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Platform GPL13819 Query DataSets for GPL13819
Status Public on Jan 05, 2012
Title FishCyHV-3_15K_v1.0
Technology type in situ oligonucleotide
Distribution custom-commercial
Organisms Cyprinus carpio; Cyprinid herpesvirus 3
Manufacturer Agilent
Manufacture protocol See manufacturer's web site at http://www.agilent.com/
 
Description The microarray was custom designed for Agilent 8x15K slides. It targets both CyHV-3 and common carp transcripts: one 60-mer probe was designed for each of the 152 CyHV-3 ORFs; one 60-mer probe was designed for each of the 10,822 common carp transcript clusters. The common carp transcript clusters were derived from GenBank mRNA transcripts and EST sequences of Cyprinus carpio. Probe design was performed by Agilent.
 
Submission date Jul 05, 2011
Last update date Jan 05, 2012
Contact name Leonor Palmeira
Organization name University of Liege
Department Faculty of Veterinary Medicine
Lab Immunology-Vaccinology
Street address Bd Colonster 20
City Liege
ZIP/Postal code 4000
Country Belgium
 
Samples (16) GSM754677, GSM754678, GSM754679, GSM754680, GSM754681, GSM754682 
Series (1)
GSE30426 Transcriptional analysis of common carp (Cyprinus carpio L.) immune response against Cyprinid herpesvirus 3 (CyHV-3).

Data table header descriptions
ID
COL Column
ROW Row
PROBE_UID ProbeUID from Agilent microarray
CONTROL_TYPE Control type (0 for non-control probes; 1 or -1 for control probes)
SPOT_ID Spot identifier
GENE_NAME Gene information
ORGANISM Organism source of each feature of the array
GENOME_ACC RefSeq accession.version of genome
ORF Open reading frame designator [on the genome corresponding to 'GENOME_ACC']
ENSEMBL_STRING Gene description (Ensembl)
OTHER_STRING Gene description (other databases)
SEQUENCE Sequence

Data table
ID COL ROW PROBE_UID CONTROL_TYPE SPOT_ID GENE_NAME ORGANISM GENOME_ACC ORF ENSEMBL_STRING OTHER_STRING SEQUENCE
1 1 1 0 1 GE_BrightCorner GE_BrightCorner
2 1 2 1 1 DarkCorner DarkCorner
3 1 3 1 1 DarkCorner DarkCorner
4 1 4 2 0 CUST_5857_PI425396513 CCC09571_1 Cyprinus carpio ENSDARP00000102824|pep:known chromosome:Zv8:2:29117949:29121216:-1 gene:ENSDARG00000075235 transcript:ENSDART00000109743|4e-11 emb|CAN88715.1||novel protein [Danio rerio]|3e-11 GGGCAATATTTACACAAGCGATAGTCTCTCGAACGAGCTTGGCTTCTGTTAAAACATCTG
5 1 6 4 0 CUST_5158_PI425396513 CCC04196_1 Cyprinus carpio ENSTNIP00000014000|pep:novel chromosome:TETRAODON8:15:4011641:4013019:-1 gene:ENSTNIG00000011064 transcript:ENSTNIT00000014195|3e-35 gb|ADF97621.1||40S ribosomal protein S15 [Hypophthalmichthys molitrix]|2e-36 GAAACAGCCTCTCACCTTCTTTTTCTTTGTGTTAAACCCTTGTCTTGCTTTGCAAAAAAT
6 1 7 5 0 CUST_9831_PI425396513 CCC17137_1 Cyprinus carpio ENSDARP00000046640|pep:known chromosome:Zv8:20:3259978:3339875:-1 gene:ENSDARG00000005416 transcript:ENSDART00000046641|8e-40 ref|NP_001155222.1||mitogen-activated protein kinase kinase kinase 5 [Danio rerio]|7e-46 GACGTAACCAAATATCTAGTGGGATCAGTTCAAGTCTTTGTGATAATTCATATCACATGT
7 1 8 7 0 CUST_4141_PI425396513 CCC24860_1 Cyprinus carpio ENSDARP00000092488|pep:known chromosome:Zv8:3:54007199:54008014:-1 gene:ENSDARG00000078255 transcript:ENSDART00000101713|1e-49 dbj|BAA20516.1||beta-globin [Cyprinus carpio]|5e-54 GCAGAAGATTGCGGGAGCTGTTCACACAAAGATCTAACTCTTATAAAATAAGATCAATAA
8 1 9 9 0 CUST_1304_PI425396513 CCC01449_1 Cyprinus carpio ENSDARP00000000221|pep:known chromosome:Zv8:19:5003717:5005884:-1 gene:ENSDARG00000036825 transcript:ENSDART00000000221|2e-69 gb|AAC38008.1||keratin [Carassius auratus]|2e-72 ACACAATCCTCATCCTCATCCTCATCTTACACGCAAAGTGATCACCTATGTAGAGGAGGT
9 1 10 10 0 CUST_1123_PI425396513 CCC00522_1 Cyprinus carpio ENSDARP00000004546|pep:known chromosome:Zv8:10:18120489:18126025:1 gene:ENSDARG00000014047 transcript:ENSDART00000006173|8e-12 emb|CAA09776.1||claudin-like protein [Danio rerio]|7e-12 TCTGCCTACGTTGGAGACAATATAATCACAGCCGATAGCGATGTATCAAGGCCTTTGGAT
10 1 13 12 0 CUST_463_PI425396513 CCC09867_1 Cyprinus carpio ENSDARP00000092383|pep:known chromosome:Zv8:15:17040279:17246186:-1 gene:ENSDARG00000007220 transcript:ENSDART00000101610|9e-37 gb|AAI62073.1||Neural cell adhesion molecule 3 [Danio rerio]|8e-37 AAGGACTGCTTTGCCTCTTTATGTTGTTTTGTCTGTGTTCTTTGCAGGCCTCTTGGACTC
11 1 14 14 0 CUST_1264_PI425396513 CUST_1264_PI425396513 Cyprinus carpio ENSGACP00000010452|pep:known group:BROADS1:groupXI:4864391:4866310:-1 gene:ENSGACG00000007836 transcript:ENSGACT00000010474|2e-53 gb|ABB58914.1||beta-actin [Lythrurus umbratilis]|4e-54 TAAAAACTGGAACGGCGAAGGTGACGGCAATGTTTTGGCAAATAAGCATCGACTCAGGAT
12 1 17 18 0 CUST_4131_PI425396513 CCC24800_1 Cyprinus carpio ENSDARP00000066620|pep:known chromosome:Zv8:21:1563762:1571252:-1 gene:ENSDARG00000045299 transcript:ENSDART00000066621|1e-20 gb|AAI59260.1||Unknown (protein for IMAGE:9000638) [Danio rerio]|9e-21 ATGGACGACACGGCCGCAAACAATTATCAGGTTTAACTGCAGTGGAAATACGGAAATGCT
13 1 21 22 0 CUST_8994_PI425396513 CCC08989_1 Cyprinus carpio ENSDARP00000023867|pep:known chromosome:Zv8:2:26249260:26269076:-1 gene:ENSDARG00000006818 transcript:ENSDART00000014568|1e-99 emb|CAX12678.1||uroporphyrinogen decarboxylase [Danio rerio]|1e-99 TGTTGTGTGCACCATTTCGTTAATATGTCACGGCCAATTTGTCAAATGTCCGTCTTTTTC
14 1 22 24 0 CUST_7045_PI425396513 CCC21093_1 Cyprinus carpio ENSDARP00000058954|pep:known chromosome:Zv8:3:28491061:28502115:-1 gene:ENSDARG00000054578 transcript:ENSDART00000058955|3e-27 gb|AAQ97745.1||ADP-ribosylation factor-like 6 interacting protein [Danio rerio]|2e-27 ATCATCACCAAATATGCTGGCATGGTGAAGAGAGAGATCAACAAACTTCTTAAACAGAAA
15 1 23 25 0 CUST_8695_PI425396513 CCC06539_1 Cyprinus carpio ENSDARP00000092846|pep:known chromosome:Zv8:19:47445266:47454054:1 gene:ENSDARG00000069883 transcript:ENSDART00000102070|1e-81 gb|AAI25912.1||Zgc:153914 [Danio rerio]|5e-89 ATAGCTCAGAAAGCTCAGCACAGAAAGACAAACTTCTCCAGGTACCTTCCAATTCAGGCT
16 1 24 27 0 CUST_3599_PI425396513 CCC19254_1 Cyprinus carpio no hit gb|ACI33155.1||NHL repeat-containing protein 3 precursor [Salmo salar]|5e-09 AGTACGTGTGTAAAATAGCAGATATTATCACGGTGTCCAGGGTGTTTCTGACTGTGGGCT
17 1 26 29 0 CUST_4276_PI425396513 CCC26127_1 Cyprinus carpio ENSDARP00000067953|pep:known chromosome:Zv8:5:1613717:1626549:1 gene:ENSDARG00000051783 transcript:ENSDART00000073462|2e-113 gb|ADF97607.1||large ribosomal protein P0 [Hypophthalmichthys molitrix]|4e-114 ACTCGCGCCAAAAGAGGCCCAGGGATCAAGATTTACAGCTGCCTCGCTTTTATAATGTAA
18 1 27 31 0 CUST_9414_PI425396513 CCC13157_1 Cyprinus carpio ENSORLP00000001424|pep:novel chromosome:MEDAKA1:2:16837755:16843146:1 gene:ENSORLG00000001157 transcript:ENSORLT00000001425|7e-48 gb|AAI39694.1||Zgc:163025 protein [Danio rerio]|5e-72 TTCACCCTCCCCAAACAACTGGAAGATTTCTGGAAGAGATACACAGAGGAGGATCATTGT
19 1 28 32 0 CUST_10531_PI425396513 CCC24747_1 Cyprinus carpio ENSORLP00000002977|pep:novel chromosome:MEDAKA1:8:3949989:3957866:-1 gene:ENSORLG00000002395 transcript:ENSORLT00000002978|2e-36 emb|CAG07234.1||unnamed protein product [Tetraodon nigroviridis]|5e-36 TTTATAGGGAGCCAATCAGAGTGTTTCTAAGGATCTGATGGACCTGGCAATGCACAATCC
20 1 29 33 0 CUST_6575_PI425396513 CCC16069_1 Cyprinus carpio ENSDARP00000090241|pep:known chromosome:Zv8:4:5226398:5235874:-1 gene:ENSDARG00000068708 transcript:ENSDART00000099467|2e-79 ref|NP_001070023.1||interferon-related developmental regulator 1 [Danio rerio]|2e-79 ACTCTTGTAGCAGAAGATGATATCATGGATGTGTTTGCCACTATGGAGTGTTTTGAGAGC

Total number of rows: 11930

Table truncated, full table size 3610 Kbytes.




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