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Platform GPL6869 Query DataSets for GPL6869
Status Public on Aug 04, 2008
Title UMNENT Anaplasma phagocytophilum Hz whole genome tiling array 256K
Technology type in situ oligonucleotide
Distribution custom-commercial
Organism Anaplasma phagocytophilum str. HZ
Manufacturer Affymetrix/Nimblegen
Manufacture protocol 25-mer oligonucleotides representing the entire Ap Hz genome (1.47 Mb; accession CP000235.1), each overlapping its neighbor by 11 bases, were tiled by photolithography onto chips using maskless DLP process. For additional details, see the manufacturer's website.
 
Description BPMAP files are provided as supplementary files. 030806HZb530241N+.bpmap describes the + DNA strand of A. phagocytophilum Hz, 030806HZb530241N-.bpmap describes the - DNA strand.
 
Submission date May 16, 2008
Last update date Aug 04, 2008
Contact name Michael Herron
E-mail(s) herro001@umn.edu
Organization name Michael Herron
Department Entomology
Lab U. G. Munderloh
Street address 1980 Folwell Avenue, Room 219 Hodson Hall
City St. Paull
State/province MN
ZIP/Postal code 55108
Country USA
 
Samples (18) GSM289217, GSM289218, GSM289219, GSM289220, GSM289221, GSM289222 
Series (1)
GSE11487 Global gene transcription analysis of Anaplasma phagocytophilum in tick and human cells using tiling microarrays

Data table header descriptions
ID unique ID generated by merging Seq, Pos, Strand columns from the BPMAP files
PMX probe X coordinate
PMY probe Y coordinate
MMX probe X coordinate
MMY probe Y coordinate
Seq GI and accession.version of the A. phagocytophilum Hz genome
RANGE_START Pos column in BPMAP files; sequence genomic start position relative to Seq
Genomic Location center of probe genomic position relative to Seq
SEQUENCE probe sequence
Strand DNA strand probe sequence is derived from
Probe_count

Data table
ID PMX PMY MMX MMY Seq RANGE_START Genomic Location SEQUENCE Strand Probe_count
Ap:GI_88597753;CP000235.1_5_- 482 165 581 376 Ap:GI_88597753;CP000235.1 5 17 AAGTTTTCATGATGGTACCTACAGC - 1
Ap:GI_88597753;CP000235.1_14_- 31 530 581 376 Ap:GI_88597753;CP000235.1 14 26 TGATGGTACCTACAGCGGAATTTTT - 2
Ap:GI_88597753;CP000235.1_22_- 295 330 581 376 Ap:GI_88597753;CP000235.1 22 34 CCTACAGCGGAATTTTTTCTCAATG - 3
Ap:GI_88597753;CP000235.1_34_- 84 703 581 376 Ap:GI_88597753;CP000235.1 34 46 TTTTTTCTCAATGTTGTAAGTAATA - 4
Ap:GI_88597753;CP000235.1_45_- 560 525 581 376 Ap:GI_88597753;CP000235.1 45 57 TGTTGTAAGTAATAATTCTTCGTAC - 5
Ap:GI_88597753;CP000235.1_55_- 24 177 581 376 Ap:GI_88597753;CP000235.1 55 67 AATAATTCTTCGTACTAGAGAAGTT - 6
Ap:GI_88597753;CP000235.1_69_- 138 243 581 376 Ap:GI_88597753;CP000235.1 69 81 CTAGAGAAGTTTTGAGTTTTACCAT - 7
Ap:GI_88597753;CP000235.1_76_- 509 62 581 376 Ap:GI_88597753;CP000235.1 76 88 AGTTTTGAGTTTTACCATATCCTAG - 8
Ap:GI_88597753;CP000235.1_87_- 700 713 581 376 Ap:GI_88597753;CP000235.1 87 99 TTACCATATCCTAGGGTTTTAGTCA - 9
Ap:GI_88597753;CP000235.1_97_- 704 269 581 376 Ap:GI_88597753;CP000235.1 97 109 CTAGGGTTTTAGTCATAAAACAGTG - 10
Ap:GI_88597753;CP000235.1_108_- 413 462 581 376 Ap:GI_88597753;CP000235.1 108 120 GTCATAAAACAGTGTGATGGAAAAG - 11
Ap:GI_88597753;CP000235.1_132_- 190 395 581 376 Ap:GI_88597753;CP000235.1 132 144 GAAAAGTTTTGTTATCGTCGACGCA - 12
Ap:GI_88597753;CP000235.1_143_- 640 711 581 376 Ap:GI_88597753;CP000235.1 143 155 TTATCGTCGACGCATATGGGTTTCT - 13
Ap:GI_88597753;CP000235.1_154_- 130 363 581 376 Ap:GI_88597753;CP000235.1 154 166 GCATATGGGTTTCTTTTTCGCGCGT - 14
Ap:GI_88597753;CP000235.1_165_- 574 591 581 376 Ap:GI_88597753;CP000235.1 165 177 TCTTTTTCGCGCGTATTATGCGCTG - 15
Ap:GI_88597753;CP000235.1_176_- 90 309 581 376 Ap:GI_88597753;CP000235.1 176 188 CGTATTATGCGCTGCCTGGATTAAG - 16
Ap:GI_88597753;CP000235.1_187_- 27 288 581 376 Ap:GI_88597753;CP000235.1 187 199 CTGCCTGGATTAAGCACCTCATACA - 17
Ap:GI_88597753;CP000235.1_198_- 53 160 581 376 Ap:GI_88597753;CP000235.1 198 210 AAGCACCTCATACAATTTTCCTGTA - 18
Ap:GI_88597753;CP000235.1_209_- 377 128 581 376 Ap:GI_88597753;CP000235.1 209 221 ACAATTTTCCTGTAGGAGGTGTATA - 19
Ap:GI_88597753;CP000235.1_220_- 696 449 581 376 Ap:GI_88597753;CP000235.1 220 232 GTAGGAGGTGTATATGGTTTTATAA - 20

Total number of rows: 257944

Table truncated, full table size 31632 Kbytes.




Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp

Supplementary file Size Download File type/resource
GPL6869_030806HZb530241N+.bpmap.gz 1.9 Mb (ftp)(http) BPMAP
GPL6869_030806HZb530241N-.bpmap.gz 2.0 Mb (ftp)(http) BPMAP

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