|
| Status |
Public on Dec 29, 2020 |
| Title |
SCLC_02_ca |
| Sample type |
RNA |
| |
|
| Source name |
tumor
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: small cell lung cancer tumor
gender: F
age: 69
smoking_status: Never
tobacco_pack_per_day: NA
smoking_years: NA
tnm_stage: pT2N2M0
neoadjuvant: NO
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Not provided
|
| Label |
biotin
|
| Label protocol |
Not provided
|
| |
|
| Hybridization protocol |
Not provided
|
| Scan protocol |
Not provided
|
| Data processing |
CEL files were read into an AffyBatch object by AffyBatch function under the affy R package, alternative cdf package hgu133plus2hsentrezg was downloaded from http://mbni.org/customcdf/21.0.0/entrezg.download/hgu133plus2hsentrezg.db_21.0.0.zip and was specified in the function so that the resulting expression data was processed to gene level rather than the original probe level. (Probe name follows format concatenating Entrez ID for the gene and _at. For example 3939_at corresponds to gene LDHA). The AffyBatch object was then converted to an expression set using robust multi-array average (RMA) expression measure by running the rma function under R package affy. Quantile normalization was performed by running normalize.quantiles function from R package preprocessCore
|
| |
|
| Submission date |
Apr 28, 2020 |
| Last update date |
Dec 29, 2020 |
| Contact name |
Ling Cai |
| E-mail(s) |
ling.cai@utsouthwestern.edu
|
| Organization name |
UT Southwestern Medical Center at Dallas
|
| Street address |
5323 Harry Hines Boulevard
|
| City |
Dallas |
| State/province |
TX |
| ZIP/Postal code |
75390 |
| Country |
USA |
| |
|
| Platform ID |
GPL23270 |
| Series (1) |
| GSE149507 |
Microarray expression data of 18 pairs of small cell lung cancer (sclc) and tumor and adjacent lung tissues |
|
