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Sample GSM442908 Query DataSets for GSM442908
Status Public on Aug 28, 2009
Title Small tumor 3230S
Sample type RNA
 
Source name size:small, tumor
Organism Mus musculus
Characteristics size: small
tissue: neuroblastoma tumor
tumor weight: 0.05 g
life span: 31 days
Growth protocol TH-MYCN transgenic mice were bred to homozygosity and examined with high frequency ultrasonography (Vevo770 Visual Sonics Inc) three times per week was initiated immediately upon weaning at day 28 to detect asymptomatic tumors and track tumor growth. Mice were sacrificed when tumor dimensions were within one of four predetermined size ranges.Six replicates harvested within four size cohorts.
Extracted molecule total RNA
Extraction protocol RNA was extracted from 10µm frozen sections using Qiagen RNeasy Micro Kit (Qiagen, Valencia, CA). Tumor total RNA (76ng-1.6µg) was used to generate cDNA targets.
Label Digoxigenin
Label protocol standard ABI protocol
 
Hybridization protocol Samples hybridized using Applied Biosystems Mouse Genome Survey Microarray version 1.0 standard protocol
Scan protocol ABI Mouse Genome Survery Microarray version 1.0 standard scanning protocol
Description n/a
Data processing ABI Mouse Genome Survery Microarray version 1.0 standard data processing protocol. Raw probe-level measurements were processed by quantile normalization for sample quality control.
 
Submission date Aug 20, 2009
Last update date Aug 27, 2009
Contact name Jayanti Jagannathan
E-mail(s) jagannathan@email.chop.edu
Phone 2674262286
Organization name Childrens Hospital of Philadelphia
Department Oncology
Street address 34th & Civic center blvd
City Philadelphia
State/province PA
ZIP/Postal code 19104
Country USA
 
Platform ID GPL2995
Series (1)
GSE17740 Serial transcriptome analysis and cross species integration identifies CENPE as novel neuroblastoma target

Data table header descriptions
ID_REF
VALUE Raw data generated by ABI Mouse Genome Survey Microarray Version 1.0 software module. The data contains the raw signal value, the S/N or signal to noise ratio and Flag value for each sample. For analyses, Flag > 5000 and S/N < 3 are not included due to decreased quality and accuracy.
3230S_S/N
FLAGS

Data table
ID_REF VALUE 3230S_S/N FLAGS
297784 31943.49 32.4 0
297907 415.76 -0.09 1
297912 3359.29 11.76 0
297935 258.17 0.02 1
297990 1827.86 5.46 0
297993 829.95 3.45 0
298000 17319.8 46.72 0
298038 248.31 -1.26 1
298121 308.18 -0.45 1
298130 738.17 0.52 1
298143 36361.14 38.78 0
298150 647.85 2.78 0
298151 1717.69 6.41 0
298155 212.92 -0.86 1
298165 6531.74 18.98 0
298174 2877.87 10.12 0
298188 1483 3.43 0
298200 197437.38 60.81 0
298246 429.58 -2.79 1
298248 213.22 -2.68 1

Total number of rows: 32996

Table truncated, full table size 708 Kbytes.




Supplementary data files not provided
Processed data are available on Series record

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