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| Status |
Public on Jul 01, 2024 |
| Title |
EC_UP_13107_0_GC |
| Sample type |
RNA |
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| Source name |
Human Enterohinal Cortex
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| Organism |
Homo sapiens |
| Characteristics |
treatment group and time: Free of Dementia Histopathology
age: 61
Sex: M
biobank: UP
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| Treatment protocol |
Confirmation of lack of histopathology evidence for dementia at the source NIH funded brain banks (Harvard, Los Angeles, University of Miami, Mount Sinai, University of Pittsburgh and Minnesota University)
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| Growth protocol |
N/A
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| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol
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| Label |
biotin
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| Label protocol |
Affymetrix WT kit
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| Hybridization protocol |
Standard
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| Scan protocol |
Standard
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| Description |
Human Enterohinal Cortex
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| Data processing |
CEL files were GC correct and then processed using IRON (default settings) using custom CDFs. The full length transcript probe-set based data are provided along with the custom CDF. A 2SD filter was utilised to distinguish protein coding gene expression above background
GC_Miami_CD_Brain_CDF_cv_0.3_i_8_Grch38_gencode43_transcript,binary.cdf
CDF probes were aligned to genome reference Grch38 and transcriptome reference gencode43
Log 2 values generated using IRON from GC corrected CEL files. No filter has been applied for detected above background. Critically, a filter of 2SD should be applied to remove non expressed protein coding genes, if this data is to be used for any global analysis
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| Submission date |
May 30, 2024 |
| Last update date |
Jul 01, 2024 |
| Contact name |
James Timmons |
| E-mail(s) |
jamie@augurprecisionmedicine.com, jamie.timmons@gmail.com
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| Organization name |
Augur Precision Medicine LTD
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| Street address |
Bridge of Allan
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| City |
Stirling |
| ZIP/Postal code |
FK9 4AX |
| Country |
United Kingdom |
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| Platform ID |
GPL34536 |
| Series (1) |
| GSE268659 |
Analysis of genes in human entorhinal cortext samples by age (selected from a pre-clinical study of experimental menopause in 3xTg-AD mice) |
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| Supplementary file |
Size |
Download |
File type/resource |
| GSM8296123_EC_UP_13107_0_GC.CEL.gz |
22.1 Mb |
(ftp)(http) |
CEL |
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