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Sample GSM1955369 Query DataSets for GSM1955369
Status Public on Jun 01, 2016
Title Lockd Control, rep 1
Sample type RNA
 
Source name G1E_Lockd control
Organism Mus musculus
Characteristics cell line background: G1E
cell type: erythroid cell line
genotype/variation: Lockd WT
Treatment protocol CRISPR/Cas9 was used to delete Lockd
Growth protocol Cells were grown in G1E media as described previously (Weiss et al, MCB 1997)
Extracted molecule total RNA
Extraction protocol RNA was isolated from cultured cells using the Qiagen Rneasy kit
Label biotin
Label protocol Single-stranded cDNA was generated from the amplified cRNA with the WT cDNA Synthesis Kit (Affymetrix) and then fragmented and labeled with the WT Terminal Labeling Kit (Affymetrix).
 
Hybridization protocol Samples were hybridized with GeneChip Mogene 2.0 ST Arrays (Affymetrix) and scanned at the University of Pennsylvania Molecular Profiling Facility
Scan protocol Array scanning was performed according to the manufacturer's instruction (Affymetrix)
Description WT.U.1
Data processing Raw data were normalized useing RMA algorithm (rma-gene-full option). Data analysis and statistical evaluations were performed with customized Matlab scripts (R2012b)
affymetrix-algorithm-name = rma-gene-full
affymetrix-algorithm-version = 1.0
program-name = Expression Console
program-version = 1.3.1.187
 
Submission date Nov 27, 2015
Last update date Jun 01, 2016
Contact name Vikram Paralkar
E-mail(s) vikram.paralkar@uphs.upenn.edu
Phone 215-590-0558
Organization name University of Pennsylvania
Street address 3400 Civic Center Boulevard, Perelman Center, 7th Floor, South Pavilion Extension
City Philadelphia
State/province PA
ZIP/Postal code 19104
Country USA
 
Platform ID GPL16570
Series (2)
GSE75449 Unlinking a lncRNA from its associated cis element [gene expression]
GSE75881 Unlinking a lncRNA from its associated cis element

Data table header descriptions
ID_REF
VALUE normalized

Data table
ID_REF VALUE
17200001 7.19771
17200003 6.92064
17200005 5.41165
17200007 5.63217
17200009 6.52694
17200011 5.75553
17200013 5.94728
17200015 6.74358
17200017 4.19838
17200019 4.5191
17200021 4.92316
17200023 6.69393
17200025 5.85334
17200027 6.90676
17200029 4.80301
17200031 4.24013
17200033 4.73223
17200035 4.17106
17200037 5.92651
17200039 3.8257

Total number of rows: 41345

Table truncated, full table size 681 Kbytes.




Supplementary file Size Download File type/resource
GSM1955369_5078_55646_WT1U_MoGene2.0ST.CEL.gz 9.4 Mb (ftp)(http) CEL
GSM1955369_5078_55646_WT1U_MoGene2.0ST.rma-gene-full.chp.gz 254.3 Kb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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