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Sample GSM136779 Query DataSets for GSM136779
Status Public on May 08, 2008
Title Pig melanoma cells from lung metastasis
Sample type SAGE
Anchor Sau3A
Tag Count 11685
Tag Length 10
 
Source name Primary culture of melanoma cells from a lung metastasis in MeLiM minipigs
Organism Sus scrofa
Characteristics Melanoma cells were prepared from the biopsy of a lung metastasis of minipiglet, 2 and a half months old, with spontaneous cutaneous melanoma and metastasis in lymph nodes, lung, spleen, and liver. 48hs culture of tumoral cells resulted in melanocytic bipolar and pigmented cells.
Treatment protocol Gentamicine, penicilline, steptomycin and fungizone treatment of the biopsies before and during the primary culture.
Growth protocol Conditions for primary culture of pig melanocytic cells were described in Julé et al, Pigment Cell Research 16:407-410, 2003.
Extracted molecule polyA RNA
Extraction protocol Dynabead mRNA direct kit
 
Description Library was generated using the SAGE adaptation for downsized extracts (SADE) method (Virlon et al, P.N.A.S. 96:15286-15291, 1999). Cell lysates were centrifugated to discard melanin.
Data processing SAGE 2002 version 4.5 software
 
Submission date Sep 19, 2006
Last update date Nov 19, 2008
Contact name Giorgia Egidy
E-mail(s) gegidy@vet-alfort.fr
Phone 33 1 4396 7002
Fax 33 1 4396 7169
Organization name INRA-ENVA
Department UMR955
Lab Génétique Moléculaire et Cellulaire
Street address 7, ave Gral de Gaulle
City Maisons-Alfort
ZIP/Postal code 94704
Country France
 
Platform ID GPL4262
Series (1)
GSE5982 Gene expression in melanocytes and metastases melanoma cells from the pig

Data table header descriptions
TAG Sau3A melanoma
COUNT
TPM tags per million

Data table
TAG COUNT TPM
ACCCGCAATA 342 29268.29
GCCTGGACCA 90 7702.18
GATTGCGGGG 87 7445.44
AACCTAATTA 77 6589.64
GACAGGTTCA 74 6332.91
ACATCCATCA 73 6247.33
AACAGACTTA 71 6076.17
AAGGGTGTTA 64 5477.11
TTATTTGTGA 63 5391.53
AACTCAATAA 62 5305.95
CAGTGTTGCA 57 4878.05
CCGCGTTGCT 57 4878.05
AAGTGTGTGG 56 4792.47
GGGTTGCTCA 54 4621.31
TTTGCTGGCA 52 4450.15
TCACAATAAC 49 4193.41
TGCCGTTAAT 49 4193.41
AAAGCAGCAG 46 3936.67
ACCCTGGCTG 46 3936.67
AGTATCAACA 46 3936.67

Total number of rows: 6131

Table truncated, full table size 115 Kbytes.




Supplementary data files not provided

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