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Platform GPL2858 Query DataSets for GPL2858
Status Public on Dec 19, 2005
Title VUMC MACF mouse 22K v9
Technology type spotted oligonucleotide
Distribution non-commercial
Organism Mus musculus
Manufacturer VUMC Microarray Core Facility
Manufacture protocol The Mouse 8K and Mouse 14K extension oligonucleotide libraries, containing 65-mer oligonucleotides representing 21825 unique genes as designed by Compugen (San Jose, CA, USA), was obtained from Sigma-Genosys (Zwijndrecht, The Netherlands). The oligonucleotides were dissolved at 10 μM concentration in 150 mM sodium phosphate buffer pH 8.5 and single spotted onto CodeLink™ slides (Amersham Biosciences), using an SA-72 microarrayer (Perkin Elmer) 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.
Catalog number 300011 (Amersham, slides only)
Support glass
Coating hydrophilic polymer containing N-hydroxysuccinimide (NHS) ester reactive groups
 
Description - oligonucleotide sequences are available via www.ensembl.org after agreeing to Compugen's conditions
- oligonucleotides were mapped by Ensembl to the NCBIm33 version of the mouse genome
- all plates were printed once (no replicate spots)
 
Web link http://www.vumc.nl/microarrays
Contributor(s) van den IJssel P, Ylstra B
Citation(s) 16361265
Submission date Sep 20, 2005
Last update date Dec 20, 2005
Contact name Daoud Sie
E-mail(s) [email protected]
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 (10) GSM75209, GSM75211, GSM305883, GSM305884, GSM305885, GSM305886 
Series (2)
GSE3264 Oligonucleotide-based arrayCGH
GSE12139 Colonic tissues from an acute TNBS-induced colitis model in SJL mice.

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 GeneBank accession number as supplied by Compugen
SPOT_ID
UNIGENE UniGene accession number as supplied by Compugen
COMPUGEN_SERIAL_NR Serial number of the oligonucleotide as supplied by Compugen
GENE_DESCRIPTION Description of the gene from which the oligo has been designed as supplied by Compugen
GENE_ONTOLOGY Ontology of the gene from which the oligo has been designed as assigned by Compugen
PLATE_NR Number of the 384-well plate in which the oligo was supplied
WELL_NR Well number within the 384-well plate in which the oligo was supplied
BIOSEQUENCE_TYPE Type of biosequence spotted on the array
REPORTER_USAGE Role of the reporter (control or experimental)
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

Data table
ID ROW COL SUBGRIDROW SUBGRIDCOL GB_ACC SPOT_ID UNIGENE COMPUGEN_SERIAL_NR GENE_DESCRIPTION GENE_ONTOLOGY PLATE_NR WELL_NR BIOSEQUENCE_TYPE REPORTER_USAGE CHROMOSOME_NR START END
1 1 1 1 1 NM_021506 27949 CGEN_MOUSE_3000102_1 Mus musculus plenty of SH3 domains (Posh-pending), mRNA. cell growth and/or maintenance [0008151] 1 A12 oligo Experimental 8 60311282 60311346
2 1 1 1 2 NM_019976 23776 CGEN_MOUSE_3000108_1 Mus musculus differential display and activated by p53 (Dda3-pending), mRNA. cell growth and/or maintenance [0008151] 1 A24 oligo Experimental
3 1 1 1 3 NM_009432 4001 CGEN_MOUSE_3000126_1 Mus musculus thyroid stimulating hormone, beta subunit (Tshb), mRNA. cell growth and/or maintenance [0008151] 1 E12 oligo Experimental 3 102708600 102708664
4 1 1 1 4 NM_009756 57171 CGEN_MOUSE_3000132_1 Mus musculus bone morphogenetic protein 10 (Bmp10), mRNA. cell growth and/or maintenance [0008151] 1 E24 oligo Experimental 6 87766347 87766411
5 1 1 1 5 NM_008715 4173 CGEN_MOUSE_3000150_1 Mus musculus DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 26 (Ddx26), mRNA. cell growth and/or maintenance [0008151] 1 I12 oligo Experimental
6 1 1 1 6 NM_007437 4210 CGEN_MOUSE_3000156_1 Mus musculus aldehyde dehydrogenase family 3, subfamily A2 (Aldh3a2), mRNA. metabolism [0008152] 1 I24 oligo Experimental 11 60858365 60858429
7 1 1 1 7 NM_017479 30998 CGEN_MOUSE_3000174_1 Mus musculus histone acetyltransferase (Morf-pending), mRNA. nucleosome assembly [0006334] 1 M12 oligo Experimental 14 17958758 17958822
8 1 1 1 8 NM_007811 42230 CGEN_MOUSE_3000180_1 Mus musculus cytochrome P450, 26, retinoic acid A1 (Cyp26a1), mRNA. metabolism [0008152] 1 M24 oligo Experimental
9 1 1 1 9 NM_011131 16549 CGEN_MOUSE_3000486_1 Mus musculus polymerase (DNA directed), delta 1, catalytic subunit (125kDa) (Pold1), mRNA. DNA replication [0006260] 2 A12 oligo Experimental
10 1 1 1 10 NM_011284 2870 CGEN_MOUSE_3000492_1 Mus musculus replication protein A2 (Rpa2), mRNA. DNA replication [0006260] 2 A24 oligo Experimental 4 131232006 131232070
11 1 1 1 11 NM_008894 35788 CGEN_MOUSE_3000510_1 Mus musculus polymerase (DNA directed), delta 2, regulatory subunit (50 kDa) (Pold2), mRNA. DNA replication [0006260] 2 E12 oligo Experimental
12 1 1 1 12 NM_013726 22430 CGEN_MOUSE_3000516_1 Mus musculus activator of S phase kinase (Ask-pending), mRNA. start control point of mitotic cell cycle [0007089] 2 E24 oligo Experimental 5 8398692 8398756
13 1 1 1 13 NM_013718 8392 CGEN_MOUSE_3000534_1 Mus musculus Bet3 homolog (S. cerevisiae) (Bet3-pending), mRNA. leading strand elongation [0006272] 2 I12 oligo Experimental 4 124644270 124644334
14 1 1 1 14 M55696 CGEN_MOUSE_3000540_1 Mouse gag gene, 3' flank. RNA dependent DNA replication [0006278] 2 I24 oligo Experimental
15 1 1 1 15 AF016710 CGEN_MOUSE_3000558_1 Mus musculus reverse transcriptase-like mRNA sequence. DNA repair [0006281] 2 M12 oligo Experimental 9 12377169 12377233
16 1 1 1 16 NM_008598 1216 CGEN_MOUSE_3000564_1 Mus musculus 0-6-methylguanine-DNA methyltransferase (Mgmt), mRNA. DNA repair [0006281] 2 M24 oligo Experimental
17 1 1 1 17 X76090 CGEN_MOUSE_3000870_1 M.musculus (BALB/c) MRFX3 mRNA. regulation of transcription, DNA-dependent [0006355] 3 A12 oligo Experimental 19 27091955 27092019
18 1 1 1 18 L13204 4985 CGEN_MOUSE_3000876_1 Mus musculus HNF-3/forkhead homolog-4 (HFH-4) mRNA, complete cds. regulation of transcription, DNA-dependent [0006355] 3 A24 oligo Experimental 11 116002140 116002204
19 1 1 1 19 NM_011141 1330 CGEN_MOUSE_3000894_1 Mus musculus POU domain, class 3, transcription factor 1 (Pou3f1), mRNA. regulation of transcription, DNA-dependent [0006355] 3 E12 oligo Experimental 4 123028575 123028639
20 1 1 1 20 NM_009482 10205 CGEN_MOUSE_3000900_1 Mus musculus undifferentiated embryonic cell transcription factor 1 (Utf1), mRNA. regulation of transcription, DNA-dependent [0006355] 3 E24 oligo Experimental 7 127596858 127596922

Total number of rows: 22272

Table truncated, full table size 4863 Kbytes.




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