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Platform GPL2626 Query DataSets for GPL2626
Status Public on Sep 01, 2005
Title yeast_nucleosome_positioning_microarray 10+
Technology type spotted oligonucleotide
Distribution non-commercial
Organism Saccharomyces cerevisiae
Manufacturer Brown Lab, Biochemistry Dept., Stanford University
Manufacture protocol MGuide, www.microarrays.org
 
Description The sequence from S. cerevisiae chromosome III was fragmented into 50-mers overlapping every 20 base pairs. Potentially cross-hybridizing probes were filtered by BLASTing these sequences against the entire genome and eliminating sequences from chromosome III that included 5 or more contiguous probes with perfect BLAST matches, leaving 30 contigs covering 278,960 base pairs. Oligonucleotides were also tiled over one kilobase of 223 promoters on other chromosomes, starting at -900 from the start codon and extending to +100.
Note: this platform does not contain any control oligonucleotides.
Keywords = nucleosome
Keywords = yeast
Keywords = tiling microarray
 
Contributor(s) Rando OJ
Submission date Jul 13, 2005
Last update date Sep 01, 2005
Contact name Oliver Rando
E-mail(s) Oliver.Rando@umassmed.edu
Phone 508-856-8879
Organization name UMass Medical School
Street address 364 Plantation St.
City Worcester
State/province MA
ZIP/Postal code 01605-4321
Country USA
 
Samples (17) GSM64526, GSM64527, GSM64528, GSM64529, GSM64530, GSM64531 
Series (2)
GSE2954 Single-nucleosome mapping of histone modifications in S. cerevisiae
GSE3411 H2A.Z marks the 5' end of genes

Data table header descriptions
ID
SEQUENCE nucleotide sequences of the 50mer oligo probes on tiled yeast nucleosome array

Data table
ID SEQUENCE
493550 CACGCTGTGGTTCCCACCGCACGCTATCTTCCTGACTATTGCTCCATCAT
493552 ACGCTATCTTCCTGACTATTGCTCCATCATCTCCTGGCACAGACCTCTGT
493554 GCTCCATCATCTCCTGGCACAGACCTCTGTGGGGTATCCATATCCTCATC
493556 AGACCTCTGTGGGGTATCCATATCCTCATCGTGCCCCAGTCCCAGTTGCC
493558 TATCCTCATCGTGCCCCAGTCCCAGTTGCCTTTGCCCATTAGACCCAAAC
493560 CCCAGTTGCCTTTGCCCATTAGACCCAAACGCATACACACAACTCATCGA
493562 AGACCCAAACGCATACACACAACTCATCGATACAAGCCTGTTATAGCCTT
493564 AACTCATCGATACAAGCCTGTTATAGCCTTTAATGATCACATTCCATCAC
493566 TTATAGCCTTTAATGATCACATTCCATCACTTGCGCTTTGGATCTGCCTG
493568 ATTCCATCACTTGCGCTTTGGATCTGCCTGCATTATCAAGGCTCAAACGG
493570 GATCTGCCTGCATTATCAAGGCTCAAACGGCTGCGTTACCCCCGTCGCCG
493572 GCTCAAACGGCTGCGTTACCCCCGTCGCCGCGAAATTTTTCATAATTTTT
493574 CCCGTCGCCGCGAAATTTTTCATAATTTTTCACTTTGTAGGATTAAAAGA
493576 CATAATTTTTCACTTTGTAGGATTAAAAGAGATCATGAGCCCATCTCGCA
493578 GATTAAAAGAGATCATGAGCCCATCTCGCAATGCAACACGTAACTTAAAT
493580 CCATCTCGCAATGCAACACGTAACTTAAATCAGTACTGGCGTGTGCTATA
493582 TAACTTAAATCAGTACTGGCGTGTGCTATAGTGCTCTATATTCGAGTTTG
493584 GTGTGCTATAGTGCTCTATATTCGAGTTTGTTGCTACTGGTGGACACCCG
493586 TTCGAGTTTGTTGCTACTGGTGGACACCCGACTATCTACAGTAAGGAACG
493588 TGGACACCCGACTATCTACAGTAAGGAACGTAAACAAGAAAAAGAGAGAA

Total number of rows: 24960

Table truncated, full table size 1423 Kbytes.




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Supplementary data files not provided
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