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Platform GPL22113 Query DataSets for GPL22113
Status Public on Jul 06, 2016
Title Agilent-030107 rat epilepsy array (Feature number version)
Technology type in situ oligonucleotide
Distribution custom-commercial
Organism Rattus norvegicus
Manufacturer Agilent Technologies
Manufacture protocol see manufacturer's web site at http://www.agilent.com/
 
Description Annotations based on rn4:RGSCv3.4:Nov2004


Arrays of this design have barcodes that begin with 16030107 or 2530107.

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 Jul 05, 2016
Last update date Jul 19, 2016
Contact name Moshe Szyf
E-mail(s) moshe.szyf@mcgill.ca
Organization name McGill University
Department Pharmacology
Street address McIntyre Medical Building, 3655 Promenade Sir William Osler, Room 1309
City Montreal
State/province Quebec
ZIP/Postal code H3G 1Y6
Country Canada
 
Samples (8) GSM2225731, GSM2225732, GSM2225733, GSM2225734, GSM2225735, GSM2225736 
Series (2)
GSE84021 Male Rat DNA methylation in the Prefrontal Cortex at postnatal day 62 following prenatal restraint stress
GSE84028 Ankyrin-3 as a Molecular Marker of Early Life Stress and Vulnerability to Psychiatric Disorders

Data table header descriptions
ID Agilent feature number
COL Column
ROW Row
SPOT_ID Spot identifier
CONTROL_TYPE Control type
ENSEMBL_ACC GenBankAccession
GENE_SYMBOL Gene Symbol
CHROMOSOMAL_LOCATION Chromosomal Location
CHROMOSOME Chromosome
RANGE_GB RefSeq accession.version
RANGE_START the start position (relative to the RANGE_GB accession)
RANGE_END the end position (relative to the RANGE_GB accession)
SEQUENCE Probe sequence

Data table
ID COL ROW SPOT_ID CONTROL_TYPE ENSEMBL_ACC GENE_SYMBOL CHROMOSOMAL_LOCATION CHROMOSOME RANGE_GB RANGE_START RANGE_END SEQUENCE
1 1 1 RnCGHBrightCorner pos
2 2 1 DarkCorner pos
3 3 1 DarkCorner pos
4 4 1 A_45_P23444738 FALSE ens|ENSRNOT00000001469:-878 D3ZU53_RAT chr12:12506499-12506545 chr12 NC_005111.2 12506499 12506545 AACATGGACACAGAAAAAGGGAGAAGTCAGTTGTTTCTCACCTGGCT
5 5 1 A_45_P06607003 FALSE ens|ENSRNOT00000026170:-142 Trim29 chr8:46312502-46312560 chr8 NC_005107.2 46312502 46312560 AGAGAAAAAAGACACGAGAGAGAGAAAAAAAACCACATTTCTTTAAAATCCCGGGCTAG
6 6 1 A_45_P17833537 FALSE ens|ENSRNOT00000006349:55446 F1M0A0_RAT chr3:96181738-96181797 chr3 NC_005102.2 96181738 96181797 ACCCATCTACATTCGGAAGGTAAGGTTTATGACAAGAAATAATCAAAAGTAATTGGGCAA
7 7 1 A_45_P18186558 FALSE ens|ENSRNOT00000006038:-7843 Sycp2 chr3:167509926-167509975 chr3 NC_005102.2 167509926 167509975 ATCCCATCTCTTTTCCATTTGACAGAGGCTGGAGAAATAGGGGAGAAAAA
8 8 1 A_45_P18848065 FALSE ens|ENSRNOT00000070285:-218 SNORA17 chr4:139730289-139730348 chr4 NC_005103.2 139730289 139730348 GCACTTAGAAAAGCACTTGTATACACAAAATTGAACAAAGTTAAAAAAACAGTTATAAAC
9 9 1 A_45_P16331701 FALSE ens|ENSRNOT00000022138:-5156 Cdk105 chr2:27619592-27619651 chr2 NC_005101.2 27619592 27619651 GCTGGCTCTTAAGTTTAGTGTGTGACTCTCCTTATTTTTAGTTTATTGCTGATTTTTATG
10 10 1 A_45_P02101801 FALSE ens|ENSRNOT00000040210:-6290 Hist2h4 chr2:191082396-191082455 chr2 NC_005101.2 191082396 191082455 TAAAAATGGAGTGCTGTGAGAACCTTCATTTGCATACAAGCTCTATAAGTACCGCATAAC
11 11 1 A_45_P07921118 FALSE ens|ENSRNOT00000067719:34758 Mink1 chr10:57478031-57478088 chr10 NC_005109.2 57478031 57478088 CTCTCCACCTTTAAAGCAATATCAATAATACTCAACTCTTACTGGCACACACTGCCAG
12 12 1 A_45_P04934585 FALSE ens|ENSRNOT00000022478:-326 Tnfrsf1b chr5:163697810-163697854 chr5 NC_005104.2 163697810 163697854 CTGTCCTAGATCTCACCGGACTTCCTACTCTCAGTGGTAGGACAC
13 13 1 A_45_P25908021 FALSE ens|ENSRNOT00000023835:-254 Akr1c14 chr17:77333157-77333216 chr17 NC_005116.2 77333157 77333216 GACTGACCGATGGTAATCAATTATACGTTACCTAAAACGTAACTTCAGCTACTGGACTCT
14 14 1 A_45_P04045258 FALSE ens|ENSRNOT00000056174:766 Usp18 chr4:157693485-157693535 chr4 NC_005103.2 157693485 157693535 CATGTTTTGTTCCTCATGGGCTCTTTCCGTTGTGCATAGCATCTTGAACAT
15 15 1 A_45_P22953502 FALSE ens|ENSRNOT00000064450:-4777 D3ZNQ4_RAT chr10:108297110-108297169 chr10 NC_005109.2 108297110 108297169 TCCCTTAGTTTTAAAAAGATTTTTAATCACCTATGTATAGGGAAAGAATATTTTAGTGCA
16 16 1 A_45_P09372655 FALSE ens|ENSRNOT00000053760:-793 rno-mir-29b-2 chr13:110966726-110966783 chr13 NC_005112.2 110966726 110966783 CAGACATTAGCTCATCGTATCCTGTGACTACGGTTTCTTGTACAGACATCGGAATAAT
17 17 1 A_45_P12209854 FALSE ens|ENSRNOT00000000438:31670 Dna2 chr20:25320003-25320062 chr20 NC_005119.2 25320003 25320062 CTAATCATTTTGGTGTGTCATCGGAATTTTGGAAGGATTTGGTAGACATTGTTTACACCT
18 18 1 A_45_P26671340 FALSE ens|ENSRNOT00000020341:6742 Necab2 chr19:49636336-49636380 chr19 NC_005118.2 49636336 49636380 CTGGCAGTTCTCTCTGGTTGGGACCCTTGACAAGGGCGGGAAAGT
19 19 1 A_45_P15392864 FALSE ens|ENSRNOT00000023732:-699 Vom2r38 chr1:93310427-93310486 chr1 NC_005100.2 93310427 93310486 GACTTGATTTTTTTTCATTGAAATTAAGTAGATAATTTGGAAGTGAGAAATCCAGCAGGA
20 20 1 A_45_P15817342 FALSE ens|ENSRNOT00000027094:-5779 D3ZPT4_RAT chr1:186103924-186103972 chr1 NC_005100.2 186103924 186103972 TGAGTCCTCTGGAAACCCTAAGGCTTCGTTGGAGAACTTTCTTTTTGTT

Total number of rows: 420288

Table truncated, full table size 75461 Kbytes.




Download family Format
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Supplementary file Size Download File type/resource
GPL22113_030107_D_GEO_20160701.txt.gz 21.8 Mb (ftp)(http) TXT

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