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Status
Public on Dec 12, 2008
Title
WiCell HG18 WG CGH 385K v2
Technology type
in situ oligonucleotide
Distribution
custom-commercial
Organism
Homo sapiens Manufacturer
NimbleGen
Manufacture protocol
Single array CGH design for whole human genome (hg18; NCBI Build 36). Probes selected from hg18_tiling database using 6000 bp interval and 250 bp window. Isothermal probes with min length of 50 bp and max length of 75 bp and target Tm of 76C. Cycle restricted to 148 synthesis cycles. Interval spacing: 6253 bp (mean); 6270 bp (median). 3553 random probes added. Includes pseudo-autosomal regions from chrX and chrY, though the counts for those regions have been changed to 1 to allow standard analysis.
Contributor(s)
Montgomery K , Patterson M Submission date
Dec 01, 2008
Last update date
Dec 04, 2009
Contact name
Melodee Patterson
E-mail(s)
[email protected] Phone
608-219-3274
Organization name
WiCell
Street address
510 Charmany Dr Ste 58 & 59
City
Madison
State/province
WI
ZIP/Postal code
53719
Country
USA
Samples (192)
GSM325343 , GSM325344 , GSM325345 , GSM325346 , GSM325347 , GSM325348
GSM325349 ,
GSM325350 ,
GSM325460 ,
GSM325462 ,
GSM325465 ,
GSM325468 ,
GSM325474 ,
GSM325493 ,
GSM325494 ,
GSM325495 ,
GSM325496 ,
GSM325497 ,
GSM325498 ,
GSM325499 ,
GSM325500 ,
GSM325501 ,
GSM325502 ,
GSM325503 ,
GSM325504 ,
GSM346758 ,
GSM347606 ,
GSM402425 ,
GSM402434 ,
GSM402435 ,
GSM402436 ,
GSM402458 ,
GSM402479 ,
GSM402480 ,
GSM402481 ,
GSM402498 ,
GSM402807 ,
GSM435468 ,
GSM435469 ,
GSM435470 ,
GSM456554 ,
GSM456555 ,
GSM456566 ,
GSM456567 ,
GSM456575 ,
GSM456610 ,
GSM456611 ,
GSM456612 ,
GSM456613 ,
GSM456614 ,
GSM456683 ,
GSM456684 ,
GSM456685 ,
GSM456686 ,
GSM456687 ,
GSM456688 ,
GSM456689 ,
GSM456690 ,
GSM456691 ,
GSM456692 ,
GSM456693 ,
GSM456694 ,
GSM456695 ,
GSM456696 ,
GSM456697 ,
GSM456698 ,
GSM456699 ,
GSM456755 ,
GSM456756 ,
GSM456757 ,
GSM456758 ,
GSM456759 ,
GSM456760 ,
GSM456761 ,
GSM456762 ,
GSM456763 ,
GSM456764 ,
GSM456765 ,
GSM456766 ,
GSM456767 ,
GSM456768 ,
GSM476496 ,
GSM476549 ,
GSM476550 ,
GSM476551 ,
GSM476552 ,
GSM476553 ,
GSM476554 ,
GSM476558 ,
GSM476559 ,
GSM476568 ,
GSM476569 ,
GSM476570 ,
GSM476571 ,
GSM476572 ,
GSM476573 ,
GSM476574 ,
GSM476575 ,
GSM476576 ,
GSM476582 ,
GSM499986 ,
GSM499987 ,
GSM499988 ,
GSM499989 ,
GSM499990 ,
GSM499991 ,
GSM500607 ,
GSM500865 ,
GSM500866 ,
GSM500867 ,
GSM500868 ,
GSM500869 ,
GSM500870 ,
GSM500871 ,
GSM500872 ,
GSM521248 ,
GSM521249 ,
GSM521250 ,
GSM521251 ,
GSM521252 ,
GSM521254 ,
GSM521255 ,
GSM521260 ,
GSM521261 ,
GSM521262 ,
GSM521263 ,
GSM521264 ,
GSM521265 ,
GSM521266 ,
GSM521267 ,
GSM522401 ,
GSM522402 ,
GSM673709 ,
GSM673710 ,
GSM673711 ,
GSM673712 ,
GSM673713 ,
GSM673714 ,
GSM673715 ,
GSM673716 ,
GSM673717 ,
GSM673718 ,
GSM673719 ,
GSM673720 ,
GSM673721 ,
GSM673722 ,
GSM673723 ,
GSM673724 ,
GSM673725 ,
GSM673726 ,
GSM673727 ,
GSM673728 ,
GSM673729 ,
GSM673730 ,
GSM673731 ,
GSM673732 ,
GSM673733 ,
GSM673734 ,
GSM673735 ,
GSM673736 ,
GSM673737 ,
GSM673738 ,
GSM673739 ,
GSM673740 ,
GSM673741 ,
GSM673742 ,
GSM673743 ,
GSM673744 ,
GSM673745 ,
GSM673746 ,
GSM673747 ,
GSM673748 ,
GSM673749 ,
GSM673750 ,
GSM673751 ,
GSM673752 ,
GSM673753 ,
GSM673754 ,
GSM673755 ,
GSM673756 ,
GSM673757 ,
GSM673758 ,
GSM673759 ,
GSM673760 ,
GSM673761 ,
GSM673762 ,
GSM673763 ,
GSM673764 ,
GSM673765 ,
GSM673766 ,
GSM673767 ,
GSM673768 Series (4)
GSE9313 Comparative genomic hybridization of human embryonic stem cell lines deposited in the National Stem Cell Bank
GSE17463 Somatic CNV profile of congenital ectopic thyroids
GSE27251 Prospective comparison of genome-wide aCGH platforms for the detection of CNVs in MR (NimbleGen)
GSE27367 Prospective comparison of genome-wide aCGH platforms for the detection of CNVs in MR
Data table header descriptions ID CHROMOSOME Human Chromosome
START The start position of the probes
END The end position of the probes
SEQUENCE The sequence of the probes
DESCRIPTION Characteristics of the probes
GB_RANGE Accession.version[start..end]
SPOT_ID
Data table ID CHROMOSOME START END SEQUENCE DESCRIPTION GB_RANGE SPOT_ID CHR12FS113318039
chr12
113318039
113318098
CAGGCTGCACGTTCTTGCTGGAGCCAGGGCTAGTCACAGATGAGCATCCTCACCAATAAA
target_tm:78.00;probe_tm:81.80;freq:13.02;count:01;rules:0000;score:0739
NC_000012.10[113318039..113318098]
CHR09FS111164956
chr9
111164956
111165015
GTAATTCATAGACCTAGAGACACTCATTGTGAATATATTGGTGTAGTCTGAGCCTTTTTT
target_tm:78.00;probe_tm:74.20;freq:11.00;count:01;rules:-300;score:0451
NC_000009.10[111164956..111165015]
CHR07FS015891224
chr7
15891224
15891283
TCTAATCATATGGAGCTCTGGCTTCTAGGATTTACCTACCGGAGTGAGGAACATCAAGAA
target_tm:78.00;probe_tm:77.70;freq: 7.43;count:01;rules:0000;score:0849
NC_000007.12[15891224..15891283]
CHR14FS024204148
chr14
24204148
24204207
ACCAGGATTGAGTTCTAGGCAGTATGGCTGTAGAGTGTGCAGACTTAACTACTACACAGA
target_tm:78.00;probe_tm:78.30;freq: 6.98;count:01;rules:0000;score:0854
NC_000014.7[24204148..24204207]
CHR19FS016245173
chr19
16245173
16245232
GCTGGGACTTGTGATGTTTGGTAGCATGAGCCAATTTGGAGCTATTTGTGGAGTGGATTT
target_tm:78.00;probe_tm:78.30;freq:12.72;count:01;rules:0000;score:0811
NC_000019.8[16245173..16245232]
CHR04FS148069331
chr4
148069331
148069390
ACCACTTCTCATCATTTCTACTACATCTGCCCTGATCAAGCCACCAATGTCTTTTGCTTG
target_tm:78.00;probe_tm:77.70;freq:18.09;count:01;rules:0000;score:0785
NC_000004.10[148069331..148069390]
CHR07FS035842297
chr7
35842297
35842356
AATGAAGACATGTAGATCTCTATTCAGTGAAGTTGTCTAACCTGTTTGGCTTGGAACTTG
target_tm:78.00;probe_tm:75.60;freq: 9.22;count:01;rules:0000;score:0792
NC_000007.12[35842297..35842356]
CHR05FS110712350
chr5
110712350
110712409
GATACGTGAGCTTTCTCATAATGAGAAGTCTGTGGAGAAACATAATTCAACATTGAGACC
target_tm:78.00;probe_tm:75.60;freq:18.43;count:01;rules:0000;score:0742
NC_000005.8[110712350..110712409]
CHR09FS091621364
chr9
91621364
91621423
CAGACAGAAATAGCCAATCTCTTTGCCTCAGCACCAAGAAATGGCAATGACCATCCTTTT
target_tm:78.00;probe_tm:77.70;freq:14.87;count:01;rules:0000;score:0799
NC_000009.10[91621364..91621423]
CHR12FS024719708
chr12
24719708
24719767
CCTGCTTGACTGCTTTGAGCTGAGACATAAGTCTCATAACCTTTGGACTCGAACTAAAAT
target_tm:78.00;probe_tm:77.00;freq:12.63;count:01;rules:0000;score:0797
NC_000012.10[24719708..24719767]
CHR14FS104803958
chr14
104803958
104804017
TCAAGCTGATAAAGAGTCCTATACACAAAAGTCTACCGCAGATACATAGAGCGAAGGGCA
target_tm:78.00;probe_tm:77.70;freq: 4.59;count:01;rules:0000;score:0884
NC_000014.7[104803958..104804017]
CHR11FS093337827
chr11
93337827
93337886
ACTGTTTGATGGTTCTCCTCAAGAGTGCACAGTTCCTCAGGATCAAAAATAGTGCAAACC
target_tm:78.00;probe_tm:77.70;freq:11.11;count:01;rules:0000;score:0820
NC_000011.8[93337827..93337886]
CHR09FS014424370
chr9
14424370
14424429
CTGCATTGAATAACATATGAGTCTGAGCCTCTTTTGTGCATCTTTTCACCACTAGCCTTA
target_tm:78.00;probe_tm:76.30;freq:14.09;count:01;rules:0000;score:0775
NC_000009.10[14424370..14424429]
CHR01FS086304314
chr1
86304314
86304373
CTGGTAGAAAAGTACAACAAAAGATTCACAAACTAATGCTGCTAAGATAAGCTGCTTTGA
target_tm:78.00;probe_tm:74.20;freq:16.09;count:01;rules:0000;score:0724
NC_000001.9[86304314..86304373]
CHR04FS143561059
chr4
143561059
143561118
CTGCAGAACATGCTAAATCTTGGTCACCAGAAAACCACTACCCACCCGACAGATGTGTAA
target_tm:78.00;probe_tm:79.00;freq: 7.28;count:01;rules:0000;score:0837
NC_000004.10[143561059..143561118]
CHR01FS148982069
chr1
148982069
148982128
GAGAGCTGCCAAATTGGAAGTTGGACAAGGAAGTGTGTCACTTAGGAGGTCATTTTCAGA
target_tm:78.00;probe_tm:78.30;freq: 8.87;count:01;rules:0000;score:0837
NC_000001.9[148982069..148982128]
CHR09FS106364761
chr9
106364761
106364820
TCATATGATATAATTGAGTCTGATGACATTATCCCTGGAGTTTTAGAAAGTTTTTAATTC
target_tm:78.00;probe_tm:71.50;freq:22.61;count:01;rules:0000;score:0645
NC_000009.10[106364761..106364820]
CHR17FS045538364
chr17
45538364
45538423
ACATCCAGTACTTCCTGGACCGCTTCTACCTCAGCCGCATCTCCATCCGCATGCTCATCA
target_tm:78.00;probe_tm:82.40;freq: 4.76;count:01;rules:0000;score:0799
NC_000017.9[45538364..45538423]
CHR14FS025840204
chr14
25840204
25840263
GAAGACACCCAGTGTGTTGTGGTATGTAAAAGACCCTTCCACCACATGAAGATGCAGCAA
target_tm:78.00;probe_tm:79.00;freq:16.54;count:01;rules:0000;score:0778
NC_000014.7[25840204..25840263]
CHR11FS079977148
chr11
79977148
79977207
TAACAGTTTACAGAGACTTTAATATAGGAATCTGGCCTCTTTTGTGGGATATGGCACACA
target_tm:78.00;probe_tm:75.60;freq:12.30;count:02;rules:0000;score:0671
NC_000011.8[79977148..79977207]
390782 79176 Kbytes .Supplementary file Size Download File type/resource GPL7717_080101_HG18_WG_CGH_v2_X1.ndf.gz
22.2 Mb
(ftp) (http) NDF
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