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Platform GPL8368 Query DataSets for GPL8368
Status Public on Oct 06, 2009
Title VUMC MACF Human 30k oligo v62
Technology type spotted oligonucleotide
Distribution non-commercial
Organism Homo sapiens
Manufacturer VUMC Microarray Core Facility
Manufacture protocol The Human Release 2.0 oligonucleotide library, containing 60-mer oligonucleotides representing 28830 unique genes as designed by Compugen (San Jose, CA, USA), was obtained from Sigma-Genosys (Zwijndrecht, The Netherlands). The oligonucleotides were dissolved at 10 uM concentration in 50 mM sodium phosphate buffer pH 8.5 and single spotted onto CodeLink slides (Amersham Biosciences), using an OmniGrid 100 microarrayer (Genomic Solutions, Ann Arbor, MI, USA) equipped with SMP3 pins (TeleChem International, Sunnyvale, CA, USA). After printing slides were processed and blocked prior to use according to the manufacturer's protocol.
Support glass
Coating other
 
Description hydrophilic polymer containing N-hydroxysuccinimide (NHS) ester reactive groups
 
Web link http://www.vumc.nl/afdelingen/microarrays
Submission date Mar 31, 2009
Last update date Oct 06, 2009
Contact name Daoud Sie
E-mail(s) d.sie@vumc.nl
Phone +31 20 4442428
Organization name Vrije Universiteit Medical Center
Department Pathology
Lab Microarray Core Facility
Street address De Boelelaan 1117
City Amsterdam
ZIP/Postal code 1081 HV
Country Netherlands
 
Samples (48) GSM387995, GSM387996, GSM387997, GSM387998, GSM387999, GSM388000 
Series (2)
GSE15470 Array comparative genomic hybridization in sporadic and coeliac disease-related small bowel adenocarcinomas
GSE23418 Small bowel adenocarcinoma copy number profiles are more closely related to colorectal than to gastric cancers

Data table header descriptions
ID
ROW Coordinate for row number of block of features
COL Coordinate for column number of block of features
SUBGRIDROW Coordinate for row number of feature within a block
SUBGRIDCOL Coordinate for column number of feature within a block
GB_ACC GenBank accession number as supplied by Illumina
Probe_Name Gene array list number
GENE_DESCRIPTION Description of gene as supplied by Illumina
CHROMOSOME_NR Number of the chromosome to which the oligonucleotide has been mapped
START Start position of the oligonucleotide on the chromosome to which it has been mapped
END End position of the oligonucleotide on the chromosome to which it has been mapped
SPOT_ID

Data table
ID ROW COL SUBGRIDROW SUBGRIDCOL GB_ACC Probe_Name GENE_DESCRIPTION CHROMOSOME_NR START END SPOT_ID
1 1 1 1 1 NM_148960 Hs.298539 Homo sapiens claudin 19 (CLDN19) 1 42868227 42868287
2 1 1 1 2 NM_021965 Hs.406261 Homo sapiens phosphoglucomutase 5 (PGM5) 9 68343702 68343762
3 1 1 1 3 NM_000582 Hs.313 Homo sapiens secreted phosphoprotein 1 (osteopontin 4 89261011 89261071
4 1 1 1 4 NM_033257 Hs.347285 Homo sapiens DiGeorge syndrome critical region gene 6like (DGCR6L) 22 18682103 18682163
5 1 1 1 5 NM_002231 Hs.323949 Homo sapiens kangai 1 (suppression of tumorigenicity 6 11 44583203 44583263
6 1 1 1 6 J05213 Hs.49215 Homo sapiens sialoprotein precursor (IBSP) mRNA 4 89090128 89090188
7 1 1 1 7 AF195420 Hs.303006 Homo sapiens ODZ3 (ODZ3) mRNA 4 183643171 183643231
8 1 1 1 8 NM_001307 Hs.278562 Homo sapiens claudin 7 (CLDN7) 17 7105877 7105937
9 1 1 1 9 NM_012211 Hs.256297 Homo sapiens integrin 15 66383214 66383274
10 1 1 1 10 NM_005874 Hs.22405 Homo sapiens leukocyte immunoglobulinlike receptor 19 59470286 59470346
11 1 1 1 11 L36531 Hs.91296 Homo sapiens integrin alpha 8 subunit mRNA 10 15689733 15689793
12 1 1 1 12 NM_001817 Hs.12 Homo sapiens carcinoembryonic antigenrelated cell adhesion molecule 4 (CEACAM4) 19 46823994 46824054
13 1 1 1 13 BC036525 Hs.188790 Homo sapiens 11 101339547 101339607
14 1 1 1 14 NM_003222 Hs.61796 Homo sapiens transcription factor AP2 gamma (activating enhancer binding protein 2 gamma) (TFAP2C) 20 54647570 54647630
15 1 1 1 15 NM_006329 Hs.11494 Homo sapiens fibulin 5 (FBLN5) 14 91406191 91406251
16 1 1 1 16 NM_000029 Hs.3697 Homo sapiens angiotensinogen (serine (or cysteine) proteinase inhibitor 1 227153157 227153217
17 1 1 1 17 NM_002468 Hs.82116 Homo sapiens myeloid differentiation primary response gene (88) (MYD88) 3 38159272 38159332
18 1 1 1 18 AB007957 Hs.67619 Homo sapiens mRNA 1 148484000 148484060
19 1 1 1 19 NM_002462 Hs.76391 Homo sapiens myxovirus (influenza virus) resistance 1 21 41752662 41752722
20 1 1 1 20 NM_004938 Hs.153924 Homo sapiens deathassociated protein kinase 1 (DAPK1) 9 87552665 87552725

Total number of rows: 30000

Table truncated, full table size 2808 Kbytes.




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