GEO Publications
Handout
NAR 2024 (latest)
NAR 2002 (original)
All publications
FAQ
MIAME
Email GEO
NCBI
>
GEO
>
Accession Display
Not logged in |
Login
GEO help:
Mouse over screen elements for information.
Scope:
Self
Platform
Samples
Series
Family
Format:
HTML
SOFT
MINiML
Amount:
Brief
Quick
GEO accession:
Sample GSM4579395
Query DataSets for GSM4579395
Status
Public on May 30, 2020
Title
159_sam1
Sample type
genomic
Source name
Saliva
Organism
Homo sapiens
Characteristics
person id: 159
sample collection (visit): 1
age: 28
self reported race: Caucasian
self reported sex: Female
Extracted molecule
genomic DNA
Extraction protocol
DNA Genotek PrepIT L2P kit
Label
Cy3, Cy5
Label protocol
Illumina
Hybridization protocol
Bisulphite converted DNA hybridised to Illumina Infinium Human MethylationEPIC Beadchip using standard Illumina protocol
Scan protocol
Illumina scaner
Description
CpG methylation
Data processing
Raw intensity data files (idat files) for both mouse and human samples were processed using the R package Minfi.
Submission date
May 29, 2020
Last update date
May 30, 2020
Contact name
Jose Vladimir Sandoval Sierra
E-mail(s)
jose.vlass@gmail.com, jsandov3@uthsc.edu
Phone
9013355392
Organization name
UTHSC
Department
Preventive Medicine
Lab
Mozhui Lab
Street address
66 North Pauline street
City
Memphis
State/province
TN
ZIP/Postal code
38105
Country
USA
Platform ID
GPL21145
Series (1)
GSE151485
Effect of short-term prescription opioids on DNA methylation of the OPRM1 promoter
Data table header descriptions
ID_REF
VALUE
Low quality probes and probes that overlap SNPs were removed and matrix for 736,432 probes are provided
Data table
ID_REF
VALUE
cg21870274
0.875215605
cg16535257
0.126203148
cg06325811
0.547813602
cg08258224
0.712433429
cg16619049
0.638402717
cg18147296
0.805408117
cg13938959
0.782555507
cg12445832
0.616586019
cg23999112
0.844294099
cg11527153
0.907452199
cg27573606
0.966966507
cg04195702
0.904598312
cg08128007
0.866558242
cg23733394
0.473093053
cg13371836
0.069912936
cg04407431
0.047911381
cg13924672
0.12550785
cg10847807
0.085061494
cg20501011
0.507668161
cg13565718
0.886044779
Total number of rows:
736432
Table truncated, full table size
16469 Kbytes
.
Supplementary file
Size
Download
File type/resource
GSM4579395_202010290087_R08C01_Grn.idat.gz
7.0 Mb
(ftp)
(http)
IDAT
GSM4579395_202010290087_R08C01_Red.idat.gz
6.9 Mb
(ftp)
(http)
IDAT
Processed data included within Sample table
|
NLM
|
NIH
|
GEO Help
|
Disclaimer
|
Accessibility
|
