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Sample GSM35289 Query DataSets for GSM35289
Status Public on Jul 01, 2005
Title MM 2B
Sample type RNA
Source name E13.5 metanephric mesenchyme
Organism Rattus norvegicus
Extracted molecule total RNA
Description Metanephric mesenchyme and ureteric buds were dissected from E13.5 rats. At this stage of development, the ureteric buds have already initiated branching morphogenesis producing cleavage of the initial bulbous ureteric bud into a T-shaped tubule. To isolate the metanephric mesenchyme and ureteric bud, embryonic kidneys were dissected and treated with DNase (100 U/ml; Boehringer Mannheim) and trypsin (1 mg/ml; Sigma) for 10 min at 37C in L-15 media. The mesenchyme was freed with minutia pins (Fine Scientific) and the tissues were transferred to L-15 with soybean trypsin inhibitor (1 mg/ml). Cross-contamination between ureteric buds and metanephric mesenchymes was ruled out by visual inspection and staining with dolichos bifloris lectin, which selectively stains the ureteric bud at this stage. In all, approximately 1,200 rat ureteric buds and 240 rat mesenchymes were harvested to prepare RNA. Total RNA from ureteric buds and metanephric mesenchymes was extracted using RNeasy mini kit (Qiagen, Valencia, CA) with on-column DNase digestion according to the manufacturer´s instructions. Targets were produced using standard Affymetrix procedures from 1 ug of total RNA. 2 replicates of the target labeling process were analyzed for each sample.
Keywords = Rattus norvegicus, metanephric mesenchyme, ureteric bud, molecular screen for spatially restricted transcripts
Submission date Nov 13, 2004
Last update date Oct 28, 2005
Contact name Kai Martin Schmidt-Ott
Organization name Max-Delbrueck Center for Molecular Medicine
Department Differentiation and Regeneration of Kidney Epithelia
Lab Kai Schmidt-Ott
Street address Robert-Roessle-Str. 10
City Berlin
ZIP/Postal code 13125
Country Germany
Platform ID GPL86
Series (1)
GSE1983 Transcriptional Profiling of the Metanephric Kidney

Data table header descriptions
VALUE 'signal' a measure of the abundance of a transcript according to robust multichip analysis (RMA)

Data table
AFFX_rat_5S_rRNA_at 158.6
AFFX_Rat_beta-actin_3_at 12170.1
AFFX_Rat_beta-actin_3_st 102.9
AFFX_Rat_beta-actin_5_at 10738.8
AFFX_Rat_beta-actin_5_st 133.0
AFFX_Rat_beta-actin_M_at 14045.5
AFFX_Rat_beta-actin_M_st 66.5
AFFX_Rat_GAPDH_3_at 8855.4
AFFX_Rat_GAPDH_3_st 23.7
AFFX_Rat_GAPDH_5_at 6410.6
AFFX_Rat_GAPDH_5_st 208.1
AFFX_Rat_GAPDH_M_at 9077.1
AFFX_Rat_GAPDH_M_st 133.4
AFFX_Rat_Hexokinase_3_at 192.5
AFFX_Rat_Hexokinase_5_at 132.2
AFFX_Rat_Hexokinase_M_at 302.7
AFFX_ratb1/X12957_at 89.9
AFFX_ratb2/X14115_at 61.4
AFFX-BioB-3_at 120.7
AFFX-BioB-3_st 156.9

Total number of rows: 8791

Table truncated, full table size 178 Kbytes.

Supplementary data files not provided

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