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Sample GSM110625 Query DataSets for GSM110625
Status Public on May 31, 2006
Title A X100B08
Sample type RNA
 
Source name Breast Tumor
Organism Homo sapiens
Characteristics INDEX (ID): X100B08
Elston (NGS) histologic grade: 1
Genetic grade signature status prediction (by SWS classifier): 1-like
Probability 1-like (by SWS classifier): 0.95926517571885
Probability 3-like (by SWS classifier): 0.0407348242811502
DFS TIME (yrs): 11.83333333
DFS EVENT (0=censored; 1=event defined as any type of recurrence (local, regional or distant) or death from breast cancer: 0
All patients (1=included in survival analysis): 1
ER+, endocrine therapy only (1=included in survival analysis):
No systemic therapy (1=included in survival analysis): 1
ER status: ER+
Lymph node status: LN-
p53 seq mut status (p53+=mutant; p53-=wildtype): p53-
age at diagnosis: 68
tumor size (mm): 9

Extracted molecule total RNA
Extraction protocol Qiagen RNeasy Mini Kit
Label biotin
Label protocol Approximately 10ug of total RNA was processed to produce biotynylated cRNA targets
 
Hybridization protocol Standard Affymetrix procedure
Scan protocol Standard Affymetrix procedure
Description Series of 249 tumours
Data processing Affymetrix Microarray Suite Version 5.0
 
Submission date May 25, 2006
Last update date May 31, 2006
Contact name Lance David Miller
E-mail(s) millerl@gis.a-star.edu.sg
Phone 65 6478 8100
Fax 65 6478 9060
URL http://www.gis.a-star.edu.sg/internet/site/investigators.php?f=cv&user_id=7
Organization name Genome Institute of Singapore
Department Microarray and Expression Genomics
Street address 60 Bioplois Street, #02-01 Genome
City Singapore
ZIP/Postal code 138672
Country Singapore
 
Platform ID GPL96
Series (1)
GSE4922 Genetic Reclassification of Histologic Grade Delineates New Clinical Subtypes of Breast Cancer

Data table header descriptions
ID_REF Affy ID
VALUE MAS5-calculated signal intensity, raw data were normalized by using the global mean method. Probe-set signal values were natural log transformed and scaled
ABS_CALL the call in an absolute analysis that indicates if the transcript was pressent (P). absent (A), marginal (M) or no call (NC)
DETECTION P-VALUE the p-value that indicates the significance level of the detection call

Data table
ID_REF VALUE ABS_CALL DETECTION P-VALUE
212223_at 7.5283865762864 P 0.0048898452144488
204339_s_at 5.62113156934585 A 0.70350996100991
212356_at 7.46674066626714 A 0.0907246701401557
212489_at 8.71669539548175 P 0.00164179881927007
208850_s_at 7.90635473750185 P 0.00164179881927007
208973_at 6.31816783076242 P 0.0373956404974136
210122_at 2.54847298379146 A 0.922978176365498
208174_x_at 7.8107483698245 P 0.00287512549712787
210255_at 5.36794275612832 P 0.0202308511531004
210388_at 4.09414454610406 A 0.95473940454311
207430_s_at 4.63649721436744 A 0.142524741492000
206872_at 6.16284326677117 A 0.394634090179955
207624_s_at 5.94595979188476 P 0.0129676797672666
213315_x_at 7.87805534234773 P 0.0048898452144488
219856_at 2.84489819756488 A 0.70350996100991
213509_x_at 7.83250650883439 A 0.0770218236345017
207818_s_at 1.54654132940278 A 0.857475258508
200656_s_at 8.08463231173068 P 0.00164179881927007
217622_at 5.70769317685453 A 0.2664419661303
204916_at 6.51127285453828 A 0.123405137319250

Total number of rows: 22283

Table truncated, full table size 1055 Kbytes.




Supplementary file Size Download File type/resource
GSM110625.CEL.gz 3.4 Mb (ftp)(http) CEL

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