NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Series GSE157914 Query DataSets for GSE157914
Status Public on May 19, 2021
Title Pathogenesis, Clinical and Biological Predictors of Growth in Environmental enteric dysfunction (EED): An Infant Birth Inception Cohort
Organism Homo sapiens
Experiment type Methylation profiling by genome tiling array
Summary Environmental enteric dysfunction (EED) is a major impediment to the Sustainable Development Goals of improved childhood survival and healthy growth worldwide. Few studies have directly examined the affected intestine, limiting the development of effective interventions.
The Study of Environmental Enteropathy and Malnutrition (SEEM, Pakistan) followed 416 at-risk children prospectively from birth to 24 months of age in a rural district of Pakistan with a high prevalence of undernutrition. The duodenal genome-wide methylome and transcriptome was determined in 52 undernourished SEEM participants refractory to nutritional interventions and 42 North American healthy controls and celiac disease patients. Biomarkers were measured at 9 months and tested for association with growth at 24 months in training (n=166) and validation (n=84) groups within SEEM.
 
Overall design DNA methylation was assessed in Duodenal biopsies from undernurished SEEM participants, and north American healthy controls. DNA was extracted, bisulfite converted and genome-wide DNA methylation was interrogated using the HumanMethylationEPIC BeadChip (Illumina).
 
Contributor(s) Haberman Y, Iqbal NT, Ghandikota S, Mallawaarachchi I, Braun T, Dexheimer PJ, Rahman N, Hadar R
Citation(s) 33524399
Submission date Sep 14, 2020
Last update date May 19, 2021
Contact name Tzipi Braun
E-mail(s) tzipik4@gmail.com
Organization name Sheba Medical Center at Tel Hashomer
Street address Derech Sheba 2
City Ramat Gan
ZIP/Postal code 52621
Country Israel
 
Platforms (1)
GPL21145 Infinium MethylationEPIC
Samples (91)
GSM4780629 EEDmethy_01_Batch1
GSM4780630 EEDmethy_02_Batch1
GSM4780631 EEDmethy_03_Batch1
Relations
BioProject PRJNA663330

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE157914_RAW.tar 1.4 Gb (http)(custom) TAR (of IDAT)
GSE157914_average_beta_normalized.txt.gz 350.0 Mb (ftp)(http) TXT
Processed data are available on Series record

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap