Summary of Study ST000661

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 PR000464. The data can be accessed directly via it's Project DOI: 10.21228/M8303Z This work is supported by NIH grant, U2C- DK119886.

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

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Study IDST000661
Study TitleCHOICE clinical weight loss study
Study TypeMS analysis
Study SummaryEvaluation of plasma samples from the CHOICE clinical weight loss study in which obese post menopausal breast cancer survivors lost >15% initial body weight following either a low carbohydrate or a low fat dietary pattern. These samples will be interrogated for changes in metabolic intermediates and lipid metabolites that may be indicative of changes in prognosis for long term survival following treatment for breast cancer. Samples will be subjected to LCMS and shotgun lipidomics. In parallel, plasma and mammary gland fat pad from an obese rat model for breast cancer in which rats were subjected to a parallel level of weight loss will also be interrogated using the same procedures in an effort to inform the interpretation of the clinical data.
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 Date2017-06-05
Num Groups22
Total Subjects38
Raw Data AvailableYes
Raw Data File Type(s)wiff
Analysis Type DetailLC-MS
Release Date2018-02-07
Release Version1
Maureen Kachman Maureen Kachman
https://dx.doi.org/10.21228/M8303Z
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

Select appropriate tab below to view additional metadata details:

Project:

Project ID:PR000464
Project DOI:doi: 10.21228/M8303Z
Project Title:Long term Breast Cancer Predicition Study
Project Type:MS analysis
Project Summary:Determine if weight loss and diet has an effect on breast cancer survivors.
Institute:Colorado State University
Department:Horticulture
Laboratory:McGinley Lab
Last Name:McGinley
First Name:John
Address:Fort Collins, CO
Email:john.mcginley@colostate.edu
Phone:970-491-3041

Subject:

Subject ID:SU000684
Subject Type:Human/Rat
Subject Species:Homo sapiens;Rattus norvegicus
Taxonomy ID:9606;10116
Species Group:Mammal

Factors:

Subject type: Human/Rat; Subject species: Homo sapiens;Rattus norvegicus (Factor headings shown in green)

mb_sample_id local_sample_id Sample type Sample_Source Species Study Time_Point Treatment Type
SA038058S00013412Plasma Plasma Homo sapiens CHOICE 1 Month Ornish Clinical
SA038059S00013409Plasma Plasma Homo sapiens CHOICE 1 Month Ornish Clinical
SA038060S00013406Plasma Plasma Homo sapiens CHOICE 1 Month Ornish Clinical
SA038061S00013421Plasma Plasma Homo sapiens CHOICE 1 Month Ornish Clinical
SA038062S00013418Plasma Plasma Homo sapiens CHOICE 1 Month Ornish Clinical
SA038063S00013415Plasma Plasma Homo sapiens CHOICE 1 Month Ornish Clinical
SA038064S00013403Plasma Plasma Homo sapiens CHOICE 1 Month Ornish Clinical
SA038065S00013400Plasma Plasma Homo sapiens CHOICE 1 Month Ornish Clinical
SA038066S00013397Plasma Plasma Homo sapiens CHOICE 1 Month Ornish Clinical
SA038067S00013394Plasma Plasma Homo sapiens CHOICE 1 Month Ornish Clinical
SA038068S00013427Plasma Plasma Homo sapiens CHOICE 1 Month Southbeach Clinical
SA038069S00013451Plasma Plasma Homo sapiens CHOICE 1 Month Southbeach Clinical
SA038070S00013424Plasma Plasma Homo sapiens CHOICE 1 Month Southbeach Clinical
SA038071S00013430Plasma Plasma Homo sapiens CHOICE 1 Month Southbeach Clinical
SA038072S00013442Plasma Plasma Homo sapiens CHOICE 1 Month Southbeach Clinical
SA038073S00013436Plasma Plasma Homo sapiens CHOICE 1 Month Southbeach Clinical
SA038074S00013448Plasma Plasma Homo sapiens CHOICE 1 Month Southbeach Clinical
SA038075S00013433Plasma Plasma Homo sapiens CHOICE 1 Month Southbeach Clinical
SA038076S00013445Plasma Plasma Homo sapiens CHOICE 1 Month Southbeach Clinical
SA038077S00013439Plasma Plasma Homo sapiens CHOICE 1 Month Southbeach Clinical
SA038078S00013416Plasma Plasma Homo sapiens CHOICE 6 Months Ornish Clinical
SA038079S00013401Plasma Plasma Homo sapiens CHOICE 6 Months Ornish Clinical
SA038080S00013407Plasma Plasma Homo sapiens CHOICE 6 Months Ornish Clinical
SA038081S00013404Plasma Plasma Homo sapiens CHOICE 6 Months Ornish Clinical
SA038082S00013422Plasma Plasma Homo sapiens CHOICE 6 Months Ornish Clinical
SA038083S00013410Plasma Plasma Homo sapiens CHOICE 6 Months Ornish Clinical
SA038084S00013413Plasma Plasma Homo sapiens CHOICE 6 Months Ornish Clinical
SA038085S00013419Plasma Plasma Homo sapiens CHOICE 6 Months Ornish Clinical
SA038086S00013395Plasma Plasma Homo sapiens CHOICE 6 Months Ornish Clinical
SA038087S00013398Plasma Plasma Homo sapiens CHOICE 6 Months Ornish Clinical
SA038088S00013440Plasma Plasma Homo sapiens CHOICE 6 Months Southbeach Clinical
SA038089S00013434Plasma Plasma Homo sapiens CHOICE 6 Months Southbeach Clinical
SA038090S00013443Plasma Plasma Homo sapiens CHOICE 6 Months Southbeach Clinical
SA038091S00013431Plasma Plasma Homo sapiens CHOICE 6 Months Southbeach Clinical
SA038092S00013437Plasma Plasma Homo sapiens CHOICE 6 Months Southbeach Clinical
SA038093S00013446Plasma Plasma Homo sapiens CHOICE 6 Months Southbeach Clinical
SA038094S00013425Plasma Plasma Homo sapiens CHOICE 6 Months Southbeach Clinical
SA038095S00013428Plasma Plasma Homo sapiens CHOICE 6 Months Southbeach Clinical
SA038096S00013452Plasma Plasma Homo sapiens CHOICE 6 Months Southbeach Clinical
SA038097S00013449Plasma Plasma Homo sapiens CHOICE 6 Months Southbeach Clinical
SA038098S00013393Plasma Plasma Homo sapiens CHOICE Baseline Ornish Clinical
SA038099S00013396Plasma Plasma Homo sapiens CHOICE Baseline Ornish Clinical
SA038100S00013402Plasma Plasma Homo sapiens CHOICE Baseline Ornish Clinical
SA038101S00013399Plasma Plasma Homo sapiens CHOICE Baseline Ornish Clinical
SA038102S00013408Plasma Plasma Homo sapiens CHOICE Baseline Ornish Clinical
SA038103S00013411Plasma Plasma Homo sapiens CHOICE Baseline Ornish Clinical
SA038104S00013417Plasma Plasma Homo sapiens CHOICE Baseline Ornish Clinical
SA038105S00013414Plasma Plasma Homo sapiens CHOICE Baseline Ornish Clinical
SA038106S00013420Plasma Plasma Homo sapiens CHOICE Baseline Ornish Clinical
SA038107S00013405Plasma Plasma Homo sapiens CHOICE Baseline Ornish Clinical
SA038108S00013450Plasma Plasma Homo sapiens CHOICE Baseline Southbeach Clinical
SA038109S00013438Plasma Plasma Homo sapiens CHOICE Baseline Southbeach Clinical
SA038110S00013426Plasma Plasma Homo sapiens CHOICE Baseline Southbeach Clinical
SA038111S00013423Plasma Plasma Homo sapiens CHOICE Baseline Southbeach Clinical
SA038112S00013444Plasma Plasma Homo sapiens CHOICE Baseline Southbeach Clinical
SA038113S00013429Plasma Plasma Homo sapiens CHOICE Baseline Southbeach Clinical
SA038114S00013441Plasma Plasma Homo sapiens CHOICE Baseline Southbeach Clinical
SA038115S00013432Plasma Plasma Homo sapiens CHOICE Baseline Southbeach Clinical
SA038116S00013435Plasma Plasma Homo sapiens CHOICE Baseline Southbeach Clinical
SA038117S00013447Plasma Plasma Homo sapiens CHOICE Baseline Southbeach Clinical
SA038118S00013464Plasma Plasma Rattus CSU-143 0 Days Baseline Preclinical
SA038119S00013467Plasma Plasma Rattus CSU-143 0 Days Baseline Preclinical
SA038120S00013457Plasma Plasma Rattus CSU-143 0 Days Baseline Preclinical
SA038121S00013454Plasma Plasma Rattus CSU-143 0 Days Baseline Preclinical
SA038122S00013456Plasma Plasma Rattus CSU-143 0 Days Baseline Preclinical
SA038123S00013462Plasma Plasma Rattus CSU-143 27 Days Gainer (ad lib) Preclinical
SA038124S00013465Plasma Plasma Rattus CSU-143 27 Days Loser (40% DER) Preclinical
SA038125S00013461Plasma Plasma Rattus CSU-143 29 Days Gainer (ad lib) Preclinical
SA038126S00013459Plasma Plasma Rattus CSU-143 29 Days Loser (40% DER) Preclinical
SA038127S00013463Plasma Plasma Rattus CSU-143 34 Days Gainer (ad lib) Preclinical
SA038128S00013466Plasma Plasma Rattus CSU-143 34 Days Loser (40% DER) Preclinical
SA038129S00013458Plasma Plasma Rattus CSU-143 36 Days Gainer (ad lib) Preclinical
SA038130S00013453Plasma Plasma Rattus CSU-143 36 Days Gainer (ad lib) Preclinical
SA038131S00013460Plasma Plasma Rattus CSU-143 36 Days Loser (40% DER) Preclinical
SA038132S00013455Plasma Plasma Rattus CSU-143 36 Days Loser (40% DER) Preclinical
SA038056S00016496Plasma POOLED Homo sapiens POOLED POOLED POOLED POOLED
SA038057S00016497Plasma POOLED Rattus POOLED POOLED POOLED POOLED
SA038133S00013482Tissues Mammary gland Rattus CSU-143 0 Days Baseline Preclinical
SA038134S00013471Tissues Mammary gland Rattus CSU-143 0 Days Baseline Preclinical
SA038135S00013469Tissues Mammary gland Rattus CSU-143 0 Days Baseline Preclinical
SA038136S00013472Tissues Mammary gland Rattus CSU-143 0 Days Baseline Preclinical
SA038137S00013479Tissues Mammary gland Rattus CSU-143 0 Days Baseline Preclinical
SA038138S00013477Tissues Mammary gland Rattus CSU-143 27 Days Gainer (ad lib) Preclinical
SA038139S00013480Tissues Mammary gland Rattus CSU-143 27 Days Loser (40% DER) Preclinical
SA038140S00013476Tissues Mammary gland Rattus CSU-143 29 Days Gainer (ad lib) Preclinical
SA038141S00013474Tissues Mammary gland Rattus CSU-143 29 Days Loser (40% DER) Preclinical
SA038142S00013478Tissues Mammary gland Rattus CSU-143 34 Days Gainer (ad lib) Preclinical
SA038143S00013481Tissues Mammary gland Rattus CSU-143 34 Days Loser (40% DER) Preclinical
SA038144S00013468Tissues Mammary gland Rattus CSU-143 36 Days Gainer (ad lib) Preclinical
SA038145S00013473Tissues Mammary gland Rattus CSU-143 36 Days Gainer (ad lib) Preclinical
SA038146S00013470Tissues Mammary gland Rattus CSU-143 36 Days Loser (40% DER) Preclinical
SA038147S00013475Tissues Mammary gland Rattus CSU-143 36 Days Loser (40% DER) Preclinical
SA038148S00016498Tissues POOLED Rattus POOLED POOLED POOLED POOLED
Showing results 1 to 93 of 93

Collection:

Collection ID:CO000678
Collection Summary:none
Sample Type:Blood

Treatment:

Treatment ID:TR000698
Treatment Summary:none

Sample Preparation:

Sampleprep ID:SP000691
Sampleprep Summary:none
Sampleprep Protocol Filename:A004_-_Shotgun_Lipidomics.pdf

Combined analysis:

Analysis ID AN001008 AN001009
Analysis type MS MS
Chromatography type Reversed phase Reversed phase
Chromatography system Shimadzu CTO-20A Nexera X2 Shimadzu CTO-20A Nexera X2
Column Waters Acquity HSS T3 (50 x 2.1mm,1.8um) Waters Acquity HSS T3 (50 x 2.1mm,1.8um)
MS Type ESI ESI
MS instrument type Triple TOF Triple TOF
MS instrument name ABI Sciex 5600+ TripleTOF ABI Sciex 5600+ TripleTOF
Ion Mode NEGATIVE POSITIVE
Units peak area peak area

Chromatography:

Chromatography ID:CH000724
Instrument Name:Shimadzu CTO-20A Nexera X2
Column Name:Waters Acquity HSS T3 (50 x 2.1mm,1.8um)
Column Temperature:55
Flow Rate:0.400uL/min
Solvent A:40% acetonitrile/60% water; 10 mM ammonium acetate
Solvent B:10% acetonitrile/5% water/85% isopropanol; 10 mM ammonium acetate
Chromatography Type:Reversed phase

MS:

MS ID:MS000903
Analysis ID:AN001008
Instrument Name:ABI Sciex 5600+ TripleTOF
Instrument Type:Triple TOF
MS Type:ESI
Ion Mode:NEGATIVE
Analysis Protocol File:A004_-_Shotgun_Lipidomics.pdf
  
MS ID:MS000904
Analysis ID:AN001009
Instrument Name:ABI Sciex 5600+ TripleTOF
Instrument Type:Triple TOF
MS Type:ESI
Ion Mode:POSITIVE
Analysis Protocol File:A004_-_Shotgun_Lipidomics.pdf
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