|
| Status |
Public on Oct 22, 2015 |
| Title |
ALCL - sample 21 |
| Sample type |
RNA |
| |
|
| Source name |
Human peripheral blood T cells
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: peripheral blood T cells
sample origin: University of Wuerzburg, Germany
original name: ALCL_H283004
alk positivity: neg
|
| Treatment protocol |
According to what described for: GSE6338, GSE14879, GSE19069; in other cases, the cryopreserved tissues obtained at the time of diagnosis had been stored in liquid nitrogen or -80 degree C before total RNA extraction.
|
| Growth protocol |
not applicable
|
| Extracted molecule |
total RNA |
| Extraction protocol |
According to what described for: GSE6338, GSE14879, GSE19069; in other cases, total RNA from cryopreserved samples were extracted using TRIzol reagent (Invitrogen) according to the manufacturer’s protocols and further purified with RNeasy Mini Columns (Qiagen, Valencia, CA), before aliquots were run in agarose gel electrophoresis and measured by spectrophotometer at 260 and 280 nm to assess the quality of the RNA.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix protocol.
|
| |
|
| Hybridization protocol |
Fragmentation of cRNA, microarray hybridisation to Affymetrix GeneChip Human Genome U133 Plus 2.0 arrays, washing steps of the microarrays was performed according to the Affymetrix protocol.
|
| Scan protocol |
Scanning was performed according to the Affymetrix protocol.
|
| Data processing |
Normalization was performed with the robust multiarray average procedure using the appropriate functions in the affy package for Bioconductor (http://bioconductor.org).
|
| |
|
| Submission date |
Feb 10, 2015 |
| Last update date |
Oct 22, 2015 |
| Contact name |
Luca Agnelli |
| E-mail(s) |
luca.agnelli@istitutotumori.mi.it, luca.agnelli@gmail.com
|
| Phone |
+390223903581
|
| Organization name |
IRCCS Istituto Nazionale dei Tumori
|
| Department |
Department of Advanced Diagnostics
|
| Street address |
Venezian 1
|
| City |
MILAN |
| ZIP/Postal code |
20133 |
| Country |
Italy |
| |
|
| Platform ID |
GPL570 |
| Series (1) |
| GSE65823 |
Identification of a new subclass of ALK negative ALCL expressing aberrant levels of ERBB4 transcripts |
|
