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Platform GPL19557 Query DataSets for GPL19557
Status Public on Dec 16, 2014
Title Agilent-021963 NIFTS_Vvi_44K_01
Technology type in situ oligonucleotide
Distribution custom-commercial
Organism Vitis vinifera
Manufacturer Agilent Technologies
Manufacture protocol see manufacturer's web site at http://www.agilent.com/
 
Description H. Fujii and A. Azuma designed Vvi 44K microarray on 4, Nov, 2008 at NIFTS"

Arrays of this design have barcodes that begin with 16021963 or 2521963.

Orientation:
Features are numbered numbered Left-to-Right, Top-to-Bottom as scanned by an Agilent scanner (barcode on the left, DNA on the back surface, scanned through the glass), matching the FeatureNum output from Agilent's Feature Extraction software."

The ID column represents the Agilent Feature Extraction feature number.

Rows and columns are numbered as scanned by an Axon Scanner (barcode on the bottom, DNA on the front surface)."

To match data scanned on an Axon scanner, use the RefNumber column contained in the Agilent-provided GAL file as the ID_REF column in sample submissions."
 
Submission date Dec 15, 2014
Last update date Dec 16, 2014
Contact name Hiroshi Fujii
E-mail(s) hfujii@affrc.go.jp
Organization name Institute of Fruit Tree Science, NARO
Department Division of Citrus Research
Street address 485-6 Okitsunakacho, Shimizu
City Shizuoka
State/province Shizuoka
ZIP/Postal code 424-0292
Country Japan
 
Samples (12) GSM1565326, GSM1565327, GSM1565328, GSM1565329, GSM1565330, GSM1565331 
Series (1)
GSE64153 Microarray Analysis for the Screening of Genes Inducible by Light or Low Temperature in Post-veraison Grape Berries

Data table header descriptions
ID Agilent feature number
COL Column
ROW Row
NAME NAME
SPOT_ID Spot identifier
CONTROL_TYPE Control type
GB_ACC GenBank Accession number
ACCESSION_STRING Grapevine genome sequence analysis (8X) on Grape Genome Browser of Genoscope; http://www.genoscope.cns.fr/externe/GenomeBrowser/Vitis/entry_ggb.html
CHROMOSOMAL_LOCATION Chromosomal Location
SEQUENCE Sequence

Data table
ID COL ROW NAME SPOT_ID CONTROL_TYPE GB_ACC ACCESSION_STRING CHROMOSOMAL_LOCATION SEQUENCE
1 266 170 GE_BrightCorner GE_BrightCorner 0
2 266 168 DarkCorner DarkCorner 0
3 266 166 DarkCorner DarkCorner 0
4 266 164 DarkCorner DarkCorner 0
5 266 162 DarkCorner DarkCorner 0
6 266 160 DarkCorner DarkCorner 0
7 266 158 DarkCorner DarkCorner 0
8 266 156 DarkCorner DarkCorner 0
9 266 154 DarkCorner DarkCorner 0
10 266 152 DarkCorner DarkCorner 0
11 266 150 DarkCorner DarkCorner 0
12 266 148 DT038741_C DT038741_C 0 DT038741 unmapped CTACTCTTATTGAATTACGCAAAATTGATCCTACTAAAACCACACCCACCCATTACATTA
13 266 146 GSVIVT00024514001 GSVIVT00024514001 0 GSVIVT00024514001 chr6 GTTAGCAAATGCAAGAGATTTGACTTTCTATCAGGTATTTCTTGCCCCTGTTCCATTTAA
14 266 144 GSVIVT00014785001 GSVIVT00014785001 0 GSVIVT00014785001 chr18 AATCACAACTTTAGGAGCTGGATGGTGATGATGCAAGGATTACAAACTACTTCGATGTGA
15 266 142 GSVIVT00017061001 GSVIVT00017061001 0 GSVIVT00017061001 chr11 TTAGGCTAACAATCTCCCAATTTTTGATGATGACAAGCCTTGCTTATCTAGGAGAAAAAA
16 266 140 GSVIVT00012706001 GSVIVT00012706001 0 GSVIVT00012706001 chrUn_random AGTGATGCAAAGCATCCACTCTGGTCCTCTCTTCACAACTGCTTAAAATCACACATTCAG
17 266 138 EV232388_C EV232388_C 0 EV232388 unmapped TTAACACATGCCACTGGAAACAGATGCCAAAGCCCATTCAGGCCAAAGTTAAATATGTTG
18 266 136 GSVIVT00033177001 GSVIVT00033177001 0 GSVIVT00033177001 chr5 TCATTCATATTCCTGCAAGTCCCCCAGCTGTTGGTAAGAGTTGTTTACTCCAAACTGTGA
19 266 134 GSVIVT00000922001 GSVIVT00000922001 0 GSVIVT00000922001 chr16_random TTTGATTCTGTGGTTGATGGATGTGATGGAGGATTTCATACAGCATCCCAGTTGTTATGA
20 266 132 GSVIVT00036469001 GSVIVT00036469001 0 GSVIVT00036469001 chr3 AAGATGAATGCAAAAGATTGGTCCATACTTGTCAGCCATGTCTCCAAGTTTCCGATGTAG

Total number of rows: 45220

Table truncated, full table size 5683 Kbytes.




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