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Sample GSM2539553 Query DataSets for GSM2539553
Status Public on Feb 22, 2019
Title MDA-MB231-1833 cells with non-targeting CRISPR, seeded on E-Selectin
Sample type RNA
 
Channel 1
Source name MDA-MB231-1833 cells with non-targeting CRISPR, seeded on E-Selectin
Organism Homo sapiens
Characteristics parental cell line: MDA-MB-231
subline: 1833
crispr ko: non-targeting
treatment: E-Selectin
Extracted molecule total RNA
Extraction protocol Total RNA were extracted using RNAeasy mini-prep kit from Qiagen
Label Cy5
Label protocol The testing RNA samples and universal mouse reference RNA (Agilent) were labeled with CTP-cy5 and CTP-cy3, respectively, Using Agilent Quick Amp Labeling Kit.
 
Channel 2
Source name Universal human Reference RNA
Organism Homo sapiens
Characteristics cell lines: Mix of 10 human cell lines
Extracted molecule total RNA
Extraction protocol Total RNA were extracted using RNAeasy mini-prep kit from Qiagen
Label Cy3
Label protocol The testing RNA samples and universal mouse reference RNA (Agilent) were labeled with CTP-cy5 and CTP-cy3, respectively, Using Agilent Quick Amp Labeling Kit.
 
 
Hybridization protocol Each cy5 labeled testing sample was mixed with equal amount cy3-labeled reference sample and fragmented and blocked (Agilent Gene Expression Hybridization Kit), and samples were applied to microarrays enclosed in Agilent SureHyb-enabled hybridization chambers. After hybridization, slides were washed sequential
Scan protocol Scanned on an Agilent G2505C scanner.
Images were quantified using Agilent Feature Extraction Software (version 11.0).
Description See Agilent Cat#740000 for product details
Cells transduced with CRISPR vectors targeting Glg1 or Control were seeded on E-selectin or IgG (10 ug/mL) coated plates for 12 h
Data processing Agilent Feature Extraction Software (v 11.0) was used for background subtraction and linear Lowess normalization.
 
Submission date Mar 17, 2017
Last update date Feb 29, 2024
Contact name Yong Wei
E-mail(s) yongwei@princeton.edu
Organization name Princeton University
Department Molecular Biology
Lab Kang
Street address LTL227 Wathington Road
City Plainsboro
State/province NJ
ZIP/Postal code 08536
Country USA
 
Platform ID GPL17077
Series (1)
GSE96754 Endosteal Niche E-selectin Induces Mesenchymal-Epithelial Transition and Wnt Activation in Cancer Cells to Promote Bone Metastasis

Data table header descriptions
ID_REF
VALUE Lowess normalized log2 ration of test/reference (Cy5/Cy3); Flag values applied

Data table
ID_REF VALUE
A_23_P117082 0.46201986
A_33_P3246448 -1.5616376
A_33_P3318220 0.007562935
A_33_P3236322 -0.2874992
A_33_P3319925 0.018060178
A_21_P0000509 -2.3228574
A_21_P0000744 -0.20612523
A_24_P215804 0.072627544
A_23_P110167 0.5032635
A_33_P3211513 0.21024016
A_23_P103349 0.429617
A_32_P61480 -0.33584926
A_33_P3788124 -0.5030784
A_33_P3414202 0.19627446
A_33_P3316686 0.26255202
A_33_P3300975 -1.8397125
A_33_P3263061 0.006006241
A_33_P3261373 0.45009372
A_24_P278460 -0.7985083
A_21_P0013109 0.057540298

Total number of rows: 50599

Table truncated, full table size 1228 Kbytes.




Supplementary file Size Download File type/resource
GSM2539553_MB231-CNT-SELE.txt.gz 6.1 Mb (ftp)(http) TXT
Processed data included within Sample table

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