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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.
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)
[email protected] 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
GSM560890 ,
GSM560891 ,
GSM566197 ,
GSM566198 ,
GSM566199 ,
GSM566200 ,
GSM566201 ,
GSM566202 ,
GSM566582 ,
GSM566583 ,
GSM566611 ,
GSM566612 ,
GSM566613 ,
GSM566632 ,
GSM566633 ,
GSM566668 ,
GSM566669 ,
GSM566670 ,
GSM566671 ,
GSM566672 ,
GSM802706 ,
GSM802707 ,
GSM802708 ,
GSM802709 ,
GSM802710 ,
GSM802711 ,
GSM1449063 ,
GSM1449064 ,
GSM1449065 ,
GSM1449066 ,
GSM1449067 ,
GSM1449068 ,
GSM1449069 ,
GSM1449070 ,
GSM1449071 ,
GSM1449072 ,
GSM1449073 ,
GSM1449074 ,
GSM1602778 ,
GSM1602779 ,
GSM1602780 ,
GSM1602781 ,
GSM1602782 ,
GSM1602783 ,
GSM1602784 ,
GSM1602785 ,
GSM1602786 ,
GSM1602787 ,
GSM1602788 ,
GSM1602789 ,
GSM2212496 ,
GSM2212497 ,
GSM2212498 ,
GSM2212499 ,
GSM2212500 ,
GSM2212501 ,
GSM2212502 ,
GSM2212503 ,
GSM2212504 ,
GSM2212505 ,
GSM2212506 ,
GSM2212507 ,
GSM3316925 ,
GSM3316926 ,
GSM3316927 ,
GSM3316928 ,
GSM3316929 ,
GSM3316930 ,
GSM3316931 ,
GSM3316932 ,
GSM3316933 ,
GSM3316934 ,
GSM3316935 ,
GSM3316936 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
GSE32440 CPEB inducible knock-down in a H.D. Myz cell line
GSE59889 UV (UVC, 10J/m2) light irradiation effect on Ewing Sarcoma cells
GSE65676 UV (UVC, 40J/m2) light irradiation effect on human hepatoma Hep3B cells
GSE65678 UV (UVC, 10J/m2) light irradiation effect on human hepatoma Hep3B cells
GSE83678 Systems analysis identifies melanoma-enriched pro-oncogenic networks controlled by the RNA binding protein CELF1
GSE117996 Effect of p38 SAPK activation on 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
45220 7296 Kbytes .Supplementary data files not provided
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