Summary of Study ST000973

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 PR000646. The data can be accessed directly via it's Project DOI: 10.21228/M85M3S 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 IDST000973
Study TitleMetabolome profiles in urogenital schistosomiasis and associated pathologies (part II)
Study SummaryMetabolic fingerprint aid discovery of new biomarkers. Blood and urine were collected from volunteers in Eggua community, Nigeria, after ethical approval. LC-ESI-MS were used to analyse samples. Bioinformatics and statistical tools were used to detect important metabolites
Institute
University of Ibadan, Nigeria
DepartmentZoology (Cell biology and Genetics unit)
LaboratoryCentre for Materials Characterization, National Chemical Laboratory, Pune, India
Last NameAdewale
First NameAdebayo
AddressCell Biology and Genetics unit, Department of zoology, University of ibadan, Nigeria/ National Centre for Cell Science, Pune, India
Emailwalsaks@gmail.com
Phone07030710368
Submit Date2017-12-07
Publicationsdoi:10.1371/journal.pntd.0006452
Raw Data AvailableYes
Analysis Type DetailLC-MS
Release Date2018-12-11
Release Version1
Adebayo Adewale Adebayo Adewale
https://dx.doi.org/10.21228/M85M3S
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

Select appropriate tab below to view additional metadata details:

Project:

Project ID:PR000646
Project DOI:doi: 10.21228/M85M3S
Project Title:Identification of biomarkers in schistosomiasis and associated bladder cancer and pathologies in Eggua, Nigeria
Project Summary:The aim of the project is to develop biomarkers that will aid the search for new therapeutic or diagnostic targets for schistosomiasis and its induced bladder pathologies or cancer. Blood and urine samples from individuals were collected in Eggua, Nigeria for subsequent metabolomics, proteomics and genomics characterization
Institute:University of Ibadan, Nigeria
Department:Zoology (Cell biology and Genetics unit)
Laboratory:Centre for Materials Characterization, National Chemical Laboratory, Pune, India
Last Name:Adewale
First Name:Adebayo
Address:Cell Biology and Genetics unit, Department of zoology, University of ibadan, Nigeria/ National Centre for Cell Science, Pune, India
Email:walsaks@gmail.com
Phone:07030710368

Subject:

Subject ID:SU001012
Subject Type:Human
Subject Species:Homo sapiens
Taxonomy ID:9606
Human Ethnicity:Yoruba
Human Inclusion Criteria:apparent health, no recent treatment for any disease, no recent use of antibiotics, antimalarial or other drugs

Factors:

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

mb_sample_id local_sample_id Status
SA058610S-401CONTROL | Stage:CONTROL
SA058611U-401CONTROL | Stage:CONTROL
SA058612S-402CONTROL | Stage:CONTROL
SA058613U-222CONTROL | Stage:CONTROL
SA058614U-221CONTROL | Stage:CONTROL
SA058615U-402CONTROL | Stage:CONTROL
SA058616S-403CONTROL | Stage:CONTROL
SA058617U-223CONTROL | Stage:CONTROL
SA058618S-223CONTROL | Stage:CONTROL
SA058619S-221CONTROL | Stage:CONTROL
SA058620U-403CONTROL | Stage:CONTROL
SA058621S-222CONTROL | Stage:CONTROL
SA058622U-43INFECTED | Stage:ADVANCED
SA058623U-161INFECTED | Stage:ADVANCED
SA058624U-42INFECTED | Stage:ADVANCED
SA058625U-162INFECTED | Stage:ADVANCED
SA058626S-0041INFECTED | Stage:ADVANCED
SA058627U-1042INFECTED | Stage:ADVANCED
SA058628S-1043INFECTED | Stage:ADVANCED
SA058629U-1041INFECTED | Stage:ADVANCED
SA058630U-1043INFECTED | Stage:ADVANCED
SA058631U-163INFECTED | Stage:ADVANCED
SA058632U-41INFECTED | Stage:ADVANCED
SA058633S-163INFECTED | Stage:ADVANCED
SA058634S-1042INFECTED | Stage:ADVANCED
SA058635S-162INFECTED | Stage:ADVANCED
SA058636S-161INFECTED | Stage:ADVANCED
SA058637S-1041INFECTED | Stage:ADVANCED
SA058638S-0042INFECTED | Stage:ADVANCED
SA058639S-0043INFECTED | Stage:ADVANCED
SA058640U-461INFECTED | Stage:INFECTION-ONLY
SA058641U-462INFECTED | Stage:INFECTION-ONLY
SA058642U-853INFECTED | Stage:INFECTION-ONLY
SA058643U-852INFECTED | Stage:INFECTION-ONLY
SA058644U-851INFECTED | Stage:INFECTION-ONLY
SA058645U-463INFECTED | Stage:INFECTION-ONLY
SA058646S-392INFECTED | Stage:INFECTION-ONLY
SA058647S-463INFECTED | Stage:INFECTION-ONLY
SA058648S-851INFECTED | Stage:INFECTION-ONLY
SA058649S-852INFECTED | Stage:INFECTION-ONLY
SA058650S-853INFECTED | Stage:INFECTION-ONLY
SA058651S-462INFECTED | Stage:INFECTION-ONLY
SA058652S-461INFECTED | Stage:INFECTION-ONLY
SA058653U-393INFECTED | Stage:INFECTION-ONLY
SA058654U-392INFECTED | Stage:INFECTION-ONLY
SA058655U-391INFECTED | Stage:INFECTION-ONLY
SA058656S-393INFECTED | Stage:INFECTION-ONLY
SA058657S-391INFECTED | Stage:INFECTION-ONLY
Showing results 1 to 48 of 48

Collection:

Collection ID:CO001006
Collection Summary:blood and urine samples collected from volunteers in the morning hours. Plasma was separated from blood. urine was examined for S. haematobium infection. Distended Bladder scans were carried out
Collection Protocol ID:UI/EC/15/0019
Sample Type:Plasma;Urine

Treatment:

Treatment ID:TR001026
Treatment Summary:Samples were categorised as infected, infected with pathologies, and controls. Infection with Schistosoma haematobium infection by examining urine under the microscopy to detect eggs and by amplifying Dra 1 region. Pathologies were determined ultrasonography

Sample Preparation:

Sampleprep ID:SP001019
Sampleprep Summary:Both urine and plasma samples were prepared using chilled methanol:water mixture (4:1).

Combined analysis:

Analysis ID AN001594
Analysis type MS
Chromatography type Reversed phase
Chromatography system Q-Exactive hybrid quadrupole orbitrap mass spectrometer
Column Hypersil Gold
MS Type ESI
MS instrument type Orbitrap
MS instrument name Thermo Q Exactive HF hybrid Orbitrap
Ion Mode POSITIVE
Units abundance of specific m/z (amu)

Chromatography:

Chromatography ID:CH001119
Chromatography Summary:Both urine and plasma samples were prepared using chilled methanol:water mixture (4:1). Separation was achieved with 150mm x 2.1mm, 1.9μ Hypersil Gold column with a 5μl injection volume. Gradient elution was performed using 0.1% formic acid in water (A) and acetonitrile (B) as mobile phase after optimization. The column was washed between each sample for stability and to eliminate carry-over. The flow rate was 0.35 ml/min. MS acquisition was performed on the Q-Exactive hybrid quadrupole orbitrap mass spectrometer (ThermoFisher, MA, USA) operated in positive and negative electrospray ionization (ESI) modes. The scan range was 70 to 1000 m/z.
Instrument Name:Q-Exactive hybrid quadrupole orbitrap mass spectrometer
Column Name:Hypersil Gold
Flow Rate:0.35ml/min
Solvent A:100% water; 0.1% formic acid
Solvent B:100% acetonitrile
Chromatography Type:Reversed phase

MS:

MS ID:MS001472
Analysis ID:AN001594
Instrument Name:Thermo Q Exactive HF hybrid Orbitrap
Instrument Type:Orbitrap
MS Type:ESI
Ion Mode:POSITIVE
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