TfRc Dependent Gene Expression in Embryonic Renal Cells
From ArrayWiki
| PubMed ID: | none |
|---|---|
| Contact: | Jonathan Barasch
|
| Species: | Mus musculus |
| Platform: | [Mouse430_2] Affymetrix Mouse Genome 430 2.0 Array |
| Number of Samples: | 4 |
| Date Range: | 05/06/2005 - 06/09/2005 |
| Experiment Quality: | 95.7 1.86 % 96.92 |
| Link to Repository: | GSE7396 |
| Original Intensity Data: | Download |
| Clean Intensity Data: | Download |
| Original PLIER Data: | Download |
| Clean PLIER Data: | Download |
| Clean CEL Files: | Download |
| Data Rank: | 
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We investigated the ability of transferrin receptor1 (TfRc) knockout cells to populate different domains of the developing kidney by using a chimeric approach. The TfRc cells developed into all segments of the developing nephron, but there was a relative exclusion from the ureteric bud and a positive bias towards the stromal compartment. Here we conducted a microarray analysis of differential gene expression between TfRc deficient and wild type (wt) cells in chimeric embryonic kidneys derived from embryos created by blastocyst injection of wt blastocysts with TfRc-/- green fluorescent protein-expressing (GFP+) embryonic stem cells.
Keywords: cell type comparison, genetic modification, iron signaling
Design: Following blastocyst injection of 3-5 TfRc-/- GFP+ embryonic stem cells in wt blstocysts, we harvested the chimeric kidney at day E15.5 and separated the TfRc-/- GFP+ cell population from wt GFP- cell population by using fluorescence activated cell sorting. Biotinlyated cRNA was prepared from the isolated cells and hybridized to Mouse Genome 430 2.0 Arrays (Affymetrix) according to standard protocols.
Type: Expression profiling by array
Contents |
[edit] Contributors
- JauYi Li
- Neal Paragas
- Kai M Schmidt-Ott
- Xia Chen
- Jonathan Barasch
[edit] Protocols
[edit] References
[edit] Links
GEO Accession for this experiment: GSE7396. (Public on Aug 01 2008)
RAW data: tar file.
[edit] Analysis
 Before Normalization |
 After Normalization & Cleaning |
[edit] Samples/Quality Control
| Sample | Date Scanned | Source Link | Probe Variance Data | Artifact Mask | Quality Score |
|---|---|---|---|---|---|
| wildtype (GFP-negative) kidney cells, biological rep1 | 05/06/05 12:22:25 | GSM177573.CEL | 
| 
| 95.1667 2.02 % 96.57 |
| wildtype (GFP-negative) kidney cells, biological rep2 | 06/09/05 11:05:11 | GSM177574.CEL | 
| 
| 95.7026 0.29 % 97.71 |
| Tfrc-/- (GFP-positive) kidney cells, biological rep1 | 06/09/05 10:53:58 | GSM177575.CEL | 
| 
| 96.0925 0.27 % 97.91 |
| Tfrc-/- (GFP-positive) kidney cells, biological rep2 | 05/06/05 12:35:06 | GSM177576.CEL | 
| 
| 95.7974 1.86 % 96.97 |
