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Sample GSM11769 Query DataSets for GSM11769
Status Public on Jan 01, 2004
Title LMS818
Sample type RNA
 
Source name uterine leiomyosarcoma
Organism Homo sapiens
Extracted molecule total RNA
 
Description Comparison of Gene Expression in Uterine Smooth Muscle Tumors (including normal myometrium, benign uterine leiomyoma, malignant uterine and extra-uterine leiomyosarcoma. Total RNA was isolated with Trizol and converted to labeled cRNA by standard Affymetrix protocols. Before analysis, Avg Diff values were normalized to a sum of 3 million for each probe set on the chip and values less than 20 were adjusted to 20 to allow log scaling in subsequent analysis.
 
Submission date Oct 20, 2003
Last update date May 28, 2005
Contact name Bradley J Quade
E-mail(s) bquade@partners.org
Phone 617-732-5475
Fax 617-738-6996
URL http://www.bwhpathology.org/gynpath/
Organization name Brigham and Women's Hospital
Department Pathology
Lab Division of Women's and Perinatal Pathology
Street address 75 Francis Street
City Boston
State/province MA
ZIP/Postal code 02115
Country USA
 
Platform ID GPL80
Series (2)
GSE764 Comparison of Gene Expression in Uterine Smooth Muscle Tumors
GSE9511 Characterization of Plexiform Leiomyomata Provide Further Evidence for Genetic Heterogeneity Underlying Uterine Fibroids

Data table header descriptions
ID_REF
VALUE Normalized (Avg Diff) Average Difference hybridization intensity value (see sample description for normalization)
POSITIVE number of pairs with positive signal
NEGATIVE number of pairs with negative signal
PAIRS_USED number of pairs used for analysis
PAIRS_IN_AVG trimmed probe pair set
POS_FRACTION #positive probe pairs/#of probe pairs used
LOG_AVG log average ratio (see Affymetrix literature for formula)
AVG_DIFF raw Avg Diff value prior to normalization
ABS_CALL absolute call of Presence or Absence of gene transcript in sample
SELECTED_SMOOTH_MUSCLE_TUMOR_GENE boolean (true/false) variable to identify genes selected by ANOVA and combined Ratio/Threshold filter

Data table
ID_REF VALUE POSITIVE NEGATIVE PAIRS_USED PAIRS_IN_AVG POS_FRACTION LOG_AVG AVG_DIFF ABS_CALL SELECTED_SMOOTH_MUSCLE_TUMOR_GENE
A28102_at 314.02 5 0 16 16 0.31 1.30 197.00 A false
AB000114_at 25.50 4 3 20 19 0.20 0.08 16.00 A false
AB000115_at 293.30 12 2 20 18 0.60 2.18 184.00 P false
AB000220_at 94.04 10 1 20 19 0.50 1.62 59.00 P false
AB000381_s_at 71.73 4 2 19 17 0.21 -0.22 45.00 A false
AB000409_at 81.29 6 0 20 18 0.30 1.15 51.00 A false
AB000410_s_at 20.00 4 6 20 19 0.20 -0.34 -250.00 A false
AB000449_at 20.00 5 1 20 19 0.25 0.76 11.00 A false
AB000450_at 172.15 9 2 20 19 0.45 2.17 108.00 P false
AB000460_at 943.66 13 1 20 18 0.65 2.75 592.00 P false
AB000462_at 41.44 5 0 20 18 0.25 0.66 26.00 A false
AB000464_at 154.62 8 0 20 18 0.40 1.21 97.00 P false
AB000466_at 20.00 2 6 20 18 0.10 -0.48 -190.00 A false
AB000467_at 20.00 2 5 20 18 0.10 -0.13 -155.00 A false
AB000468_at 489.36 9 0 20 19 0.45 1.68 307.00 P false
AB000584_at 20.00 6 4 20 19 0.30 0.14 -69.00 A false
AB000816_s_at 20.00 3 6 20 17 0.15 -1.95 -56.00 A false
AB000895_at 20.00 5 7 20 18 0.25 -0.44 -242.00 A false
AB000896_at 20.00 5 5 20 17 0.25 0.74 11.00 A false
AB000897_at 20.00 3 2 20 19 0.15 0.19 0.00 A false

Total number of rows: 7129

Table truncated, full table size 368 Kbytes.




Supplementary data files not provided
Processed data included within Sample table
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