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Sample GSM748 Query DataSets for GSM748
Status Public on Nov 28, 2001
Sample type SAGE
Anchor NlaIII
Tag Count 8163
Tag Length 10
Source name Adenocarcinoma, malignant effusion
Organism Homo sapiens
Extracted molecule total RNA
Description ATCC cell line SK-BR-3. Human breast adenocarcinoma, malignant pleural effusion, estrogen receptor negative. 43 yo female treated with radiation, steroids, cytoxan, 5-fluorouracil.
Sex: Female
Organ: Breast
Cell_type: Epithelium
Cell_line: SK-BR-3
Library treatment: non-normalized
Tissue description: ATCC cell line SK-BR-3. Human breast adenocarcinoma from a malignant pleural effusion. Estrogen receptor negative. Patient treated with ratiation, steroids cytoxan and 5-fluorouracil.
Tissue supplier: C. Marcelo Aldaz
Sample type: Cell line
Producer: Aldaz Laboratory
Clones generated to date: 0
Sequences generated to date: 122

This library represents a Cancer Genome Anatomy Project library, which was either produced through CGAP funding, or donated to CGAP.
The Cancer Genome Anatomy Project (CGAP: is an interdisciplinary program established and administered by the National Cancer Institute (NCI: to generate the information and technological tools needed to decipher the molecular anatomy of the cancer cell.
Keywords = mammary gland
Keywords = adenocarcinoma
Keywords = SAGE
Keywords = cell line
Keywords = CGAP
Keywords = non-normalized
Keywords = SAGE library method
Keywords = cell line
Submission date Nov 28, 2001
Last update date May 28, 2005
Contact name C Marcelo Aldaz
Phone 512-237-9530
Organization name M.D. Anderson Cancer Center
Department Science Park Research Division, Carcinogenesis
Street address
City Smithville
State/province TX
ZIP/Postal code 78957
Country USA
Platform ID GPL4
Series (1)
GSE25748 SAGE analysis of normal human mammary epithelial cells, breast carcinoma (malignant effusion), and breast adenocarcinoma (malignant pleural effusion)

Data table header descriptions
TAG Ten base SAGE tag,
COUNT Absolute tag count
TPM Tags per million, or (1000000*COUNT)/(Total tags)

Data table
ACTTTTTCAA 110 13475.4
GAACACATCC 97 11882.9
AAAAAAAAAA 69 8452.77
CCTAGCTGGA 59 7227.73
AACTAAAAAA 57 6982.73
CCTCCAGCTA 55 6737.72
CTGGGTTAAT 55 6737.72
GCCGAGGAAG 52 6370.21
TTGGTCCTCT 49 6002.7
ATAATTCTTT 46 5635.18
GAGGGAGTTT 41 5022.66
CACAAACGGT 40 4900.16
GAAATACAGT 40 4900.16
CCAGAACAGA 38 4655.15
GAAAAATGGT 34 4165.14
CCGTCCAAGG 32 3920.13
TTGGAGATCT 32 3920.13
AACTAACAAA 31 3797.62
CACTTGCCCT 30 3675.12
AAGGTGGAGG 28 3430.11

Total number of rows: 3968

Table truncated, full table size 81 Kbytes.

Supplementary data files not provided
Processed data included within Sample table

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