Summary of study ST001517

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 IDST001517
Study TitleIdentification of distinct metabolic perturbations and associated immunomodulatory events during intra-erythrocytic development stage of pediatric Plasmodium falciparum malaria (part-III)
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 Subjects53
Num Males21
Num Females32
Analysis Type DetailLC-MS
Release Date2021-04-27
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:SU001591
Subject Type:Human
Subject Species:Homo sapiens
Taxonomy ID:9606
Age Or Age Range:5-12 years
Gender:Male and female
Human Ethnicity:Fulani (Burkina Faso, West Africa)
Human Inclusion Criteria:residency in the Sapone district area in Burkina Faso, age of 5 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
SA127583PAM277_InfInfected
SA127584PAM357_InfInfected
SA127585PAM336_InfInfected
SA127586PAM278_InfInfected
SA127587PAM356_InfInfected
SA127588PAM276_InfInfected
SA127589PAM275_InfInfected
SA127590PAM344_InfInfected
SA127591PAM273_InfInfected
SA127592PAM274_InfInfected
SA127593PAM358_InfInfected
SA127594PAM280_InfInfected
SA127595PAM342_InfInfected
SA127596PAM355_InfInfected
SA127597PAM226_InfInfected
SA127598PAM309_InfInfected
SA127599PAM310_InfInfected
SA127600PAM346_InfInfected
SA127601PAM332_InfInfected
SA127602PAM345_InfInfected
SA127603PAM302_InfInfected
SA127604PAM293_InfInfected
SA127605PAM360_InfInfected
SA127606PAM335_InfInfected
SA127607PAM296_InfInfected
SA127608PAM352_InfInfected
SA127609PAM284_InfInfected
SA127610PAM268_InfInfected
SA127611PAM339_InfInfected
SA127612PAM234_InfInfected
SA127613PAM253_InfInfected
SA127614PAM365_InfInfected
SA127615PAM256_InfInfected
SA127616PAM368_InfInfected
SA127617PAM233_InfInfected
SA127618PAM340_InfInfected
SA127619PAM229_InfInfected
SA127620PAM231_InfInfected
SA127621PAM369_InfInfected
SA127622PAM232_InfInfected
SA127623PAM334_InfInfected
SA127624PAM343_InfInfected
SA127625PAM266_InfInfected
SA127626PAM362_InfInfected
SA127627PAM267_InfInfected
SA127628PAM337_InfInfected
SA127629PAM265_InfInfected
SA127630PAM363_InfInfected
SA127631PAM338_InfInfected
SA127632PAM364_InfInfected
SA127633PAM257_InfInfected
SA127634PAM264_InfInfected
SA127635PAM260_InfInfected
SA127636PAM343_NonInfNon-infected
SA127637PAM342_NonInfNon-infected
SA127638PAM344_NonInfNon-infected
SA127639PAM357_NonInfNon-infected
SA127640PAM364_NonInfNon-infected
SA127641PAM363_NonInfNon-infected
SA127642PAM365_NonInfNon-infected
SA127643PAM368_NonInfNon-infected
SA127644PAM369_NonInfNon-infected
SA127645PAM362_NonInfNon-infected
SA127646PAM360_NonInfNon-infected
SA127647PAM352_NonInfNon-infected
SA127648PAM346_NonInfNon-infected
SA127649PAM355_NonInfNon-infected
SA127650PAM356_NonInfNon-infected
SA127651PAM358_NonInfNon-infected
SA127652PAM345_NonInfNon-infected
SA127653PAM309_NonInfNon-infected
SA127654PAM265_NonInfNon-infected
SA127655PAM264_NonInfNon-infected
SA127656PAM260_NonInfNon-infected
SA127657PAM266_NonInfNon-infected
SA127658PAM267_NonInfNon-infected
SA127659PAM273_NonInfNon-infected
SA127660PAM268_NonInfNon-infected
SA127661PAM257_NonInfNon-infected
SA127662PAM256_NonInfNon-infected
SA127663PAM231_NonInfNon-infected
SA127664PAM229_NonInfNon-infected
SA127665PAM226_NonInfNon-infected
SA127666PAM232_NonInfNon-infected
SA127667PAM233_NonInfNon-infected
SA127668PAM253_NonInfNon-infected
SA127669PAM234_NonInfNon-infected
SA127670PAM274_NonInfNon-infected
SA127671PAM275_NonInfNon-infected
SA127672PAM335_NonInfNon-infected
SA127673PAM334_NonInfNon-infected
SA127674PAM332_NonInfNon-infected
SA127675PAM336_NonInfNon-infected
SA127676PAM337_NonInfNon-infected
SA127677PAM339_NonInfNon-infected
SA127678PAM338_NonInfNon-infected
SA127679PAM310_NonInfNon-infected
SA127680PAM302_NonInfNon-infected
SA127681PAM278_NonInfNon-infected
SA127682PAM277_NonInfNon-infected
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Collection:

Collection ID:CO001586
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:TR001606
Treatment Summary:No treatment was done to any of the samples prior to profiling

Sample Preparation:

Sampleprep ID:SP001599
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 AN002518 AN002519 AN002520
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:CH001840
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:MS002336
Analysis ID:AN002518
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:MS002337
Analysis ID:AN002519
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:MS002338
Analysis ID:AN002520
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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