|
| Status |
Public on Apr 03, 2007 |
| Title |
heartgraft_Syngeneic_early_rep3. |
| Sample type |
RNA |
| |
|
| Source name |
heart graft, Syngeneic, day 10
|
| Organism |
Mus musculus |
| Characteristics |
Strain: C57BL/6, Gender: male, Age: 16 weeks, Tissue: heart (transplanted graft)
|
| Treatment protocol |
At Day 10 post heart transplantation, recipient mice were euthanized for examination. The graft heart tissues for RNA extraction were immediately frozen and kept at -80°C.
|
| Growth protocol |
Intra-abdominal heterotopic heart transplantation was performed at 2 to 4 weeks after BMT. Heart grafts from C57BL/6 mice were transplanted into GalT BMT mice and C57BL/6 syngeneic control mice.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from graft heart tissue using RNeasy Fibrous Tissue Mini (QIAGEN) according to manufacturer's protocol.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA.
|
| |
|
| Hybridization protocol |
Following fragmentation, 10 ug of cRNA were hybridized on GeneChip Mouse 430_2.0 Array. GeneChips were washed and stained using Affymetrix Hyb/Wash/Stain Kit.
|
| Scan protocol |
GeneChips were scanned using GeneChip Scanner 3000.
|
| Description |
Gene expression data from heart graft transplanted in syngeneic recipient
|
| Data processing |
The probe set level data was analyzed with the dCHIP software (dCHIP 2006, Build date: Jul 18 2006) and only the values as determined by the model-based expression level deemed ”present” using the perfect/mis match difference correction model with single probe rejection were considered further.
[dChip Expression Data File]
FileName=C:\Dennis\data\tomoko\MaryK-new2expression.xls
dChipVersion=dChip 2006 (DNA-Chip Analyzer), Build date: Jul 18 2006
BaselineArray=C:\Dennis\data\tomoko\J888-A-Mouse430_2-01-1 (102206).CEL
ModelMethod=PM/MM difference model
CheckOutlier=Single,Probe,
ImageSpikeAsSingleOutlier=Yes
ArrayListFile=
ReplicateNotAllOutlier=No
LogTransformed=No (with base 2)
TruncateLowValue=Yes (to value 0)
TruncateToAbsentPercent=Yes (to percent 10)
PSIFileUsage=Do not use (C:\Dennis\specsU133a.psi)
OutputArrayOutlierAsBlank=No
OutputBothSignalAndCall=Yes
OutputStandardError=Yes
|
| |
|
| Submission date |
Apr 02, 2007 |
| Last update date |
Aug 28, 2018 |
| Contact name |
Tomoko Doki |
| E-mail(s) |
tdoki@chla.usc.edu
|
| Phone |
323-669-5652
|
| Fax |
323-662-1709
|
| Organization name |
Childrens Hospital Los Angeles
|
| Department |
Cardiothoracic Surgery Research
|
| Lab |
Transplantation Biological Research Laboratory
|
| Street address |
4661 Sunset Blvd.
|
| City |
Los Angeles |
| State/province |
CA |
| ZIP/Postal code |
90027 |
| Country |
USA |
| |
|
| Platform ID |
GPL1261 |
| Series (1) |
| GSE7424 |
Intragraft gene expression profile associated with the induction of tolerance |
|
| Relations |
| Reanalyzed by |
GSE119085 |
