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Sample GSM619296 Query DataSets for GSM619296
Status Public on Nov 10, 2010
Title JARID1B MCF-7
Sample type genomic
 
Channel 1
Source name enriched DNA using anti-JARID1B
Organism Homo sapiens
Characteristics cell line: MCF-7 breast cancer cell line
antibody: JARID1B
antibody vendor: santa cruz
antibody lot/bach#: A0108
antibody catalog#: sc-67035
Extracted molecule genomic DNA
Extraction protocol common cell lysate
Label Cy5
Label protocol primer labeled with fluorescence molecules, protocol for labelling the extract follows the "Complete Product Handbook for The Aviva Systems Biology ChIP-GLAS System" (in attachment), IX. Detailed Protocol, Step 5. PCR Amplification and Labeling of GLAS Products
 
Channel 2
Source name Input DNA
Organism Homo sapiens
Characteristics cell line: MCF-7 breast cancer cell line
Extracted molecule genomic DNA
Extraction protocol common cell lysate
Label Cy3
Label protocol primer labeled with fluorescence molecules, protocol for labelling the extract follows the "Complete Product Handbook for The Aviva Systems Biology ChIP-GLAS System" (in attachment), IX. Detailed Protocol, Step 5. PCR Amplification and Labeling of GLAS Products
 
 
Hybridization protocol standard AVIVA method
Scan protocol CapitalBio manual
Description whole genome target analysis for JARID1B
Data processing After background correction and removal of bad spots, expression ratio was linear normalized using 50 percentile rank
software: R version 2.10.1 (2009-12-14)
Copyright (C) 2009 The R Foundation for Statistical Computing
ISBN 3-900051-07-0
 
Submission date Nov 09, 2010
Last update date Nov 10, 2010
Contact name Shang Yongfeng
E-mail(s) yshang@hsc.pku.edu.cn
Phone 86-10-82805118
Fax 86-10-82801355
Organization name Peking University
Department Biochemistry and Molecular Biology
Street address Hai dian district,38# Xue Yuan Road
City Beijing
ZIP/Postal code 100191
Country China
 
Platform ID GPL7765
Series (1)
GSE25214 Profiles of JARID1B target genes in MCF-7 cell line

Data table header descriptions
ID_REF
VALUE log2 Normalized ratio of expression defined as CH1 divided by CH2

Data table
ID_REF VALUE
1 0.22855319
2 0.398103501
3 -5.011738918
4 -1.057521132
5 -4.869426611
6 0.860085069
7 1.291226334
8 1.776336722
9 -1.460288961
10 1.227036208
11 -0.855818803
12 -0.953761996
13 -1.578263934
14 -1.413459534
15 -1.714522188
16 1.723579781
17 0.809861778
18 0.811823294
19 1.012189409
20 3.163498732

Total number of rows: 21120

Table truncated, full table size 368 Kbytes.




Supplementary file Size Download File type/resource
GSM619296.LSR.gz 1.5 Mb (ftp)(http) LSR
Processed data included within Sample table

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