GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Sample GSM35287 Query DataSets for GSM35287
Status Public on Jul 01, 2005
Title UB 2B
Sample type RNA
Source name E13.5 ureteric bud
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 218.7
AFFX_Rat_beta-actin_3_at 2978.3
AFFX_Rat_beta-actin_3_st 148.9
AFFX_Rat_beta-actin_5_at 1075.8
AFFX_Rat_beta-actin_5_st 173.1
AFFX_Rat_beta-actin_M_at 1838.4
AFFX_Rat_beta-actin_M_st 95.0
AFFX_Rat_GAPDH_3_at 9171.4
AFFX_Rat_GAPDH_3_st 68.9
AFFX_Rat_GAPDH_5_at 1737.4
AFFX_Rat_GAPDH_5_st 221.8
AFFX_Rat_GAPDH_M_at 4889.4
AFFX_Rat_GAPDH_M_st 161.4
AFFX_Rat_Hexokinase_3_at 83.0
AFFX_Rat_Hexokinase_5_at 43.8
AFFX_Rat_Hexokinase_M_at 182.6
AFFX_ratb1/X12957_at 107.3
AFFX_ratb2/X14115_at 61.4
AFFX-BioB-3_at 341.3
AFFX-BioB-3_st 141.5

Total number of rows: 8791

Table truncated, full table size 178 Kbytes.

Supplementary data files not provided

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap