E-GEOD-37949 < ArrayExpress < BioStudies

Release Date: 23 March 2013

Expression data comparing KYSE-140 ESCC cell line CD90+ and CD90- cells

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Name	Type	Section
A-AFFY-44	Array Design	Array Designs
GSE37949	GEO

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Stephanie Ma

Stephanie Ma
Email: stefma@hkucc.hku.hk
Role: submitter
Affiliation: University of Hong Kong
¹

¹ University of Hong Kong
Address: Pathology and Clinical Oncology, University of Hong Kong, Rm 56, 10/F, Lab Block, Faculty of Medicine Bldg, 21 Sassoon Rd, Pok Fu Lam, Hong Kong, Hong Kong

AccessionE-GEOD-37949

Study typetranscription profiling by array

OrganismHomo sapiens

DescriptionTo identify candidate genes involved in enhanced tumorigenicity and metastasis of CD90+ esophageal tumor-initiating cells. The esophageal squamous carcinoma cell (ESCC) cell line KYSE-140 was sorted into CD90+ and CD90- populations by flow cytometry. Total RNA was analyzed on Affymetrix Human Genome U133 Plus GeneChip 2.0 arrays.

Publication Tang KH, Dai YD, Tong M, Chan YP, Kwan PS, Fu L, Qin YR, Tsao SW, Lung HL, Lung ML, Tong DK, Law S, Chan KW, Ma S, Guan XY. A CD90+ Tumor-Initiating Cell Population with an Aggressive Signature and Metastatic Capacity in Esophageal Cancer. doi 10.1158/0008-5472.CAN-12-2991 PMID 23382045 DOI 10.1158/0008-5472.CAN-12-2991

Protocols show table

Name	Type	Description
P-GSE37949-1	bioassay_data_transformation	ID_REF = VALUE = MAS5.0 signal intensity ABS_CALL = indicating whether the transcript was present (P), absent (A), or marginal (M) DETECTION P-VALUE = p-value that indicates the significance level of the detection call
P-GSE37949-2	grow	CD90+ and CD90- cells were sorted from KYSE-140 ESCC cells using the flow cytometry cell sorting technique.
P-GSE37949-3	nucleic_acid_extraction	Trizol extraction of total RNA was performed according to the manufacturer's instructions.
P-GSE37949-4	labeling	Service by The University of Hong Kong (HKU) Genome Research Centre (protocol attached to the Series).
P-GSE37949-5	hybridization	Service by The University of Hong Kong (HKU) Genome Research Centre (protocol attached to the Series).
P-GSE37949-6	image_aquisition	Service by The University of Hong Kong (HKU) Genome Research Centre (protocol attached to the Series).
P-GSE37949-7	feature_extraction	The data were analyzed with MAS5 using Affymetrix default analysis settings and global scaling as the normalization method.

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TechnologyArray assay

Assay by MoleculeRNA assay

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Expression data comparing KYSE-140 ESCC cell line CD90+ and CD90- cells

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Stephanie Ma