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Platform GPL6343 Query DataSets for GPL6343
Status Public on Feb 17, 2008
Title University of Washington Human custom 2-plex 166K array for 15q13 region, A2 subarray version 1
Technology type in situ oligonucleotide
Distribution custom-commercial
Organism Homo sapiens
Manufacturer Nimblegen
Manufacture protocol per Nimblegen protocol
 
 
Contributor(s) Mefford HC
Submission date Jan 04, 2008
Last update date Feb 17, 2008
Contact name Heather Mefford
E-mail(s) hmefford@u.washington.edu
Phone 206-685-7336
Fax 206-221-5795
Organization name University of Washington
Department Genome Sciences
Lab Eichler Lab
Street address 1705 NE Pacific St
City Seattle
State/province WA
ZIP/Postal code 98195
Country USA
 
Samples (1) GSM254774
Series (1)
GSE10189 Recurrent 15q13 microdeletions

Data table header descriptions
ID
PROBE_DESIGN_ID
CONTAINER A2 array on 2-plex
DESIGN_NOTE
SELECTION_CRITERIA
SEQ_ID
SEQUENCE
MISMATCH
MATCH_INDEX
FEATURE_ID
ROW_NUM
COL_NUM
PROBE_CLASS
POSITION
DESIGN_ID
X
Y
chrm chrm location of probe
RANGE_START coordinates of probe start
RANGE_END coordinates of probe end
genome_build hg17
RANGE_STRAND +
RANGE_GB
INDEX

Data table
ID PROBE_DESIGN_ID CONTAINER DESIGN_NOTE SELECTION_CRITERIA SEQ_ID SEQUENCE MISMATCH MATCH_INDEX FEATURE_ID ROW_NUM COL_NUM PROBE_CLASS POSITION DESIGN_ID X Y chrm RANGE_START RANGE_END genome_build RANGE_STRAND RANGE_GB INDEX
CHR0100P146220795 3391_0001_0001 A2 rank selected target_tm:76.00;probe_tm:77.58;freq:24.00;count:04;rules:-400;score:0039 CHR1:142000000-146500000 TTTGCTGTCCCCTCTTGCCTGGATTACATCATCTTCTCCAAACCCCCAAT 0 48635993 48635993 1 1 experimental 146220795 3391 1 1 chr1 146220795 146220844 hg17 + NC_000001.8 52516
CHR1500P028490110 3391_0025_0001 A2 rank selected target_tm:76.00;probe_tm:77.58;freq:40.61;count:17;rules:0000;score:-899 CHR15:25500000-31500000 TACGGTTCTTCACAGCAGATATAGGATGGAAAAGGACAGACAGGAGCCCT 0 48500563 48500563 1 25 experimental 28490110 3391 25 1 chr15 28490110 28490159 hg17 + NC_000015.8 98766
CHR1700P031520615 3391_0027_0001 A2 rank selected target_tm:76.00;probe_tm:83.32;freq:26.31;count:15;rules:-500;score:-1282 CHR17:31500000-34000000 TGGACGGTCCCGCCATTTGGGCTGTGAAATCCTGAGAAGCCCCCAGCCCA 0 48577016 48577016 1 27 experimental 31520615 3391 27 1 chr17 31520615 31520664 hg17 + NC_000017.9 251672
CHR0100P142657164 3391_0029_0001 A2 rank selected target_tm:76.00;probe_tm:75.61;freq:21.37;count:02;rules:0000;score:0671 CHR1:142000000-146500000 TTGCTTCCACATGTATAAAATGCAGATAATGCTGCCTAACTTGAACGGTTGTTGTAAGGT 0 48613698 48613698 1 29 experimental 142657164 3391 29 1 chr1 142657164 142657223 hg17 + NC_000001.8 7926
CHR1500P027459704 3391_0031_0001 A2 rank selected target_tm:76.00;probe_tm:75.81;freq:25.14;count:01;rules:0000;score:0764 CHR15:25500000-31500000 ATTTTTCTAAAAGGAAATTCCTTATATGAGCCGAGATACAGCAGAAGAGGAGCCTCAC 0 48493323 48493323 1 31 experimental 27459704 3391 31 1 chr15 27459704 27459761 hg17 + NC_000015.8 84286
CHR0100P144719885 3391_0033_0001 A2 rank selected target_tm:76.00;probe_tm:69.41;freq:69.64;count:02;rules:0000;score:0462 CHR1:142000000-146500000 TTGTTTTCTTTGAGTTTCCTAAAGTGTAAGTTTGGATTATTGATTTTAGATCT 0 48627437 48627437 1 33 experimental 144719885 3391 33 1 chr1 144719885 144719937 hg17 + NC_000001.8 35404
CHR1500P074011014 3391_0035_0001 A2 rank selected target_tm:76.00;probe_tm:75.34;freq:28.65;count:01;rules:0000;score:0745 CHR15:69000000-76500000 CCAGTGACTCTTGCCCATTTTATAGATTCAGATGTTGGAAGCATGATACAATACTTGTTTATC 0 48558892 48558892 1 35 experimental 74011014 3391 35 1 chr15 74011014 74011076 hg17 + NC_000015.8 215424
CHR1700P041267754 3391_0037_0001 A2 rank selected target_tm:76.00;probe_tm:85.78;freq: 8.69;count:01;rules:0000;score:0648 CHR17:40000000-42500000 CCTCCCTGTGCCCACAGGTCCGTTCTGCCATCCGGAAGAGGTGGCACCGG 0 48601005 48601005 1 37 experimental 41267754 3391 37 1 chr17 41267754 41267803 hg17 + NC_000017.9 299650
CHR1500P075329407 3391_0039_0001 A2 rank selected target_tm:76.00;probe_tm:75.60;freq:15.79;count:01;rules:0000;score:0793 CHR15:69000000-76500000 TTTACTGGATATTTTAGAAGGGTGAATGTGGCCACATGTCTACCAGTGACAAG 0 48567716 48567716 1 39 experimental 75329407 3391 39 1 chr15 75329407 75329459 hg17 + NC_000015.8 233072
CHR1500P070350710 3391_0041_0001 A2 rank selected target_tm:76.00;probe_tm:76.02;freq:12.12;count:01;rules:0000;score:0820 CHR15:69000000-76500000 GAGGGAGTTTTTCTTGTTCAAGCAAGAGACAGTTCAGAGATTACCGGCTTTTTCAA 0 48532720 48532720 1 41 experimental 70350710 3391 41 1 chr15 70350710 70350765 hg17 + NC_000015.8 163080
CHR1700P032686639 3391_0043_0001 A2 rank selected target_tm:76.00;probe_tm:75.82;freq:14.81;count:01;rules:0000;score:0802 CHR17:31500000-34000000 GACTTAAACCTAAATGCCAACAGAGGCCAGTCTGGGAACATAAATGAGTGA 0 48584893 48584893 1 43 experimental 32686639 3391 43 1 chr17 32686639 32686689 hg17 + NC_000017.9 267426
CHR1500P029479308 3391_0045_0001 A2 rank selected target_tm:76.00;probe_tm:85.78;freq:30.31;count:01;rules:-400;score:0158 CHR15:25500000-31500000 ATCTGCCAGGGCAGGCCACAGGGAGGGGCTGAGAGCCTGACTCTGGGCTC 0 48507798 48507798 1 45 experimental 29479308 3391 45 1 chr15 29479308 29479357 hg17 + NC_000015.8 113236
CHR1500P027425835 3391_0047_0001 A2 rank selected target_tm:76.00;probe_tm:83.32;freq:21.50;count:01;rules:0000;score:0632 CHR15:25500000-31500000 TGCCTCAGGCTGAAATCCAGCTGGGCCTGTGCTCCAAGCCAGGAGTCCTG 0 48493058 48493058 1 47 experimental 27425835 3391 47 1 chr15 27425835 27425884 hg17 + NC_000015.8 83756
CHR1500P025717287 3391_0049_0001 A2 rank selected target_tm:76.00;probe_tm:75.70;freq:19.29;count:01;rules:0000;score:0781 CHR15:25500000-31500000 GTTATGAAATTATTCTCCTGCTTCCTCGCTCTGACCCTGATGATCAGGATTT 0 48482056 48482056 1 49 experimental 25717287 3391 49 1 chr15 25717287 25717338 hg17 + NC_000015.8 61752
CHR0100P144208467 3391_0051_0001 A2 rank selected target_tm:76.00;probe_tm:75.60;freq: 9.33;count:01;rules:0000;score:0831 CHR1:142000000-146500000 CTTGTGAACTTTGGTGCTATGTTCAACACAAAGCCAAGAGGCTATGTGAGTTA 0 48623647 48623647 1 51 experimental 144208467 3391 51 1 chr1 144208467 144208519 hg17 + NC_000001.8 27824
CHR1500P026684177 3391_0053_0001 A2 rank selected target_tm:76.00;probe_tm:80.86;freq:18.75;count:07;rules:0000;score:0091 CHR15:25500000-31500000 CAAATGTTCACTCTCTGGCACTTGAGGAAGAGCTTGCTGGCTGCCGGGCT 0 48488268 48488268 1 53 experimental 26684177 3391 53 1 chr15 26684177 26684226 hg17 + NC_000015.8 74176
CHR0100P145792053 3391_0055_0001 A2 rank selected target_tm:76.00;probe_tm:75.70;freq:22.18;count:03;rules:0000;score:0570 CHR1:142000000-146500000 CACCTGTGAAAAGCCAACAGCAAGCAGGCAACTTAATGGTAAAGAATGCTTT 0 48633201 48633201 1 55 experimental 145792053 3391 55 1 chr1 145792053 145792104 hg17 + NC_000001.8 46932
CHR1500P069407199 3391_0165_0001 A2 rank selected target_tm:76.00;probe_tm:70.88;freq:53.37;count:01;rules:0000;score:0611 CHR15:69000000-76500000 CAACCTTTTGTATTTATATATAGTGACCTGCTTGCAAAAATAAATGTGTTAACAATG 0 48525822 48525822 1 165 experimental 69407199 3391 165 1 chr15 69407199 69407255 hg17 + NC_000015.8 149284
CHR1500P030185896 3391_0167_0001 A2 rank selected target_tm:76.00;probe_tm:75.94;freq:38.28;count:01;rules:0000;score:0736 CHR15:25500000-31500000 CCTTGACCTCCAGTTTGTTGGTTTTGTTATTCTTTCTCCCAGTTGCCCTT 0 48512991 48512991 1 167 experimental 30185896 3391 167 1 chr15 30185896 30185945 hg17 + NC_000015.8 123622
CHR1500P028946898 3391_0169_0001 A2 rank selected target_tm:76.00;probe_tm:75.60;freq:28.33;count:01;rules:0000;score:0751 CHR15:25500000-31500000 GTCAAATCTTAGATCAGAGCCAGTTTACAGACCTATACTCCCTTGAATGAAGG 0 48503778 48503778 1 169 experimental 28946898 3391 169 1 chr15 28946898 28946950 hg17 + NC_000015.8 105196

Total number of rows: 165694

Table truncated, full table size 50823 Kbytes.




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