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Status
Public on Dec 01, 2007
Title
Saccharomyces cerevisiae RSC Specific 22K 8pack
Technology type
in situ oligonucleotide
Distribution
custom-commercial
Organism(s)
Saccharomyces cerevisiae Manufacturer
Agilent Technologies
Manufacture protocol
see manufacturer's web site
Description
The RSC specific 22K 8pack array is a customized miniature genomic tiling microarray designed for the analysis of chromatin structure in mutants defective for RSC (Remodels Structure of Chromatin) function. The array represents 218 specific loci from the Saccharomyces cerevisiae genome. These loci include 99 highly occupied targets, 43 non-occupied loci, 54 loci containing Pol III genes, and 22 other loci of interest. Each locus consists of 60mer oligonucleotides spanning an intergenic region of interest and a portion of the flanking ORFs with a mean resolution of 110 bp. The oligo probes were selected from Agilent Technologies’ Yeast Whole Genome ChIP-on-chip Microarray (Platform GPL3737). Additional probes were designed to increase tiling resolution; these are identified with Spot_ID prefix of SC_TJP. The array is based on the 8 pack 22K array format. Each array consists of 1900 spots. The Agilent Design ID is 014377.
Contributor(s)
Parnell TJ , Cairns BR Submission date
Jul 23, 2007
Contact name
Timothy J Parnell
E-mail(s)
timothy.parnell@hci.utah.edu Organization name
Huntsman Cancer Institute
Department
Oncological Sciences
Lab
Cairns
Street address
2000 Circle of Hope
City
Salt Lake City
State/province
UT
ZIP/Postal code
84112
Country
USA
Samples (50)
GSM224551 , GSM224552 , GSM224553 , GSM224554 , GSM224555 , GSM224556
GSM224557 ,
GSM224558 ,
GSM224559 ,
GSM224560 ,
GSM224561 ,
GSM224562 ,
GSM224563 ,
GSM224564 ,
GSM224565 ,
GSM224566 ,
GSM224567 ,
GSM224568 ,
GSM224569 ,
GSM224570 ,
GSM224571 ,
GSM224572 ,
GSM224573 ,
GSM224574 ,
GSM224575 ,
GSM224576 ,
GSM224577 ,
GSM224578 ,
GSM224579 ,
GSM224580 ,
GSM224581 ,
GSM224582 ,
GSM224583 ,
GSM224584 ,
GSM224585 ,
GSM224586 ,
GSM224587 ,
GSM224588 ,
GSM224589 ,
GSM224590 ,
GSM224591 ,
GSM224592 ,
GSM224593 ,
GSM224594 ,
GSM224595 ,
GSM224596 ,
GSM224597 ,
GSM224598 ,
GSM224599 ,
GSM224600 Series (1)
GSE8862 RSC Regulates Nucleosome Positioning at Pol II Genes and Density at Pol III Genes
Data table header descriptions ID SPOT_ID Probe ID
DESCRIPTION Location consisiting of Chromosome:Start-End
RANGE_GB Genbank Accession.version
RANGE_START Start position
RANGE_END End position
RANGE_STRAND Strand
SEQUENCE Sequence of oligo probe
Data table ID SPOT_ID DESCRIPTION RANGE_GB RANGE_START RANGE_END RANGE_STRAND SEQUENCE 1
SC_TJP_0000678
chr14:0576087-0576146
NC_001146.6
576087
576146
+
GAAGAACAGTTGGAAGGGCCAAAGTGGAAGTCACAAAACAGTGGTCCTATATAAAAGAAC
2
SC_TJP_0000850
chr16:0670762-0670821
NC_001148.3
670762
670821
+
GGAGAAACTAAGTAACCTCGAAAAAGAGCAGTCGAAAGAAGGAGCCCGCACCAAGATTGG
3
A_75_P0001560
chr02:0269790-0269849
NC_001134.7
269790
269849
+
GCGAGCCAATGGCGACTCACTTGACTTGCATGTTTGCATAACCTATTTAGCGAACCCTCC
4
A_75_P0004033
chr03:0157539-0157598
NC_001135.4
157540
157599
-
AAAGCGTGCTTTGTAAGAATATTTGGTATGGCTAAAGTAAGCAAAGCCATATCCCGATCC
5
SC_TJP_0000251
chr05:0198923-0198982
NC_001137.2
198923
198982
+
TTCATTCACCAACGTCTGATGAACCCGTACCTGAATCTGCAGGAAAAGCAGATACTAGTA
6
SC_TJP_0000746
chr15:0304110-0304169
NC_001147.5
304111
304170
+
ATAGTTCAGCTGTTAAATAGAGCTGTATGCTTTATTTGTTGTTTTTTTTGTTTTGTTGTT
7
SC_TJP_0000320
chr06:0251902-0251961
NC_001138.4
251902
251961
+
CTGGCTGTTGCTGGAAAAATGTAAACGCGCAGGGCGGGTAATAATAAAAGTTGAACTATG
8
SC_TJP_0000889
chr02:0680386-0680445
NC_001134.7
680386
680445
+
TGTGGCGAGTGCAGCAAGAGGGGTAGCCAAGAGCTCATTCGTAAGGGCCAATTCGGCCAT
9
A_75_P0025103
chr12:0108973-0109032
NC_001144.4
108973
109032
+
GGATTCTTGTGTTATGTTTCGTAAAAGATACTTTGTGTGTAGTGGGTGCGTTTGCTTGTT
10
A_75_P0031095
chr13:0793731-0793790
NC_001145.2
793731
793790
+
AAACTTGTTGATGCCCACTGTCATGTTATAACCGACCCAGACAACACATTCTGCGGTGAT
11
SC_TJP_0000359
chr07:0832606-0832665
NC_001139.7
832606
832665
+
CGGAGGCTTCCCCCGCCAAAGATGATGACGAAATTAGGGATTTTGAAGAGCAATTTCCAG
12
SC_TJP_0000745
chr15:0303918-0303977
NC_001147.5
303919
303978
-
GGAAAAGCTCATGGAGGTAAAGGTAAATCCGGCGCTAAAGACAGTGGTTCATTGAGATCT
13
A_75_P0023714
chr11:0364523-0364582
NC_001143.7
364523
364582
+
AGAATATACATGCGACAACATTTGTAGTTACTTGTCTTACGCTTCCTAGGGAACGGATCA
14
SC_TJP_0000682
chr14:0472863-0472922
NC_001146.6
472863
472922
+
CGGCTTTAAAGATGTTTTGTTAAAGACGCTAGAAAGGGAAGGTTATCAAGGTCTATTTAA
15
SC_TJP_0000915
chr10:0381048-0381107
NC_001142.7
381127
381186
+
GAAATTTCACCCGGCGCGGCACCCGAGGAACTGGACAGCGTGTCGAAAAAGTTGCTTTTT
16
A_75_P0007753
chr04:0927633-0927692
NC_001136.8
927635
927694
+
ACCATTCCACCCAGGAGTCGGGTTTCGATTACGAAGGCCTGATAGATTCCGAACTGCAGA
17
SC_TJP_0000751
chr15:0305088-0305147
NC_001147.5
305089
305148
+
TTTTCTCTTCTTTCTTTTTCCCTGCTTTTAAGATGGCTTGGCTATGGAATTACTCAATTT
18
SC_TJP_0000137
chr04:0317117-0317176
NC_001136.8
317117
317176
-
GCCATAAATGTCCTATTTGCAAGAAAGTAATTTCAAATTTTGGAACAGATTCGATTTCCT
19
A_75_P0002034
chr02:0400741-0400800
NC_001134.7
400741
400800
-
TTAAAGGTGTCAAACTGTCCAAATAACTCCTATGCACTCGCAAACGTAGCTGCTGTCTCA
20
A_75_P0012668
chr06:0251792-0251851
NC_001138.4
251792
251851
+
GTGTATTTCTTTTGATGGAGCTATAGGTATTCTAATATGATCTATATTCGACGCTGAGGC
1900 240 Kbytes .Supplementary data files not provided
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