Summary of Study ST000583

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 PR000426. The data can be accessed directly via it's Project DOI: 10.21228/M80892 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 IDST000583
Study TitleThe Metabolomics of Oral Biofilms exposed to Arginine and Fluoride
Study SummaryThe study aims to use global metabolomics to investigate: (1) the metabolic profile of supragingival dental plaque from adults with different caries-status and from specific healthy and carious tooth-sites; and (2) the metabolic changes occurring in response to the use of the arginine or fluoride toothpastes for 12 weeks.
Institute
University of Florida
DepartmentSECIM
LaboratoryNascimento/Garrett
Last NameNascimento
First NameMarcelle
Address1395 Center Drive, Room D9-6, PO Box 100415, Gainesville, FL 32610-0415
Emailmnascimento@dental.ufl.edu
Phone3522735858
Submit Date2017-01-12
Num Groups1
Total Subjects61
Raw Data AvailableYes
Raw Data File Type(s)mzXML
Analysis Type DetailLC-MS
Release Date2018-02-07
Release Version1
Marcelle Nascimento Marcelle Nascimento
https://dx.doi.org/10.21228/M80892
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

Select appropriate tab below to view additional metadata details:

Project:

Project ID:PR000426
Project DOI:doi: 10.21228/M80892
Project Title:The Metabolomics of Oral Biofilms exposed to Arginine and Fluoride
Project Type:Cariology, Oral Microbiology
Project Summary:The study aims to use global metabolomics to investigate: (1) the metabolic profile of supragingival dental plaque from adults with different caries-status and from specific healthy and carious tooth-sites; and (2) the metabolic changes occurring in response to the use of the arginine or fluoride toothpastes for 12 weeks.
Institute:University of Florida
Department:Restorative Dental Sciences
Laboratory:Nascimento
Last Name:Nascimento
First Name:Marcelle
Address:1395 Center Drive, Room D9-6, PO Box 100415, Gainesville, FL 32610-0415
Email:mnascimento@dental.ufl.edu
Phone:3522735858
Funding Source:Colgate Palmolive

Subject:

Subject ID:SU000606
Subject Type:Human
Subject Species:Homo sapiens
Taxonomy ID:9606
Genotype Strain:Contains oral bacteria species
Age Or Age Range:18-65 years
Gender:F/M
Human Race:Various
Human Ethnicity:Various
Human Lifestyle Factors:Various
Human Medications:None
Human Prescription Otc:None
Human Smoking Status:None
Human Alcohol Drug Use:None
Human Nutrition:Various
Human Inclusion Criteria:Age 18 to 65 years, caries-free or caries-actie, no systemic disease
Species Group:Mammals

Factors:

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

mb_sample_id local_sample_id caries status time
SA030797G10_6caries-active 12-weeks
SA030798G14_9caries-active 12-weeks
SA030799G14_7caries-active 12-weeks
SA030800G12_6caries-active 12-weeks
SA030801G10_7caries-active 12-weeks
SA030802G14_10caries-active 12-weeks
SA030803G14_6caries-active 12-weeks
SA030804G14_8caries-active 12-weeks
SA030805G16_7caries-active 12-weeks
SA030806G16_8caries-active 12-weeks
SA030807G16_6caries-active 12-weeks
SA030808G13_8caries-active baseline
SA030809G13_9caries-active baseline
SA030810G11_6caries-active baseline
SA030811G13_6caries-active baseline
SA030812G13_7caries-active baseline
SA030813G15_8caries-active baseline
SA030814G15_7caries-active baseline
SA030815G15_6caries-active baseline
SA030816G9_7caries-active baseline
SA030817G9_6caries-active baseline
SA030818G8_7caries-free 12-weeks
SA030819G8_10caries-free 12-weeks
SA030820G8_9caries-free 12-weeks
SA030821G8_8caries-free 12-weeks
SA030822G6_10caries-free 12-weeks
SA030823G8_6caries-free 12-weeks
SA030824G6_6caries-free 12-weeks
SA030825G4_7caries-free 12-weeks
SA030826G4_8caries-free 12-weeks
SA030827G4_6caries-free 12-weeks
SA030828G2_8caries-free 12-weeks
SA030829G2_9caries-free 12-weeks
SA030830G4_9caries-free 12-weeks
SA030831G4_10caries-free 12-weeks
SA030832G6_7caries-free 12-weeks
SA030833G6_8caries-free 12-weeks
SA030834G2_10caries-free 12-weeks
SA030835G2_6caries-free 12-weeks
SA030836G2_7caries-free 12-weeks
SA030837G6_9caries-free 12-weeks
SA030838G7_6caries-free baseline
SA030839G3_7caries-free baseline
SA030840G3_8caries-free baseline
SA030841G3_9caries-free baseline
SA030842G3_6caries-free baseline
SA030843G1_10caries-free baseline
SA030844G1_7caries-free baseline
SA030845G1_8caries-free baseline
SA030846G1_9caries-free baseline
SA030847G3_10caries-free baseline
SA030848G5_6caries-free baseline
SA030849G7_7caries-free baseline
SA030850G7_8caries-free baseline
SA030851G7_9caries-free baseline
SA030852G1_6caries-free baseline
SA030853G5_10caries-free baseline
SA030854G5_7caries-free baseline
SA030855G5_8caries-free baseline
SA030856G5_9caries-free baseline
SA030857G7_10caries-free baseline
Showing results 1 to 61 of 61

Collection:

Collection ID:CO000600
Collection Summary:Supragingival plaque samples were collected from specific tooth sites using sterile dental curetes.
Sample Type:Plaque samples
Collection Method:Scrapping of tooth surfaces
Collection Location:Multiple teeth
Collection Frequency:Once
Collection Duration:5 min
Volumeoramount Collected:250ul
Storage Conditions:freezer at -80
Collection Vials:eppendorfs containing phosphate buffer pH 7.0
Storage Vials:eppendorfs containing phosphate buffer pH 7.0
Collection Tube Temp:4

Treatment:

Treatment ID:TR000620
Treatment Summary:Subjects made use for 12 weeks of either a fluoride-free 1.5% arginine toothpaste or a fluoride containing toothpaste (1100 ppm F as NaF).

Sample Preparation:

Sampleprep ID:SP000613
Sampleprep Summary:None
Sampleprep Protocol Filename:Metabolomics_LCMSProtocol_plasma.pdf

Combined analysis:

Analysis ID AN000894 AN000895
Analysis type MS MS
Chromatography type Reversed phase Reversed phase
Chromatography system Thermo Scientific-Dionex Ultimate 3000 Thermo Scientific-Dionex Ultimate 3000
Column ACE Excel 2 C18-PFP (100 x 2.1mm, 2um) ACE Excel 2 C18-PFP (100 x 2.1mm, 2um)
MS Type ESI ESI
MS instrument type Orbitrap Orbitrap
MS instrument name Thermo Q Exactive Orbitrap Thermo Q Exactive Orbitrap
Ion Mode POSITIVE NEGATIVE
Units unspecified unspecified

Chromatography:

Chromatography ID:CH000637
Methods Filename:Metabolomics_LCMSProtocol_plasma.pdf
Instrument Name:Thermo Scientific-Dionex Ultimate 3000
Column Name:ACE Excel 2 C18-PFP (100 x 2.1mm, 2um)
Flow Rate:0.350mL/min-0.600mL/min
Solvent A:100% water; 0.1% formic acid
Solvent B:100% acetonitrile
Chromatography Type:Reversed phase

MS:

MS ID:MS000796
Analysis ID:AN000894
Instrument Name:Thermo Q Exactive Orbitrap
Instrument Type:Orbitrap
MS Type:ESI
Ion Mode:POSITIVE
Analysis Protocol File:Metabolomics_LCMSProtocol_plasma.pdf
  
MS ID:MS000797
Analysis ID:AN000895
Instrument Name:Thermo Q Exactive Orbitrap
Instrument Type:Orbitrap
MS Type:ESI
Ion Mode:NEGATIVE
Analysis Protocol File:Metabolomics_LCMSProtocol_plasma.pdf
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