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Platform GPL17254 Query DataSets for GPL17254
Status Public on Nov 22, 2013
Title Agilent-028412 CGH chicken array focus on unknown chromosomes
Technology type in situ oligonucleotide
Distribution custom-commercial
Organism Gallus gallus
Manufacturer Agilent Technologies
Manufacture protocol see manufacturer's web site at http://www.agilent.com/
 
Description including chr 1, 2, 3, 16, z, w
Arrays of this design have barcodes that begin with 16028412 or 2528412.
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 Jun 06, 2013
Last update date Nov 22, 2013
Contact name Jason Abernathy
Organization name USDA-ARS
Lab Aquatic Animal Health Research Unit
Street address 990 Wire Road
City Auburn
State/province AL
ZIP/Postal code 36832
Country USA
 
Samples (24) GSM1154804, GSM1154805, GSM1154806, GSM1154807, GSM1154808, GSM1154809 
Series (1)
GSE47690 Assignment of unknown contigs to chicken microchromosome 16 (GGA16)

Data table header descriptions
ID Agilent feature number
COL Column
ROW Row
PROBE_NAME
SEQUENCE Probe Sequence
CONTROL_TYPE Control type
GenBank GenBankAccession
GENE_SYMBOL Gene Symbol
GENE_NAME Gene Name
ACCESSION_STRING Accession String
SPOT_ID Spot identifier
DESCRIPTION Description

Data table
ID COL ROW PROBE_NAME SEQUENCE CONTROL_TYPE GenBank GENE_SYMBOL GENE_NAME ACCESSION_STRING SPOT_ID DESCRIPTION
1 266 170 GgaCGHBrightCorner pos --GgaCGHBrightCorner
2 266 168 DarkCorner pos --DarkCorner
3 266 166 DarkCorner pos --DarkCorner
4 266 164 DarkCorner pos --DarkCorner
5 266 162 DarkCorner pos --DarkCorner
6 266 160 DarkCorner pos --DarkCorner
7 266 158 DarkCorner pos --DarkCorner
8 266 156 DarkCorner pos --DarkCorner
9 266 154 DarkCorner pos --DarkCorner
10 266 152 DarkCorner pos --DarkCorner
11 266 150 DarkCorner pos --DarkCorner
12 266 148 14694 TACTAGCTGTAGCCTCTTCCAGTGGCAGTAGTCAGTCATTTCTGTCCTGTACTTCACTTC FALSE unmapped
13 266 146 37365 AACACTGCATCCTAAGTCACTAGAATTAACTTTGAAGTCAATCACAGAACATTCGCTGCT FALSE unmapped
14 266 144 23360 CTAGTAGAAAGCATTAGGAAGGCAAAGGTATGGGTCACACACAGCATGTATAGCAATCAT FALSE unmapped
15 266 142 43538 TCAATGACTTACTGCTGATGGCTAATGTATTTATTTGTTGGAGATAGTACAGGTTGTAAC FALSE unmapped
16 266 140 24232 GAGTGAAAGACAAAGCCTCCTCTGATGAAATAAAGACCTCCCAGAACCACCTCCAGTCTG FALSE unmapped
17 266 138 35844 CGTGTTGATAGTTATTATCATTGCCATGAATATAAACTGGTCAAGATCCTGCCATATAGC FALSE unmapped
18 266 136 5059 TTACGCTCCTGTGCTTCTGACATGCTAGACCATCTAATCAATGTAATCCAATTAGTCTGA FALSE unmapped
19 266 134 18808 CTGGTGGTGTATGACAGCACTAGAGACCCTCTTTGAAGTCTGAGCTTCGCTTTGCCTGGC FALSE unmapped
20 266 132 45952 CTCCCTTACTTAGTGACATTGCAGACCACCCAGAACTGACATGGCAGCAGGCACTGAGTT FALSE unmapped

Total number of rows: 45220

Table truncated, full table size 4393 Kbytes.




Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp

Supplementary file Size Download File type/resource
GPL17254_028412_D_GEO_20100512.txt.gz 442.4 Kb (ftp)(http) TXT
GPL17254_028412_D_GeneList_20100512.txt.gz 131.8 Kb (ftp)(http) TXT
GPL17254_028412_D_SequenceList_20100512.txt.gz 614.2 Kb (ftp)(http) TXT

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