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Status
Public on Aug 01, 2008
Title
Sugden Lab Epstein-Barr virus (EBV) miRNA microarray
Technology type
spotted oligonucleotide
Distribution
non-commercial
Organisms
Arabidopsis thaliana ; Homo sapiens ; human gammaherpesvirus 4 Manufacturer
Sugden Lab, University of Wisconsin-Madison
Manufacture protocol
Oligonucleotides are tandem complements of mature miRNA sequences and snoRNA sequences. they contain 5' C6 amino linkers to allow binding the the aldehyde microarray slide upon drying. Oligonucleotides were spotted at a 40 micromolar concentration in 2.4x SSC. After spotting, slides remained in a high-humidity chamber for 4 hours, and were then allowed to dry overnight. Dried slides were washed twice 0.2% SDS solution for 2 minutes each time, twice in H2O for 2 minutes each time, for 5 minutes in sodium borohydride solution (375 ml 1x PBS, 1.3 g sodium borohydride, 125 ml 100% ethanol after sodium borohydride has dissolved). After sodium borohydride wash, the SDS and H2O washes were repeated. Slides were spun dried and stored at 4 degrees celcius in a dry environment.
Description
The Platform data table reflects a condensed representation of the array's replicate features. The full array layout representing all of the individual features is linked as a supplementary file at the foot of this record.
Contributor(s)
Sugden B , Pratt ZL , Sengupta S , Kuzembayeva M Submission date
Jul 05, 2008
Last update date
Aug 01, 2008
Contact name
Zachary Pratt
E-mail(s)
zpratt@wisc.edu Organization name
University of Wisconsin-Madison
Department
Oncology
Lab
Sugden
Street address
1400 University Avenue
City
Madison
State/province
WI
ZIP/Postal code
53706
Country
USA
Samples (48)
GSM303592 , GSM303593 , GSM303594 , GSM303595 , GSM303596 , GSM303597
GSM303598 ,
GSM303599 ,
GSM303600 ,
GSM303601 ,
GSM303602 ,
GSM303603 ,
GSM303604 ,
GSM303605 ,
GSM303606 ,
GSM303607 ,
GSM303608 ,
GSM303621 ,
GSM303622 ,
GSM303623 ,
GSM303624 ,
GSM303625 ,
GSM303626 ,
GSM303627 ,
GSM303628 ,
GSM303629 ,
GSM303630 ,
GSM303631 ,
GSM303632 ,
GSM303633 ,
GSM303634 ,
GSM303635 ,
GSM303636 ,
GSM303637 ,
GSM303638 ,
GSM303639 ,
GSM303640 ,
GSM303641 ,
GSM303642 ,
GSM303643 ,
GSM303644 ,
GSM303645 ,
GSM303646 ,
GSM303647 ,
GSM303648 ,
GSM303649 ,
GSM303650 ,
GSM303651 Series (1)
GSE12014 Expression of EBV miRNAs in numerous EBV-positive cell lines
Data table header descriptions ID Source Host of the hybridized RNA expected to bind oligonucleotide
Name Full name of expected hybridized RNA
Type Hybridized RNA will be microRNA (miRNA) or small nucleolar RNA (snoRNA)
miRNA_ID miRBase's miRNA ID
ORF gene symbol
SEQUENCE oligo sequence
Data table ID Source Name Type miRNA_ID ORF SEQUENCE 1
Arabidopsis thaliana
ath-miR-167
miRNA
ath-miR167 TAGATCATGCTGGCAGCTTCATAGATCATGCTGGCAGCTTCA
10
Arabidopsis thaliana
ath-miR-163
miRNA
ath-miR163 ATCGAAGTTCCAAGTCCTCTTCAAATCGAAGTTCCAAGTCCTCTTCAA
6
Arabidopsis thaliana
ath-miR-170
miRNA
ath-miR170 GATATTGACACGGCTCAATCAGATATTGACACGGCTCAATCA
28
Epstein-Barr Virus
ebv-miR-BHRF1-1
miRNA
ebv-miR-BHRF1-1 ACTCCGGGGCTGATCAGGTTAACTCCGGGGCTGATCAGGTTA
8
Epstein-Barr Virus
ebv-miR-BHRF1-2*
miRNA
ebv-miR-BHRF1-2* GCTATCTGCTGCAACAGAATTTGCTATCTGCTGCAACAGAATTT
19
Epstein-Barr Virus
ebv-miR-BHRF1-2
miRNA
ebv-miR-BHRF1-2 TTCAATTTCTGCCGCAAAAGATATTCAATTTCTGCCGCAAAAGATA
12
Epstein-Barr Virus
ebv-miR-BHRF1-3
miRNA
ebv-miR-BHRF1-3 GTGTGCTTACACACTTCCCGTTAGTGTGCTTACACACTTCCCGTTA
22
Epstein-Barr Virus
ebv-miR-BART3*
miRNA
ebv-miR-BART3* CAGCACAACACTAACACTAGGTTCAGCACAACACTAACACTAGGTT
25
Epstein-Barr Virus
ebv-miR-BART3
miRNA
ebv-miR-BART3 ACACCTGGTGACTAGTGGTGCGACACCTGGTGACTAGTGGTGCG
29
Epstein-Barr Virus
ebv-miR-BART4
miRNA
ebv-miR-BART4 AGCACACCAGCAGCATCAGGTCAGCACACCAGCAGCATCAGGTC
20
Epstein-Barr Virus
ebv-miR-BART1-5p
miRNA
ebv-miR-BART1-5p CACAGCACGTCACTTCCACTAAGACACAGCACGTCACTTCCACTAAGA
23
Epstein-Barr Virus
ebv-miR-BART1-3p
miRNA
ebv-miR-BART1-3p AGACATAGTGGATAGCGGTGCTAAGACATAGTGGATAGCGGTGCTA
27
Epstein-Barr Virus
ebv-miR-BART15
miRNA
ebv-miR-BART15 CTATCAAGGAAACAAAACCACTGCTATCAAGGAAACAAAACCACTG
3
Epstein-Barr Virus
ebv-miR-BART5
miRNA
ebv-miR-BART5 ACGTCGATGGGCAGCTATATTCACCTTGACGTCGATGGGCAGCTATATTCACCTTG
7
Epstein-Barr Virus
ebv-miR-BART16
miRNA
ebv-miR-BART16 CAAGAGCACACACCCACTCTATCAAGAGCACACACCCACTCTAT
11
Epstein-Barr Virus
ebv-miR-BART17-5p
miRNA
ebv-miR-BART17-5p CCTTGTATGCCTGCGTCCTCTTCCTTGTATGCCTGCGTCCTCTT
2
Epstein-Barr Virus
ebv-miR-BART17-3p
miRNA
ebv-miR-BART17-3p TAAGGGGACACCAGGCATACAAGTAAGGGGACACCAGGCATACAAG
5
Epstein-Barr Virus
ebv-miR-BART6-5p
miRNA
ebv-miR-BART6-5p AAGCCTATGGATTGGACCAACCAAGCCTATGGATTGGACCAACC
9
Epstein-Barr Virus
ebv-miR-BART6-3p
miRNA
ebv-miR-BART6-3p TCTAAGGCTAGTCCGATCCCCGTCTAAGGCTAGTCCGATCCCCG
33
Epstein-Barr Virus
ebv-miR-BART18-5p
miRNA
ebv-miR-BART18-5p CTGTATAGGAAGTGCGAACTTGCTGTATAGGAAGTGCGAACTTG
39 3 Kbytes .Supplementary file Size Download File type/resource GPL7022_Full_array_KSHV.txt.gz
675 b
(ftp) (http) TXT
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