Summary of study ST001516

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 PR000960. The data can be accessed directly via it's Project DOI: 10.21228/M8M39X This work is supported by NIH grant, U2C- DK119886.

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

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Study IDST001516
Study TitleIdentification of distinct metabolic perturbations and associated immunomodulatory events during intra-erythrocytic development stage of pediatric Plasmodium falciparum malaria (part-II)
Study SummaryThe goal of this study was to interrogate biochemical profiles manifested in human serum samples originating from a cohort of West African children, collected before and during P. falciparum malarial infection, with the aim of characterizing metabolic migration associated with severity of malarial infection.
Institute
New York University Abu Dhabi
Last NameAbdrabou
First NameWael
AddressSaadiyat Island, P.O Box 129188, Abu Dhabi
Emailwsa224@nyu.edu
Phone0562729855
Submit Date2020-08-25
Num Groups2
Total Subjects110
Raw Data AvailableYes
Analysis Type DetailLC-MS
Release Date2021-03-01
Release Version1
Wael Abdrabou Wael Abdrabou
https://dx.doi.org/10.21228/M8M39X
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

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Project:

Project ID:PR000960
Project DOI:doi: 10.21228/M8M39X
Project Title:Identification of distinct metabolic perturbations and associated immunomodulatory events during intra-erythrocytic development stage of pediatric Plasmodium falciparum malaria
Project Summary:The goal of this study was to interrogate biochemical profiles manifested in human serum samples originating from a cohort of West African children, collected before and during P. falciparum malarial infection, with the aim of characterizing metabolic perturbation associated with severity of malarial infection.
Institute:New York University Abu Dhabi
Department:Biology Department
Laboratory:Idaghdour Laboratory
Last Name:Abdrabou
First Name:Wael
Address:Saadiyat Island, P.O Box 129188, Abu Dhabi
Email:wsa224@nyu.edu
Phone:0562729855

Subject:

Subject ID:SU001590
Subject Type:Human
Subject Species:Homo sapiens
Taxonomy ID:9606
Age Or Age Range:2-12 years
Weight Or Weight Range:11-30 Kilograms
Height Or Height Range:85 - 137 cm
Gender:Male and female
Human Ethnicity:Gouin (Burkina Faso, West Africa)
Human Inclusion Criteria:residency in the Nafona- and Bounouna rural area in Burkina Faso, age of 2 to 12 years, no P. falciparum infection at the time of enrollment (as evidenced by malaria rapid diagnostic test and confirmed later with microscopy and qPCR), no fever (axillary temperature ≥37.5°C) or history of fever within the preceding 48 hours
Human Exclusion Criteria:history of immunosuppressive diseases or chronic diseases, signs of concomitant febrile illness or active infection, use of anti-malarial treatment within the preceding two weeks, use of immunosuppressant or other immune-modifying drugs within the preceding six months and receiving blood transfusion within the preceding three months

Factors:

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

mb_sample_id local_sample_id INFECTION
SA127384PAG076_InfInfected
SA127385PAG077_InfInfected
SA127386PAG150_InfInfected
SA127387PAG071_InfInfected
SA127388PAG151_InfInfected
SA127389PAG148_InfInfected
SA127390PAG074_InfInfected
SA127391PAG080_InfInfected
SA127392PAG083_InfInfected
SA127393PAG146_InfInfected
SA127394PAG147_InfInfected
SA127395PAG082_InfInfected
SA127396PAG081_InfInfected
SA127397PAG070_InfInfected
SA127398PAG069_InfInfected
SA127399PAG058_InfInfected
SA127400PAG156_InfInfected
SA127401PAG057_InfInfected
SA127402PAG157_InfInfected
SA127403PAG056_InfInfected
SA127404PAG123_InfInfected
SA127405PAG061_InfInfected
SA127406PAG153_InfInfected
SA127407PAG064_InfInfected
SA127408PAG063_InfInfected
SA127409PAG062_InfInfected
SA127410PAG155_InfInfected
SA127411PAG084_InfInfected
SA127412PAG145_InfInfected
SA127413PAG115_InfInfected
SA127414PAG116_InfInfected
SA127415PAG112_InfInfected
SA127416PAG136_InfInfected
SA127417PAG110_InfInfected
SA127418PAG111_InfInfected
SA127419PAG117_InfInfected
SA127420PAG126_InfInfected
SA127421PAG124_InfInfected
SA127422PAG122_InfInfected
SA127423PAG121_InfInfected
SA127424PAG120_InfInfected
SA127425PAG118_InfInfected
SA127426PAG107_InfInfected
SA127427PAG137_InfInfected
SA127428PAG088_InfInfected
SA127429PAG144_InfInfected
SA127430PAG001_InfInfected
SA127431PAG086_InfInfected
SA127432PAG055_InfInfected
SA127433PAG096_InfInfected
SA127434PAG099_InfInfected
SA127435PAG139_InfInfected
SA127436PAG102_InfInfected
SA127437PAG101_InfInfected
SA127438PAG100_InfInfected
SA127439PAG143_InfInfected
SA127440PAG085_InfInfected
SA127441PAG060_InfInfected
SA127442PAG031_InfInfected
SA127443PAG008_InfInfected
SA127444PAG166_InfInfected
SA127445PAG030_InfInfected
SA127446PAG018_InfInfected
SA127447PAG034_InfInfected
SA127448PAG035_InfInfected
SA127449PAG165_InfInfected
SA127450PAG014_InfInfected
SA127451PAG167_InfInfected
SA127452PAG029_InfInfected
SA127453PAG171_InfInfected
SA127454PAG021_InfInfected
SA127455PAG010_InfInfected
SA127456PAG019_InfInfected
SA127457PAG174_InfInfected
SA127458PAG170_InfInfected
SA127459PAG172_InfInfected
SA127460PAG028_InfInfected
SA127461PAG175_InfInfected
SA127462PAG016_InfInfected
SA127463PAG007_InfInfected
SA127464PAG159_InfInfected
SA127465PAG049_InfInfected
SA127466PAG178_InfInfected
SA127467PAG005_InfInfected
SA127468PAG053_InfInfected
SA127469PAG002_InfInfected
SA127470PAG158_InfInfected
SA127471PAG054_InfInfected
SA127472PAG173_InfInfected
SA127473PAG161_InfInfected
SA127474PAG044_InfInfected
SA127475PAG038_InfInfected
SA127476PAG037_InfInfected
SA127477PAG163_InfInfected
SA127478PAG036_InfInfected
SA127479PAG176_InfInfected
SA127480PAG006_InfInfected
SA127481PAG011_InfInfected
SA127482PAG162_InfInfected
SA127483PAG020_InfInfected
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Collection:

Collection ID:CO001585
Collection Summary:Peripheral blood samples were collected in Serum Separator Tubes (SST). Serum samples were isolated on site in Burkina Faso by centrifuging blood samples in SST tubes for 30 minutes at 1500 RCF. Separated serum aliquots of 0.5 ml were transferred to cryovials and stored at -80°C.
Sample Type:Blood (serum)
Storage Conditions:-80℃
Collection Vials:Serum Separator Tubes (SST)
Storage Vials:cryovials

Treatment:

Treatment ID:TR001605
Treatment Summary:No treatment was done to any of the samples prior to profiling

Sample Preparation:

Sampleprep ID:SP001598
Sampleprep Summary:Samples were prepared using the automated MicroLab STAR® system from Hamilton Company. Several recovery standards were added prior to the first step in the extraction process for QC purposes. To remove protein, dissociate small molecules bound to protein or trapped in the precipitated protein matrix, and to recover chemically diverse metabolites, proteins were precipitated with methanol under vigorous shaking for 2 min (Glen Mills GenoGrinder 2000) followed by centrifugation. The resulting extract was divided into five fractions: two for analysis by two separate reverse phase (RP)/UPLC-MS/MS methods with positive ion mode electrospray ionization (ESI), one for analysis by RP/UPLC-MS/MS with negative ion mode ESI, one for analysis by HILIC/UPLC-MS/MS with negative ion mode ESI, and one sample was reserved for backup. Samples were placed briefly on a TurboVap® (Zymark) to remove the organic solvent. The sample extracts were stored overnight under nitrogen before preparation for analysis.

Combined analysis:

Analysis ID AN002515 AN002516 AN002517
Analysis type MS MS MS
Chromatography type Reversed phase Reversed phase Reversed phase
Chromatography system Waters Acquity Waters Acquity Waters Acquity
Column Waters Acquity BEH C18 (100 x 2mm, 1.7um) Waters Acquity BEH C18 (100 x 2mm, 1.7um) Waters Acquity BEH C18 (100 x 2mm, 1.7um)
MS Type ESI ESI ESI
MS instrument type Orbitrap Orbitrap Orbitrap
MS instrument name Thermo Q Exactive Orbitrap Thermo Q Exactive Orbitrap Thermo Q Exactive Orbitrap
Ion Mode POSITIVE NEGATIVE UNSPECIFIED
Units raw area counts raw area counts raw area counts

Chromatography:

Chromatography ID:CH001839
Chromatography Summary:Low pH polar
Instrument Name:Waters Acquity
Column Name:Waters Acquity BEH C18 (100 x 2mm, 1.7um)
Chromatography Type:Reversed phase

MS:

MS ID:MS002333
Analysis ID:AN002515
Instrument Name:Thermo Q Exactive Orbitrap
Instrument Type:Orbitrap
MS Type:ESI
MS Comments:Proprietary analytical software for integration and peak picking
Ion Mode:POSITIVE
  
MS ID:MS002334
Analysis ID:AN002516
Instrument Name:Thermo Q Exactive Orbitrap
Instrument Type:Orbitrap
MS Type:ESI
MS Comments:Proprietary analytical software for integration and peak picking
Ion Mode:NEGATIVE
  
MS ID:MS002335
Analysis ID:AN002517
Instrument Name:Thermo Q Exactive Orbitrap
Instrument Type:Orbitrap
MS Type:ESI
MS Comments:Proprietary analytical software for integration and peak picking
Ion Mode:UNSPECIFIED
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