Summary of study ST001350

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 PR000920. The data can be accessed directly via it's Project DOI: 10.21228/M8S11R 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 IDST001350
Study TitleExtraction of high-resolution Metabolomics data of the Yeast Metabolic Cycle
Study SummaryExtraction of a high resolution metabolomics dataset through the Yeast Metabolic Cycle to complete a multi-omics dataset in this model system
Institute
University of Florida
Last NameConesa
First NameAna
Address2033 Mowry Rd, Gainesville, FL 32610-3633
Emailsalvacasani@gmail.com / aconesa@ufl.edu
Phone352-273-8127
Submit Date2020-03-06
Raw Data AvailableYes
Raw Data File Type(s).d
Analysis Type DetailLC-MS
Release Date2020-12-01
Release Version1
Ana Conesa Ana Conesa
https://dx.doi.org/10.21228/M8S11R
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

Select appropriate tab below to view additional metadata details:


Project:

Project ID:PR000920
Project DOI:doi: 10.21228/M8S11R
Project Title:Development of multiomics methods for the integrative study of the Yeast Metabolic Cycle
Project Summary:Extraction of metabolomics, epigenetics and gene expression datasets in the Yeast Metabolic Cycle for the development of statistical methods for omics integration
Institute:University of Florida
Last Name:Conesa
First Name:Ana
Address:2033 Mowry Rd, Gainesville, FL 32610-3633
Email:salvacasani@gmail.com / aconesa@ufl.edu
Phone:352-273-8127

Subject:

Subject ID:SU001424
Subject Type:Yeast
Subject Species:Saccharomyces cerevisiae
Taxonomy ID:4932

Factors:

Subject type: Yeast; Subject species: Saccharomyces cerevisiae (Factor headings shown in green)

mb_sample_id local_sample_id Timepoint Replicate
SA097980Sample 1010 1
SA097981Sample 3110 2
SA097982Sample 4910 3
SA097983Sample 7310 4
SA097984Sample 9510 5
SA097985Sample 1111 1
SA097986Sample 3211 2
SA097987Sample 5011 3
SA097988Sample 7411 4
SA097989Sample 9611 5
SA097990Sample 1212 1
SA097991Sample 3312 2
SA097992Sample 5112 3
SA097993Sample 7512 4
SA097994Sample 9712 5
SA097995Sample 1313 1
SA097996Sample 3413 2
SA097997Sample 5213 3
SA097998Sample 7613 4
SA097999Sample 9813 5
SA098000Sample 1414 1
SA098001Sample 3514 2
SA098002Sample 5314 3
SA098003Sample 7714 4
SA098004Sample 9914 5
SA098005Sample 1515 1
SA098006Sample 3615 2
SA098007Sample 5415 3
SA098008Sample 7815 4
SA098009Sample 10015 5
SA098010Sample 1616 1
SA098011Sample 3716 2
SA098012Sample 5516 3
SA098013Sample 7916 4
SA098014Sample 10116 5
SA098015Sample 1717 1
SA098016Sample 3817 2
SA098017Sample 5617 3
SA098018Sample 8017 4
SA098019Sample 10217 5
SA098020Sample 1818 1
SA098021Sample 3918 2
SA098022Sample 5718 3
SA098023Sample 8118 4
SA098024Sample 10318 5
SA098025Sample 1919 1
SA098026Sample 4019 2
SA098027Sample 5819 3
SA098028Sample 8219 4
SA098029Sample 10419 5
SA098030Sample 11 1
SA098031Sample 221 2
SA098032Sample 611 3
SA098033Sample 641 4
SA098034Sample 861 5
SA098035Sample 2020 1
SA098036Sample 4120 2
SA098037Sample 5920 3
SA098038Sample 8320 4
SA098039Sample 10520 5
SA098040Sample 2121 1
SA098041Sample 4221 2
SA098042Sample 6021 3
SA098043Sample 8421 4
SA098044Sample 10621 5
SA098045Sample 22 1
SA098046Sample 232 2
SA098047Sample 622 3
SA098048Sample 652 4
SA098049Sample 872 5
SA098050Sample 33 1
SA098051Sample 243 2
SA098052Sample 633 3
SA098053Sample 663 4
SA098054Sample 883 5
SA098055Sample 44 1
SA098056Sample 254 2
SA098057Sample 434 3
SA098058Sample 674 4
SA098059Sample 894 5
SA098060Sample 55 1
SA098061Sample 265 2
SA098062Sample 445 3
SA098063Sample 685 4
SA098064Sample 905 5
SA098065Sample 66 1
SA098066Sample 276 2
SA098067Sample 456 3
SA098068Sample 696 4
SA098069Sample 916 5
SA098070Sample 77 1
SA098071Sample 287 2
SA098072Sample 467 3
SA098073Sample 707 4
SA098074Sample 927 5
SA098075Sample 88 1
SA098076Sample 298 2
SA098077Sample 478 3
SA098078Sample 718 4
SA098079Sample 938 5
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Collection:

Collection ID:CO001419
Collection Summary:Samples were collected from fermentor eppendorf bioflo 120 through different timepoints of the Yeast Metabolic Cycle. Cells were snap frozen on liquid nitrogen for metabolite extraction.
Sample Type:Yeast cells

Treatment:

Treatment ID:TR001439
Treatment Summary:Cells were not treated, this was a timecourse on stable conditions, that yeast cells use to enter an ultradian rythm, which was measured during the timecourse.

Sample Preparation:

Sampleprep ID:SP001432
Sampleprep Summary:Cell pellets were lyophilized to dryness overnight. The lyophilized pellet was homogenized in 50:50 acetonitrile/water with 0.3 % formic acid for OAs and AAs, 5% TCA for acetyl and malonyl CoA, 0.5M PCA for oxidized nucleotides and 50:50 methanol/NaOH for reduced nucleotides using the Precellys bead-based homogenizing system. Precellys tough micro-organism lysing kit (VK-05) was used to burst the yeast cells. An aliquot of homogenate for the required assay was aliquoted and immediately stored at -80oC.

Combined analysis:

Analysis ID AN002246
Analysis type MS
Chromatography type Reversed phase
Chromatography system Thermo Dionex Ultimate 3000
Column Hypercarb
MS Type ESI
MS instrument type Triple quadrupole
MS instrument name Thermo Quantiva
Ion Mode POSITIVE
Units nmoles/mg protein

Chromatography:

Chromatography ID:CH001651
Instrument Name:Thermo Dionex Ultimate 3000
Column Name:Hypercarb
Chromatography Type:Reversed phase

MS:

MS ID:MS002092
Analysis ID:AN002246
Instrument Name:Thermo Quantiva
Instrument Type:Triple quadrupole
MS Type:ESI
MS Comments:The raw data was processed using Xcalibur 3.0.
Ion Mode:POSITIVE
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