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Platform GPL6345 Query DataSets for GPL6345
Status Public on Feb 17, 2008
Title University of Washington Human original custom 2-plex 166K array, 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 (5) GSM254775, GSM257183, GSM257184, GSM257185, GSM257186
Series (1)
GSE10189 Recurrent 15q13 microdeletions

Data table header descriptions
ID
PROBE_DESIGN_ID
CONTAINER
DESIGN_NOTE original 2-plex design for early hybs, uses burst files
SELECTION_CRITERIA
SEQ_ID
SEQUENCE
MISMATCH
MATCH_INDEX
FEATURE_ID
ROW_NUM
COL_NUM
PROBE_CLASS
POSITION
DESIGN_ID
X
Y
chrm
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
CHR0100P143427808 5245_0025_0003 FORWARD rank selected target_tm:76.00;probe_tm:70.93;freq:43.85;count:04;rules:0000;score:0326 CHR1:142000000-146500000 CCTCCTTAAGTTATGTTTACCATTATTAAAATTAAGTGACATTCACTTGGAAGA 0 68440302 68440302 3 25 experimental 143427808 5245 25 3 chr1 143427808 143427861 hg17 + NC_000001.8 138300
CHR1500P070762695 5245_0027_0003 FORWARD rank selected target_tm:76.00;probe_tm:75.91;freq:15.23;count:01;rules:0000;score:0802 CHR15:69000000-76500000 GTAACTGAAGAGAACAGGGAGTGACATGTCAGATTGAGAATCAGTCTTTTGAAAGTG 0 68357177 68357177 3 27 experimental 70762695 5245 27 3 chr15 70762695 70762751 hg17 + NC_000015.8 55175
CHR0100P146043061 5245_0029_0003 FORWARD rank selected target_tm:76.00;probe_tm:76.02;freq:15.26;count:03;rules:0000;score:0603 CHR1:142000000-146500000 AAAGAGAGCCTTCAAAACCTCTTACATTCCAGTAGAAAACTCTCTCTGCAAGTCCT 0 68456742 68456742 3 29 experimental 146043061 5245 29 3 chr1 146043061 146043116 hg17 + NC_000001.8 154740
CHR1500P027379296 5245_0031_0003 FORWARD rank selected target_tm:76.00;probe_tm:74.32;freq:20.82;count:01;rules:0000;score:0747 CHR15:25500000-31500000 AGAGCCTAGTATATAATAAAGCACACAAACATTAGCTGTTGATTAAATGGATGGGTAGG 0 68314433 68314433 3 31 experimental 27379296 5245 31 3 chr15 27379296 27379354 hg17 + NC_000015.8 12431
CHR1500P069617742 5245_0033_0003 FORWARD rank selected target_tm:76.00;probe_tm:75.43;freq: 9.81;count:01;rules:0000;score:0824 CHR15:69000000-76500000 TTCCTTTCCTTGATGATTTGAAGTGACTCATTGATTGCACACGAAATCCCTCTACATGTTTA 0 68349195 68349195 3 33 experimental 69617742 5245 33 3 chr15 69617742 69617803 hg17 + NC_000015.8 47193
CHR1700P040328984 5245_0035_0003 FORWARD rank selected target_tm:76.00;probe_tm:74.56;freq:21.98;count:01;rules:-400;score:0348 CHR17:40000000-42500000 ATTTGCCCCATTAGTGGTAACGTTAACTTTGATCACTTCATTAAGGTGATGTTTGC 0 68416230 68416230 3 35 experimental 40328984 5245 35 3 chr17 40328984 40329039 hg17 + NC_000017.9 114228
CHR0100P145872083 5245_0037_0003 FORWARD rank selected target_tm:76.00;probe_tm:75.39;freq:25.07;count:02;rules:0000;score:0655 CHR1:142000000-146500000 GGGTAAAATGTCCCTATTCTGGTAGATTGTTATCCCAATGTCATTTGTCCCAAGT 0 68455494 68455494 3 37 experimental 145872083 5245 37 3 chr1 145872083 145872137 hg17 + NC_000001.8 153492
CHR1500P075803160 5245_0039_0003 FORWARD rank selected target_tm:76.00;probe_tm:84.96;freq:20.83;count:01;rules:-800;score:-198 CHR15:69000000-76500000 TGACATGGGGATGGAACGACCCCAGCCCCAGCTGGGGGGCATCAGGGGAA 0 68393153 68393153 3 39 experimental 75803160 5245 39 3 chr15 75803160 75803209 hg17 + NC_000015.8 91151
CHR1500P075647294 5245_0041_0003 FORWARD rank selected target_tm:76.00;probe_tm:82.50;freq:15.31;count:01;rules:-400;score:0273 CHR15:69000000-76500000 TCCTGCAGCTGGAATTGAAACCACTGTGCTGGGGCTGACCACGGGCACTC 0 68391734 68391734 3 41 experimental 75647294 5245 41 3 chr15 75647294 75647343 hg17 + NC_000015.8 89732
CHR1500P071150672 5245_0043_0003 FORWARD rank selected target_tm:76.00;probe_tm:75.61;freq:23.67;count:01;rules:-400;score:0364 CHR15:69000000-76500000 TCATTACACATCTACTGAGAGAAAATTTGTGGTTCTGGGGCCTGGAAATCTGAATTTTGA 0 68360045 68360045 3 43 experimental 71150672 5245 43 3 chr15 71150672 71150731 hg17 + NC_000015.8 58043
CHR1500P027656744 5245_0045_0003 FORWARD rank selected target_tm:76.00;probe_tm:70.17;freq:61.65;count:01;rules:-300;score:0286 CHR15:25500000-31500000 AAAAAATCAAACAAATTCTACTTCTGGATAAATACCCAAATGAATTGAAAGCAG 0 68316447 68316447 3 45 experimental 27656744 5245 45 3 chr15 27656744 27656797 hg17 + NC_000015.8 14445
CHR0100P143094632 5245_0047_0003 FORWARD rank selected target_tm:76.00;probe_tm:75.29;freq: 7.62;count:01;rules:0000;score:0839 CHR1:142000000-146500000 AAGTCATTTTGGCTACTAAGTAGGTAAGAATGCAGCTAGGGAGACCATTAACGAAA 0 68438536 68438536 3 47 experimental 143094632 5245 47 3 chr1 143094632 143094687 hg17 + NC_000001.8 136534
CHR1500P027479108 5245_0049_0003 FORWARD rank selected target_tm:76.00;probe_tm:75.60;freq:30.46;count:01;rules:-400;score:0346 CHR15:25500000-31500000 TAGGGGCACCAACCTCCTGTGCAGTCAAAAATCTATGTATAACATTTTCACTC 0 68315180 68315180 3 49 experimental 27479108 5245 49 3 chr15 27479108 27479160 hg17 + NC_000015.8 13178
CHR1500P069036443 5245_0051_0003 FORWARD rank selected target_tm:76.00;probe_tm:67.14;freq:39.88;count:01;rules:-300;score:0257 CHR15:69000000-76500000 TTTTCTTCTATACATAAAAAAGTGCTTTGTATTTAATTAAATGAAGATACTGTT 0 68344960 68344960 3 51 experimental 69036443 5245 51 3 chr15 69036443 69036496 hg17 + NC_000015.8 42958
CHR0100P144686393 5245_0053_0003 FORWARD rank selected target_tm:76.00;probe_tm:71.54;freq:33.49;count:03;rules:0000;score:0458 CHR1:142000000-146500000 TATACATCATTTCACTTAAAATCTCAGTTTCCAAGATCCTATAAATGGCATTAAGTAAG 0 68448922 68448922 3 53 experimental 144686393 5245 53 3 chr1 144686393 144686451 hg17 + NC_000001.8 146920
CHR1500P030595685 5245_0055_0003 FORWARD rank selected target_tm:76.00;probe_tm:71.54;freq:14.60;count:04;rules:0000;score:0417 CHR15:25500000-31500000 GAAAGTTTTGTGAGTATTATTGGGATACATTATGAAAAGTGCTAGCACATTATAAGTAT 0 68337737 68337737 3 55 experimental 30595685 5245 55 3 chr15 30595685 30595743 hg17 + NC_000015.8 35735
CHR1500P030323710 5245_0165_0003 FORWARD rank selected target_tm:76.00;probe_tm:74.85;freq:14.85;count:02;rules:0000;score:0682 CHR15:25500000-31500000 TTTTATTGGCTCTCGAGCTCCAGTCAAGATGTTTTGAGAATGTAGCCATTTTCTTGTTATA 0 68335737 68335737 3 165 experimental 30323710 5245 165 3 chr15 30323710 30323770 hg17 + NC_000015.8 33735
CHR1500P028206926 5245_0167_0003 FORWARD rank selected target_tm:76.00;probe_tm:73.50;freq:36.43;count:03;rules:0000;score:0491 CHR15:25500000-31500000 TACACCATAACTTGTTTAAATTTTGTTGCTGTTGCAGAATTACAGCAGACATTACAGTTCA 0 68320236 68320236 3 167 experimental 28206926 5245 167 3 chr15 28206926 28206986 hg17 + NC_000015.8 18234
CHR0100P144477107 5245_0169_0003 FORWARD rank selected target_tm:76.00;probe_tm:75.49;freq:78.25;count:01;rules:0000;score:0675 CHR1:142000000-146500000 ACATACTCTGTGCAAGGACTGGGCATACAAAGATAAATGAAACACAAACTCTGC 0 68447495 68447495 3 169 experimental 144477107 5245 169 3 chr1 144477107 144477160 hg17 + NC_000001.8 145493
CHR1700P031567326 5245_0171_0003 FORWARD rank selected target_tm:76.00;probe_tm:79.22;freq:16.50;count:03;rules:0000;score:0533 CHR17:31500000-34000000 GCCCAGAGAGCTGGAATCTGCTTACTTGACGTTCCAGTTGAGGTTTCTCC 0 68399137 68399137 3 171 experimental 31567326 5245 171 3 chr17 31567326 31567375 hg17 + NC_000017.9 97135

Total number of rows: 165694

Table truncated, full table size 51581 Kbytes.




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Supplementary data files not provided
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