Summary of Study ST001400

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

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 IDST001400
Study TitleIdentification of distinct metabolic perturbations and associated immunomodulatory events during intra-erythrocytic development stage of pediatric Plasmodium falciparum malaria
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 Date2020-06-15
Num Groups2
Total Subjects200
Num Males109
Num Females90
Raw Data AvailableYes
Raw Data File Type(s)raw(Thermo)
Analysis Type DetailLC-MS
Release Date2021-08-10
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:SU001474
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
SA113619PAG076_InfInfected
SA113620PAG077_InfInfected
SA113621PAG150_InfInfected
SA113622PAG071_InfInfected
SA113623PAG151_InfInfected
SA113624PAG148_InfInfected
SA113625PAG074_InfInfected
SA113626PAG080_InfInfected
SA113627PAG083_InfInfected
SA113628PAG146_InfInfected
SA113629PAG147_InfInfected
SA113630PAG082_InfInfected
SA113631PAG081_InfInfected
SA113632PAG070_InfInfected
SA113633PAG069_InfInfected
SA113634PAG058_InfInfected
SA113635PAG156_InfInfected
SA113636PAG057_InfInfected
SA113637PAG157_InfInfected
SA113638PAG056_InfInfected
SA113639PAG123_InfInfected
SA113640PAG061_InfInfected
SA113641PAG153_InfInfected
SA113642PAG064_InfInfected
SA113643PAG063_InfInfected
SA113644PAG062_InfInfected
SA113645PAG155_InfInfected
SA113646PAG084_InfInfected
SA113647PAG145_InfInfected
SA113648PAG115_InfInfected
SA113649PAG116_InfInfected
SA113650PAG112_InfInfected
SA113651PAG136_InfInfected
SA113652PAG110_InfInfected
SA113653PAG111_InfInfected
SA113654PAG117_InfInfected
SA113655PAG126_InfInfected
SA113656PAG124_InfInfected
SA113657PAG122_InfInfected
SA113658PAG121_InfInfected
SA113659PAG120_InfInfected
SA113660PAG118_InfInfected
SA113661PAG107_InfInfected
SA113662PAG137_InfInfected
SA113663PAG088_InfInfected
SA113664PAG144_InfInfected
SA113665PAG001_InfInfected
SA113666PAG086_InfInfected
SA113667PAG055_InfInfected
SA113668PAG096_InfInfected
SA113669PAG099_InfInfected
SA113670PAG139_InfInfected
SA113671PAG102_InfInfected
SA113672PAG101_InfInfected
SA113673PAG100_InfInfected
SA113674PAG143_InfInfected
SA113675PAG085_InfInfected
SA113676PAG060_InfInfected
SA113677PAG031_InfInfected
SA113678PAG008_InfInfected
SA113679PAG166_InfInfected
SA113680PAG030_InfInfected
SA113681PAG018_InfInfected
SA113682PAG034_InfInfected
SA113683PAG035_InfInfected
SA113684PAG165_InfInfected
SA113685PAG014_InfInfected
SA113686PAG167_InfInfected
SA113687PAG029_InfInfected
SA113688PAG171_InfInfected
SA113689PAG021_InfInfected
SA113690PAG010_InfInfected
SA113691PAG019_InfInfected
SA113692PAG174_InfInfected
SA113693PAG170_InfInfected
SA113694PAG172_InfInfected
SA113695PAG028_InfInfected
SA113696PAG175_InfInfected
SA113697PAG016_InfInfected
SA113698PAG007_InfInfected
SA113699PAG159_InfInfected
SA113700PAG049_InfInfected
SA113701PAG178_InfInfected
SA113702PAG005_InfInfected
SA113703PAG053_InfInfected
SA113704PAG002_InfInfected
SA113705PAG158_InfInfected
SA113706PAG054_InfInfected
SA113707PAG173_InfInfected
SA113708PAG161_InfInfected
SA113709PAG044_InfInfected
SA113710PAG038_InfInfected
SA113711PAG037_InfInfected
SA113712PAG163_InfInfected
SA113713PAG036_InfInfected
SA113714PAG176_InfInfected
SA113715PAG006_InfInfected
SA113716PAG011_InfInfected
SA113717PAG162_InfInfected
SA113718PAG020_InfInfected
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Collection:

Collection ID:CO001469
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:TR001489
Treatment Summary:No treatment was done to any of the samples prior to profiling

Sample Preparation:

Sampleprep ID:SP001482
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 AN002340 AN002341 AN002342
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:CH001715
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:MS002182
Analysis ID:AN002340
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:MS002183
Analysis ID:AN002341
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:MS002184
Analysis ID:AN002342
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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