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Status
Public on May 22, 2013
Title
University of Padova Anguilla anguilla 8x15K v1.0
Technology type
in situ oligonucleotide
Distribution
custom-commercial
Organism
Anguilla anguilla Manufacturer
Agilent Technologies
Manufacture protocol
See SurePrint Technology at manufacturer's web site http://agilent.com/
Description
Target sequences to be included in the European eel microarray were obtained from the assembly of a total of 640,040 sequence reads obtained by 454 sequencing. The array included all annotated sequences with a blast hit to vertebrates and invertebrates but excluding bacteria, virus, plants, fungi and protozoa. For 12,296 contigs, the putative orientation was unambiguous and a single probe was designed. For 1,390 contigs, the putative orientation was ambiguous and two probes were designed. In order to minimize assembler redundancy, 163 contigs differing by less than 3 nucleotide changes were discarded. The final number of probes was 14,913. Probe design was carried out using Agilent eArray Interface which applies proprietary prediction algorithms to design 60-mer oligoprobes. Microarrays were synthesized in situ using the Agilent ink-jet technology with an 8x15K format (8 arrays in a single slide). Each array contained default positive and negative controls.
Submission date
Jan 12, 2012
Last update date
May 22, 2013
Contact name
Massimo Milan
E-mail(s)
[email protected] Phone
+39 0498272941
Organization name
University of Padova
Department
Dept. of Department of Public Health, Comparative Pathology,and Veterinary Hygiene
Street address
Viale dell'Università 16
City
Legnaro
State/province
PD
ZIP/Postal code
35020
Country
Italy
Samples (101)
GSM861380 , GSM861381 , GSM861382 , GSM861383 , GSM861384 , GSM861385
GSM861386 ,
GSM861387 ,
GSM861388 ,
GSM861389 ,
GSM861390 ,
GSM861391 ,
GSM861392 ,
GSM861393 ,
GSM861394 ,
GSM861395 ,
GSM861396 ,
GSM861397 ,
GSM861398 ,
GSM861399 ,
GSM861400 ,
GSM861401 ,
GSM861402 ,
GSM1012080 ,
GSM1012081 ,
GSM1012082 ,
GSM1012083 ,
GSM1012084 ,
GSM1012085 ,
GSM1012086 ,
GSM1012087 ,
GSM1012088 ,
GSM1012089 ,
GSM1012090 ,
GSM1012091 ,
GSM1012092 ,
GSM1012093 ,
GSM1012094 ,
GSM1012095 ,
GSM1012096 ,
GSM1012097 ,
GSM1012098 ,
GSM1012099 ,
GSM1012100 ,
GSM1012101 ,
GSM1012102 ,
GSM1012103 ,
GSM1012104 ,
GSM1012105 ,
GSM1012106 ,
GSM1012107 ,
GSM1012108 ,
GSM1012109 ,
GSM1012110 ,
GSM1012111 ,
GSM1012112 ,
GSM1012113 ,
GSM1012114 ,
GSM1012115 ,
GSM1012116 ,
GSM1012117 ,
GSM1347615 ,
GSM1347616 ,
GSM1347617 ,
GSM1347618 ,
GSM1347619 ,
GSM1347620 ,
GSM1347621 ,
GSM1347622 ,
GSM1351816 ,
GSM1351817 ,
GSM1351818 ,
GSM1351819 ,
GSM1351820 ,
GSM1351821 ,
GSM1351822 ,
GSM1351823 ,
GSM1351824 ,
GSM1351825 ,
GSM1351826 ,
GSM1351827 ,
GSM1351828 ,
GSM1351829 ,
GSM1351830 ,
GSM1351831 ,
GSM1351832 ,
GSM1351833 ,
GSM1351834 ,
GSM1351835 ,
GSM1351836 ,
GSM1351837 ,
GSM1351838 ,
GSM1351839 ,
GSM1563665 ,
GSM1563666 ,
GSM1563667 ,
GSM1563668 ,
GSM1563669 ,
GSM1563670 ,
GSM1563671 ,
GSM1563672 Series (5)
GSE35055 European eel Anguilla anguilla individuals from high (Tiber river, Italy) and low pollution (Bolsena lake, Italy) environments
GSE41240 An European eel-specific microarray platform was developed to identify genes involved in response to pollutants
GSE55858 Changes in brain gene expression profiles during sexual maturation of European eel (Anguilla anguilla) males.
GSE56040 Dam selectivity upon glass eel migration: insights from genes expression analysis.
GSE64067 Transcriptomic profiling of male European eel (Anguilla anguilla) livers at sexual maturity
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 (0: Control type none; 1: Positive control; -1: Negative control)
SPOT_ID Identifier for the probe synthesized on the microarray
SEQUENCE The sequence of bases printed on the array
Data table ID Row Col SubTypeMask SubTypeName ControlType SPOT_ID SEQUENCE 1
1
1
260
BrightCorner
1
GE_BrightCorner
2
1
2
66
Structural
1
DarkCorner
3
1
3
66
Structural
1
DarkCorner
4
1
4
0
0
N_eeel2_s8268
CTTTCCATATGGAATTCTGTAATGCCTGCTTAAATGGTCTTGCCACCATTTTGTAAAAAT
5
1
5
0
0
N_eeel_c25775
TTGCTAGGACCAGGACAGTCTTGAAAAAATTCATATTTAACCACAAGGCTGTATCTGATA
6
1
6
0
0
P_eeel_c23702
GTAGCCAAACTATTTTCTTGACGTCACAGTACTGTTAAGATTTAAGCAGGTTACTGTTGT
7
1
7
0
0
S_eeel2_c2792
TCAGTACAAGCTCGCAGCTGAATCACTTCGCCTTATTTGCATTTGGTAGTGTTCTTTTTT
8
1
8
0
0
P_eeel2_c395
ATAACCTATTTGGTTCTAGCTGAAGCCAGCCTTACTGTTTGAGTCCTGGTGCATAAAGGA
9
1
9
0
0
N_eeel_c20059
GTTGATGACACTTTTTGTGATCTTCTTTTTCTTAATCCAGCAGGACAGTGCTCTGAGAAT
10
1
10
0
0
P_eeel_c11020
TTTCTGGCCACTGTTCAGTGTCATCACCCATCCTTTTTCCAAAGATCCTGGAGTCTATCT
11
1
11
0
0
N_eeel_c33331
AAAGGAAATAACTGCACTGGCTCCCAGCACCATGAAGATTAAGATTATTGCTCCCCCTGA
12
1
12
0
0
P_eeel_c6819
GATGAATGCTCCAGTACCTAGAAGGCAGCCGTGTAATTTAAGTATATATATAGTTTACAC
13
1
13
0
0
N_eeel_c2799
TTGATGAAAAGTGCCCATCCACACCATGGAATGAAAGCAGCATTTGTTCAGGAGTACCCA
14
1
14
0
0
P_eeel2_rep_c5600
TAAATAAGAAACAATACTAAAGAAATAAACGACCCACCATACCCAGCTAAAACCCCACAC
15
1
15
0
0
N_eeel_c41927
AATAATCCAAACTACTTCCTGCACTGGAGGCATTTCTATGACCCACCAGAGTTTCAGACG
16
1
16
0
0
P_eeel_c35810
TCTCTTTGTTGTTTGGTTACGTAATGTTAAGTACAACAAGTACAACGTCAAGTTGTGGTT
17
1
17
0
0
P_eeel2_c2882
CATCATGGATTCCTGTTAAAGACACAGATCTCAGCACTGGAAATATAGAAAATATAGGAA
18
1
18
0
0
P_eeel2_s8003
GAAAAGAGCAAAGCGATTTGGAAACGTATGAAATCACTCCAGATTACTCCCTACCCCCAC
19
1
19
0
0
P_eeel_c19567
CCGTCATTCCTTTGAACGTGTATTGTGCATAGTGCATTAAAATCTCAGGCAATAAATTAA
20
1
20
0
0
P_eeel_c17801
CCCCATCAGTTCCCAGAGTACATATGTAAAAAATTGATAAGCTTTGATATTCAGAGTTCT
15449 1359 Kbytes .Supplementary data files not provided
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