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Status
Public on Feb 20, 2009
Title
University of Padova Sparus aurata 40k array version 1
Technology type
in situ oligonucleotide
Distribution
custom-commercial
Organism
Sparus aurata Manufacturer
Agilent Technologies
Manufacture protocol
See manufacturer's web site at http://www.agilent.com/
Catalog number
G2514F
Support
glass
Coating
unknown
Description
GE 4x44k oligo microarray that covers 19,715 unique transcripts of the gilthead sea bream (Sparus aurata). Oligonucleotides, 60-mer plus a “linker”, are synthesized directly on glass slide using the Agilent’s SurePrint Tecnology; oligo design was carried out by Agilent and two non overlapping probes were designed for each ESTs cluster. The number of transcripts represented by two probes is 19,664 while 51 targets have only one probe; the total number of target probes in the platform is 39379. Both independent probes designed for the same transcript are named with an univocal ID and distinguished by suffix _1 or _2. Sequence and description of each gene (cluster) are available in the SAPD database (http://enne.cribi.unipd.it:5555/biomart/martview ), where cluster ID corresponds to probe ID on the array. (Access to SAPD database will be free after publication. Login and password are now required and will be provided upon request).
Web link
http://enne.cribi.unipd.it:5555/biomart/martview Citation(s)
19055773 Submission date
Feb 07, 2008
Last update date
May 23, 2012
Contact name
Luca Bargelloni
E-mail(s)
luca.bargelloni@unipd.it Phone
0498272506
Organization name
Agripolis
Department
Dept. Sanità Pubblica, Patologia Comparata ed Ig. Veterinaria
Street address
Viale dell'Università 16
City
Legnaro
State/province
PD
ZIP/Postal code
35020
Country
Italy
Samples (66)
GSM305530 , GSM305531 , GSM305544 , GSM305545 , GSM305546 , GSM305547
GSM305548 ,
GSM305549 ,
GSM305550 ,
GSM305551 ,
GSM305584 ,
GSM305585 ,
GSM305586 ,
GSM305587 ,
GSM468636 ,
GSM468637 ,
GSM468638 ,
GSM468639 ,
GSM468640 ,
GSM468641 ,
GSM469212 ,
GSM469213 ,
GSM469214 ,
GSM469215 ,
GSM469216 ,
GSM469217 ,
GSM804620 ,
GSM804621 ,
GSM804622 ,
GSM804623 ,
GSM804624 ,
GSM804625 ,
GSM804626 ,
GSM804627 ,
GSM804628 ,
GSM804629 ,
GSM804630 ,
GSM804631 ,
GSM804632 ,
GSM804633 ,
GSM804634 ,
GSM804635 ,
GSM1245874 ,
GSM1245875 ,
GSM1245876 ,
GSM1245877 ,
GSM1245878 ,
GSM1245879 ,
GSM1245880 ,
GSM1245881 ,
GSM1245882 ,
GSM1245883 ,
GSM1245884 ,
GSM1245885 ,
GSM1245886 ,
GSM1245887 ,
GSM1245888 ,
GSM1245889 ,
GSM1245890 ,
GSM1245891 ,
GSM1245892 ,
GSM1245893 ,
GSM1245894 ,
GSM1245895 ,
GSM1245896 ,
GSM1245897 Series (6)
GSE12116 Expression profiles in two early developmental stages of Sparus aurata
GSE12118 Technical replicates to determine array-to-array reproducibility.
GSE18915 Comparison of gene expression profile of gilthead seabream mineralization-induced VSa13 cells against controls
GSE18941 Comparison of gene expression profile of gilthead seabream mineralization-induced VSa16 cells against controls
GSE32501 Overexpression of four and a half LIM domains protein 2 promotes epithelial-mesenchymal transition-like phenotype in fish pre-osteoblasts
GSE51442 Transcriptome analysis of gilthead sea bream Sparus aurata liver upon exposure to low temperature
Relations Alternative to
GPL13926
Data table header descriptions ID Row Feature location: row
Col Feature location: column
SubTypeMask Numeric code defining the subtype of any control feature
SubTypeName Name of subtype of any control feature
ControlType Feature control type
ProbeName Identifier for the probe synthesized on the microarray
SEQUENCE The sequence of bases printed on the array
GB_ACC GenBank Accession number
GI GenBank identifier number
SPOT_ID
Data table ID Row Col SubTypeMask SubTypeName ControlType ProbeName SEQUENCE GB_ACC GI SPOT_ID 1
1
1
260
BrightCorner
1
GE_BrightCorner
--GE_BrightCorner
2
1
2
66
Structural
1
DarkCorner
--DarkCorner
3
1
3
66
Structural
1
DarkCorner
--DarkCorner
4
1
4
66
Structural
1
DarkCorner
--DarkCorner
5
1
5
66
Structural
1
DarkCorner
--DarkCorner
6
1
6
66
Structural
1
DarkCorner
--DarkCorner
7
1
7
66
Structural
1
DarkCorner
--DarkCorner
8
1
8
66
Structural
1
DarkCorner
--DarkCorner
9
1
9
66
Structural
1
DarkCorner
--DarkCorner
10
1
10
66
Structural
1
DarkCorner
--DarkCorner
11
1
11
66
Structural
1
DarkCorner
--DarkCorner
12
1
12
0
0
SAPD14531_1
TGTGCAATTTCCAACAGTAATATTTACATTTTCATGCTGTCGAGCTCTTGCTGCCAGATG
AM966172 13
1
13
0
0
SAPD08313_1
TTTCCAATGTCTGCTCATGTCTTGTATACACCAGCTACACCGTCATTTGTTCCTGTGGGA
AM975675 14
1
14
0
0
SAPD11437_2
CCTCACATGTTCGTATTCAGCTGAAATGTTGATGGAGCTAGAATATCATAGCTTTTTAAA
AM971748 15
1
15
0
0
SAPD12002_2
TGTGCATCTTACCTGCCACATTGAGCAGCTGTATATTGTCTCAGCTGATCATTTGCATTA
AM966212 16
1
16
0
0
SAPD08641_1
GATCACCTCTGATCTCTCACCTGTTTCTATGTTCATATAATAAATAGTGCCTTGAAAATG
AM976525 17
1
17
0
0
SAPD24990_1
GCCAACAGGAGTCACTATATTCACCATTGTTTGCTCTCTTAATTCCTTTTAATCTACAAA
AM966289 18
1
18
0
0
SAPD09303_2
ACAGTGAACTAGACCTGTACACAACGTAAACACAACACATGGCTGCATAAAGGTCGCACA
AM962371 19
1
19
0
0
SAPD20037_1
CACTTATCAATGACTGTATGAATAAAACAGGCAACCACCTGTTTTACCAATCCATGAATT
AM950708 20
1
20
0
0
SAPD12450_2
CACTCAATCTCTTGAATGCTGAATTATCATAAAAATGACTGGCATCTCCTAGTTTCATTG
AM970639
40816 3976 Kbytes .Supplementary data files not provided
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