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Platform GPL17826 Query DataSets for GPL17826
Status Public on Aug 10, 2014
Title Agilent-040666 Guinea Pig Array v1.2 (Feature Number version)
Technology type in situ oligonucleotide
Distribution custom-commercial
Organism Cavia porcellus
Manufacturer Agilent Technologies
Manufacture protocol see manufacturer's web site at http://www.agilent.com/
 
Description Guinea Pig Array based on RNA-seq and Cavia porcellus 3 genome. Probes with FF_0 have been confirmed. FF_1-4 are untested with 1 and 2 being specific for the sequence, 3 and 4 are sequences for genes were no specific sequence could be found.

Arrays of this design have barcodes that begin with 16040666 or 2540666.

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 Oct 23, 2013
Last update date Aug 12, 2014
Contact name Peter Davidsen
E-mail(s) [email protected]
Organization name University of Liverpool
Street address Crown Street
City Liverpool
State/province Merseyside
ZIP/Postal code L69 7ZB
Country United Kingdom
 
Samples (45) GSM1248977, GSM1248978, GSM1248979, GSM1248980, GSM1248981, GSM1248982 
Series (2)
GSE51601 Global gene expression profiling of guinea pig whole-lung and hindlimb muscles following long-term exposure to cigarette smoke and/or hypoxia
GSE56099 A systems biology approach reveals a link between systemic cytokines and skeletal muscle energy metabolism in a rodent smoking model and human COPD

Data table header descriptions
ID Agilent feature number
COL Column
ROW Row
NAME NAME
CONTROL_TYPE Control type
PT_ACC GenBankAccession
ORF ORF Name
ACCESSION_STRING Accession String
CHROMOSOMAL_LOCATION Chromosomal Location
SEQUENCE Sequence
SPOT_ID Spot identifier

Data table
ID COL ROW NAME CONTROL_TYPE PT_ACC ORF ACCESSION_STRING CHROMOSOMAL_LOCATION SEQUENCE SPOT_ID
1 192 328 GE_BrightCorner pos GE_BrightCorner
2 192 326 DarkCorner pos DarkCorner
3 192 324 DarkCorner pos DarkCorner
4 192 322 CPe_FF_00063229 FALSE NP_079703 Rgcc NP_079703|ref|NP_079703 unmapped GGAGACACAAAAGAGCTAGAAGACTTTATTGCTGATCTGGACAGAACATTAGCAAGTGAG CPe_FF_00063229
5 192 320 CPe_FF_00126386 FALSE unmapped ATATCGAAATAGTTCATCACAAGCAAAGCAGCAGTCCGCACCTGGTTCTCATCACAGCAA CPe_FF_00126386
6 192 318 CPe_FF_20010196 FALSE unmapped TCTGTGCACTGAAACACCAGATGTATCCATTCAGCATCCTCTGATGAAGGTCAGAAATGG CPe_FF_20010196
7 192 316 CPe_FF_00002566 FALSE unmapped GATGGTATGGACAGCTGCTTTGAAGAAAATATTGTATTATGGTAACCATTGTTGACTTTC CPe_FF_00002566
8 192 314 CPe_FF_10011170 FALSE unmapped TAAAAATAAAAGAATTCAGCCTTATGTGGTGACACATAACATTAATCCCAGCATTGGGAG CPe_FF_10011170
9 192 312 CPe_FF_30011224 FALSE unmapped GCTCTTACCATTTCTTACACTCAGGGGACTGTATGGTATTTACACATTTACATATTTTGA CPe_FF_30011224
10 192 310 CPe_FF_00054501 FALSE unmapped ACAAAACAATTTTGTTTTCTAGGAAAATGGGAGGTCTGGGATGGTGAGTGCAACATCAGG CPe_FF_00054501
11 192 308 CPe_FF_00055870 FALSE unmapped ACTTAGTGACGGACGCTGTTCGAGGGCCCAGTGTAGAAAAAGGAAAAGAAAATAGAGTAC CPe_FF_00055870
12 192 306 CPe_FF_00075352 FALSE NP_758483 Mark4 NP_758483|ref|NP_758483 unmapped ATCATGAAAGACAAATGGATCAACATCGGCTATGAGGGTGAGGAGCTGAAGCCATACACT CPe_FF_00075352
13 192 304 CPe_FF_10010474 FALSE unmapped ATTTGCATCTGATCGCGGGAAGCCATGGAAGCTGGACACAGCTTTTGTCTGAAATAAAGA CPe_FF_10010474
14 192 302 CPe_FF_20017008 FALSE Vmn2r118 unmapped ACCAGAAATGACAGAATGTGACAGAGAAGTGAAAGTAAGCACCTGTGAACAAGGCTGGAA CPe_FF_20017008
15 192 300 CPe_FF_00097891 FALSE unmapped AAATTTATATCCTGCAGGCTTCCTACAAGACATATCTATACTACAGAAATTGTTGGTGCT CPe_FF_00097891
16 192 298 CPe_FF_00018112 FALSE NP_063923 Naa10 NP_063923|ref|NP_063923 unmapped AGACCACAGAGAGCACGGATGTCAAGGACAGCTCAGAAGCCTCTGACTCTGCCTCCTAGA CPe_FF_00018112
17 192 296 CPe_FF_00032581 FALSE NP_001030295 Setd6 NP_001030295|ref|NP_001030295 unmapped GAGCTAAGATAACTTCCTTTTAGAACTGCGTCAGTTCTATTCTGTATGGAAAACTGTGAG CPe_FF_00032581
18 192 294 CPe_FF_00032025 FALSE unmapped CTCTTCGTGTTCTCAGAATAAAGGCCGCTTTTTGTTTTATACTTCTCATCTTTTGGAAAT CPe_FF_00032025
19 192 292 CPe_FF_00045638 FALSE unmapped CGAGGTCAGATTGGGCAATTTAGTGAGACTCTGTCTCAAATAAAATAAAAAGGGTTCAAT CPe_FF_00045638
20 192 290 CPe_FF_40014050 FALSE unmapped AGATCAACATGGCCCCTGTGCAAGGATGACACGCAAATTTGTGAAGCGTTCCATATTTTT CPe_FF_40014050

Total number of rows: 62976

Table truncated, full table size 8136 Kbytes.




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Supplementary file Size Download File type/resource
GPL17826_040666_D_GEO_20131022.txt.gz 2.5 Mb (ftp)(http) TXT

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