trimester maternal plasma #N/A 2
SA205077M1_VP_ARMII_017First trimester maternal plasma #N/A 2
SA205078M1_VP_ARMII_021First trimester maternal plasma #N/A 3
SA205079M1_VP_ARMII_018First trimester maternal plasma #N/A 3
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Collection:

Collection ID:CO002213
Collection Summary:Standard blood plasma collection protocol
Sample Type:Blood (plasma)

Treatment:

Treatment ID:TR002232
Treatment Summary:This is observational study

Sample Preparation:

Sampleprep ID:SP002226
Sampleprep Summary:Standard MRC2 untargeted metabolomics and lipidomics sample preparation protocols
Sampleprep Protocol Filename:araskind_20210615_101412_PR_SP_A004_Shotgun_Lipidomics.PDF araskind_20210611_105341_PR_SP_Untargeted_metabolomics_analysis.DOC

Combined analysis:

Analysis ID AN003493 AN003494 AN003495 AN003496
Analysis type MS MS MS MS
Chromatography type Reversed phase Reversed phase Reversed phase Reversed phase
Chromatography system Agilent 1290 Infinity II Agilent 1290 Infinity II Shimadzu Prominence UFLC Shimadzu Prominence UFLC
Column Waters Acquity BEH HSS T3 (100 x 2.1mm,1.8um) Waters Acquity BEH HSS T3 (100 x 2.1mm,1.8um) Waters Acquity BEH HSS T3 (100 x 2.1mm,1.8um) Waters Acquity BEH HSS T3 (100 x 2.1mm,1.8um)
MS Type ESI ESI ESI ESI
MS instrument type QTOF QTOF Triple TOF Triple TOF
MS instrument name Agilent 6545 QTOF Agilent 6545 QTOF ABI Sciex 5600+ TripleTOF ABI Sciex 5600+ TripleTOF
Ion Mode NEGATIVE POSITIVE NEGATIVE POSITIVE
Units Peak area Peak area Peak area, normalized Peak area, normalized

Chromatography:

Chromatography ID:CH002579
Chromatography Summary:Untargeted reverse phase negative mode
Instrument Name:Agilent 1290 Infinity II
Column Name:Waters Acquity BEH HSS T3 (100 x 2.1mm,1.8um)
Chromatography Type:Reversed phase
  
Chromatography ID:CH002580
Chromatography Summary:Untargeted reverse phase positive mode
Instrument Name:Agilent 1290 Infinity II
Column Name:Waters Acquity BEH HSS T3 (100 x 2.1mm,1.8um)
Chromatography Type:Reversed phase
  
Chromatography ID:CH002581
Chromatography Summary:Lipidomics reverse phase negative mode
Instrument Name:Shimadzu Prominence UFLC
Column Name:Waters Acquity BEH HSS T3 (100 x 2.1mm,1.8um)
Chromatography Type:Reversed phase
  
Chromatography ID:CH002582
Chromatography Summary:Lipidomics reverse phase positive mode
Instrument Name:Shimadzu Prominence UFLC
Column Name:Waters Acquity BEH HSS T3 (100 x 2.1mm,1.8um)
Chromatography Type:Reversed phase

MS:

MS ID:MS003253
Analysis ID:AN003493
Instrument Name:Agilent 6545 QTOF
Instrument Type:QTOF
MS Type:ESI
MS Comments:Acquisition method RP Neg Untargeted_2016_460ulmin_Agilent.m, Processing in Agilent Qual/MPP followed by in-house scripts
Ion Mode:NEGATIVE
  
MS ID:MS003254
Analysis ID:AN003494
Instrument Name:Agilent 6545 QTOF
Instrument Type:QTOF
MS Type:ESI
MS Comments:Acquisition method: RP Pos Untargeted_2016_Agilent_460ulmin_2mm.m, Processing in Agilent Qual/MPP followed by in-house scripts
Ion Mode:POSITIVE
  
MS ID:MS003255
Analysis ID:AN003495
Instrument Name:ABI Sciex 5600+ TripleTOF
Instrument Type:Triple TOF
MS Type:ESI
MS Comments:Acquisition method LIP_15min_MSMS_Jenny_New_20min_Negative.dam, Processing in Sciex proprietary software followed by in-house scripts
Ion Mode:NEGATIVE
  
MS ID:MS003256
Analysis ID:AN003496
Instrument Name:ABI Sciex 5600+ TripleTOF
Instrument Type:Triple TOF
MS Type:ESI
MS Comments:Acquisition method LIP_15min_MSMS_Jenny_new_20min_Positive.dam, Processing in Sciex proprietary software followed by in-house scripts
Ion Mode:POSITIVE
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