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Sample GSM3735550

Query DataSets for GSM3735550

Status

Public on Apr 04, 2020

Title

Mel202WT_rep2

Sample type

genomic

Source name

Mel202 uveal melanoma cell line

Organism

Homo sapiens

Characteristics

genotype/variation: wildtype
cell type: uveal melanoma, cancer cell
cell line: Mel202

Extracted molecule

genomic DNA

Extraction protocol

Genomic DNA was isolated using QIAamp DNA Mini Kit (Qiagen) according to standard instuctions.

Label

Cy5 and Cy3

Label protocol

Standard Illumina Protocol

Hybridization protocol

bisulphite converted DNA was amplified, fragmented and hybridised to Illumina Infinium Human MethylayionEPIC array using standard Illumina protocol

Scan protocol

Arrays were imaged using BeadArray Reader using standard recommended Illumina scanner setting

Description

uveal melanoma, cell line

Data processing

ChAMP pipeline in R (2.12.4)

Submission date

Apr 25, 2019

Last update date

Apr 05, 2020

Contact name

Matthew G. Field

Organization name

University of Miami

Street address

1501 NW 10th Avenue

City

Miami

State/province

ZIP/Postal code

33136

Country

USA

Platform ID

GPL21145

Series (2)

GSE130295	BAP1 loss triggers DNA methylomic repatterning in highly aggressive Class 2 uveal melanomas [MethylationEPIC]
GSE130357	BAP1 loss triggers DNA methylomic repatterning in highly aggressive Class 2 uveal melanomas

Data table header descriptions
ID_REF
VALUE	Normalized, Batch-Corrected Average Beta (per ChAMP default settings)
Detection Pval

Data table
ID_REF	VALUE	Detection Pval
cg07881041	0.880568598	<0.01
cg03513874	0.933486563	<0.01
cg05451842	0.022125356	<0.01
cg14797042	0.989278468	<0.01
cg09838562	0.017377507	<0.01
cg25458538	0.963415811	<0.01
cg09261072	0.51593126	<0.01
cg02404579	0.979688223	<0.01
cg04118974	0.968600547	<0.01
cg01236347	0.945989008	<0.01
cg22585117	0.071348289	<0.01
cg25552317	0.987797118	<0.01
cg23875663	0.178946995	<0.01
cg07659892	0.020092863	<0.01
cg15995909	0.963942335	<0.01
cg23728960	0.069058213	<0.01
cg11993619	0.857303373	<0.01
cg01925883	0.003607656	<0.01
cg03452160	0.119314968	<0.01
cg09430819	0.464203093	<0.01

Total number of rows: 737467

Table truncated, full table size 20804 Kbytes.

Supplementary file	Size	Download	File type/resource
GSM3735550_201465940014_R05C01_Grn.idat.gz	7.0 Mb	(ftp)(http)	IDAT
GSM3735550_201465940014_R05C01_Red.idat.gz	7.0 Mb	(ftp)(http)	IDAT
Processed data included within Sample table