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Sample GSM1260047 Query DataSets for GSM1260047
Status Public on Mar 07, 2014
Title 86KO GERM CELL PELLET
Sample type RNA
 
Source name TAP73 Knock-out germ cells
Organism Mus musculus
Characteristics strain: C57BL/6J
mouse age: 8 months
proband sex: Male
tissue: cell isolation from testis
Treatment protocol mice were euthanized with carbon dioxide and the whole testis was removed. Germ cells and Sertoli cells were isolated.
Growth protocol animals were housed at the mouse facility of the ENI, University Göttingen
Extracted molecule total RNA
Extraction protocol mRNA was isolated from the germ and Sertoli cell population, which were isolated from murine WT and TAp73KO testis. Cell samples were transferred into trizol buffer, homogenized and mRNA was isolated in a single-step acid guanidinium thiocyanate-phenol-chloroform extraction following manufacturer´s instructions (http://tools.invitrogen.com/content/sfs/manuals/trizol_reagent.pdf). RNA-precipitation was done with Ethanol. RNA was diluted in nuclease-free water and concentrations were determined using a Nanodrop spectrophotometer.
Label biotin
Label protocol For each array 200 ng RNA was processed and Cy3 labeled by the Low Input Quick Amp Labeling Kit (Agilent Technologies).
 
Hybridization protocol Hybridization was performed in the hybridization oven (Agilent Technologies, 17h, 10 rpm, 65˚C)
Scan protocol Cy3 intensities were detected by a one-color microarray scanner (G2505C, Agilent Technologies) at 5 µm resolution
Data processing Data were quantile normalized and log2 transformed using R and Bioconductor package limma.
 
Submission date Nov 06, 2013
Last update date Mar 07, 2014
Contact name Gabriela Salinas
E-mail(s) Gabriela.Salinas-Riester@medizin.uni-goettingen.de
Organization name Universitaetsmedizin Goettingen
Department Department of Human Genetics
Lab NGS Integrative Genomics
Street address Justus-von-Liebig-Weg 11
City Goettingen
State/province Lower-Saxony
ZIP/Postal code 37077
Country Germany
 
Platform ID GPL11202
Series (1)
GSE52124 TAp73 is essential for germ cell adhesion and maturation in testis

Data table header descriptions
ID_REF
VALUE limma normalized signal intensity

Data table
ID_REF VALUE
A_51_P100034 16.68580117
A_51_P100174 17.35546975
A_51_P100208 2.789019604
A_51_P100289 11.63477264
A_51_P100298 5.183609453
A_51_P100309 2.75998717
A_51_P100327 4.783164995
A_51_P100347 3.415539932
A_51_P100519 6.158722137
A_51_P100537 13.52023968
A_51_P100573 7.773657813
A_51_P100624 3.905542144
A_51_P100625 3.390253858
A_51_P100768 2.730904978
A_51_P100776 9.438431532
A_51_P100787 13.82541478
A_51_P100828 6.572124751
A_51_P100852 4.529614036
A_51_P100991 7.129288015
A_51_P100997 6.51414591

Total number of rows: 39429

Table truncated, full table size 981 Kbytes.




Supplementary file Size Download File type/resource
GSM1260047_US22502691_252665513589_S01_GE1_107_Sep09_1_3.txt.gz 2.2 Mb (ftp)(http) TXT
Processed data included within Sample table

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