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Platform GPL10635 Query DataSets for GPL10635
Status Public on Mar 07, 2011
Title CRG Human Splicing Array Custom 44K G2514F AMADID19952
Technology type in situ oligonucleotide
Distribution custom-commercial
Organism Homo sapiens
Manufacturer Agilent Technologies
Manufacture protocol see manufacturer's web site at http://www.agilent.com
Catalog number G2514F-AMADID19952
Support glass
Coating unknown
 
Description It was designed an alternative splicing-sensitive microarrays which focus on the analysis of two groups of genes: splicing regulatory factors and cancer-related genes, with the goal of establishing correlations between changes in splicing factor expression and pre mRNA alternative splicing under different biological situations. Databases of human SReg and other proteins involved in RNA metabolism (420 genes) and of genes implicated in tumor onset and progression (500 genes) were generated. Splicing events (about 1000 for each category) were identified computationally by alignment of genomic sequences to RefSeq, mRNA and ESTs. Probes complementary to alternative and constitutive exons as well as to splice junctions were selected and produced using AGILENT ink-jet technology.
Barcodes: from 251995210001 to 251995210099.
 
Contributor(s) Belen M, Juan V, Claudia B, Juanjo L
Submission date Jun 29, 2010
Last update date Feb 22, 2011
Contact name BELEN MINANA
E-mail(s) belen.minana@crg.es
Phone 0034933160276
Organization name Center for genomic regulation
Department GENE REGULATION, STEM CELLS AND CANCER
Lab REGULATION OF ALTERNATIVE SPLICING
Street address dr aiguader 88
City barcelona
State/province barcelona
ZIP/Postal code 08003
Country Spain
 
Samples (80) GSM560882, GSM560883, GSM560886, GSM560887, GSM560888, GSM560889 
Series (9)
GSE22614 Spliceostatin treatment on HeLa cells
GSE22929 EWS siRNA knock-down in HeLa cell line
GSE22952 SF3b155 knock-down by two different siRNA oligos in HeLa cells

Data table header descriptions
ID
Column COLUMN
Row ROW
NAME NAME
SPOT ID
ControlType Control Type
REFSEQ RefSeqAccesion
SEQUENCE single-stranded DNA oligo sequence
GENE_SYMBOL gene symbol
GENE_NAME gene name
RefNumber Agilent feature number
GB_ACC GenBank accession number
SPOT_ID SPOT IDENTIFIER

Data table
ID Column Row NAME SPOT ID ControlType REFSEQ SEQUENCE GENE_SYMBOL GENE_NAME RefNumber GB_ACC SPOT_ID
1 1 1 GE_BrightCorner GE_BrightCorner pos 45220 --GE_BrightCorner
2 2 1 GE_BrightCorner GE_BrightCorner pos 45050 --GE_BrightCorner
3 3 1 DarkCorner DarkCorner pos 44880 --DarkCorner
4 4 1 DarkCorner DarkCorner pos 44710 --DarkCorner
5 5 1 DarkCorner DarkCorner pos 44540 --DarkCorner
6 6 1 DarkCorner DarkCorner pos 44370 --DarkCorner
7 7 1 DarkCorner DarkCorner pos 44200 --DarkCorner
8 8 1 DarkCorner DarkCorner pos 44030 --DarkCorner
9 9 1 DarkCorner DarkCorner pos 43860 --DarkCorner
10 10 1 DarkCorner DarkCorner pos 43690 --DarkCorner
11 11 1 DarkCorner DarkCorner pos 43520 --DarkCorner
12 12 1 DarkCorner DarkCorner pos 43350 --DarkCorner
13 13 1 DarkCorner DarkCorner pos 43180 --DarkCorner
14 14 1 DarkCorner DarkCorner pos 43010 --DarkCorner
15 15 1 DarkCorner DarkCorner pos 42840 --DarkCorner
16 16 1 DarkCorner DarkCorner pos 42670 --DarkCorner
17 17 1 DarkCorner DarkCorner pos 42500 --DarkCorner
18 18 1 DarkCorner DarkCorner pos 42330 --DarkCorner
19 19 1 DarkCorner DarkCorner pos 42160 --DarkCorner
20 20 1 33.10.1_B2_CA2 33.10.1_B2_CA2 ignore NM_002819 TCTACTTGTGTCACTAACGGACCGTTTTTTTTTTTTT PTBP1 Polypyrimidine tract binding protein 1 41990 NM_002819

Total number of rows: 45220

Table truncated, full table size 7296 Kbytes.




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