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Platform GPL5667 Query DataSets for GPL5667
Status Public on May 06, 2008
Title NKI/VanSteensel_HSA_390k_6/8_v070724
Technology type in situ oligonucleotide
Distribution custom-commercial
Organism Homo sapiens
Manufacturer nimblegen
Manufacture protocol Details on the manufacture protocol can be found on http://www.nimblegen.com/technology/index.html
Catalog number 5099
Support glass
 
Description Non-repetitive part of Human chromosomes HSA8, HSA16, HSAX. Probe spacing approximately 750bp. Based on Human genome sequence NCBI 36. Platform 6 of 8, covering the whole human genome. Includes 9731 probes common to all 8 arrays of this series, used for between array normalization.
 
Contributor(s) Pagie L, Guelen L, van Steensel B
Submission date Jul 25, 2007
Last update date Jun 05, 2012
Contact name Bas van Steensel
E-mail(s) b.v.steensel@nki.nl
Phone + 31 20 512 2040
Fax +31 20 669 1383
URL http://www.nki.nl/nkidep/vansteensel
Organization name Netherlands Cancer Institute
Department division of Molecular Biology
Lab van Steensel group
Street address Plesmanlaan 121
City Amsterdam
ZIP/Postal code 1066 CX
Country Netherlands
 
Samples (1) GSM220163
Series (2)
GSE8854 Domain organization of human chromosomes revealed by mapping of nuclear lamina interactions
GSE51334 DNA replication-timing boundaries separate stable chromosome domains with cell-type-specific functions

Data table header descriptions
ID
SEQUENCE nucleotide sequence of the oligo
SPOT_ID this array contains features with sequences corresponding to the human genome (NCBI 36) as well as different control spots
SPOT_CLASS this array contains empty spots and different classes of control spots from the manufacturer
CHROMOSOME human chromosome to which the oligo sequence maps
RANGE_START indicates the start position (relative to the RANGE_GB accession)
RANGE_END indicates the end position (relative to the RANGE_GB accession)
RANGE_GB GenBanck accession
RANGE_STRAND indicates the strand represented
X column number of feature on array
Y row number of feature on array

Data table
ID SEQUENCE SPOT_ID SPOT_CLASS CHROMOSOME RANGE_START RANGE_END RANGE_GB RANGE_STRAND X Y
5099_0001_0001 AAGCATCCCCATGGCTCAATCTCTACCCCTTCATCACCAAGGAAAAGCCAGCTCTAGTGG HUMCHR08_0000093671 8 43119626 43119686 NC_000008.9 + 1 1
5099_0023_0001 CAGCTTCTGGTTTCATTAATGTTTGCATGAATGTTGTGCATCAATCGATTTCAGCTCAGC HUMCHR0X_0000172529 X 83082581 83082641 NC_000023.9 + 23 1
5099_0025_0001 CCTTTTATTTCTTCTGATAACTGAGATTTTTGAAACCCTGTTTCTTTCTCTGGTATATGG HUMCHR16_0000153492 16 74947611 74947671 NC_000016.8 + 25 1
5099_0027_0001 CTGTGGTCATCTCTTTGTGCCTAGCTCCCCTCTATAAAATGAGGATAACAATAAAACCTG HUMCHR08_0000055262 8 26211058 26211118 NC_000008.9 + 27 1
5099_0031_0001 TGCCTTTTGTATTAAGTTGCTGTCCCTCAAATTCTCGTTAAATGTAAATATATTACTCGG HUMCHR0X_0000205427 X 99749474 99749534 NC_000023.9 + 31 1
5099_0033_0001 AGAAGAAATAAAGTAAAATAAGTAACCCTTACAGGGAAATGGCAATAATCTCACTTAGCC SPECCHR40000304125 4 78286014 78286074 NC_000004.10 + 33 1
5099_0035_0001 AGTTTCCAGGGATATGAAGTCACCTACAAGTCCTGCCTCGTTCCAGACAACAGGTTGGCC HUMCHR08_0000026699 8 12876409 12876469 NC_000008.9 + 35 1
5099_0037_0001 CAATATCCGACCAGCCGTGTTTCAGCCCTACCCTTACTCCCTGTCCTGTCTCCACCACGG HUMCHR0X_0000021104 X 9899576 9899636 NC_000023.9 + 37 1
5099_0039_0001 TCTGTGCCACGTCCTGAGGTCCTGAGCAGCACTTACTCATTTGCTTTCTCATGCACCCTC HUMCHR08_0000253829 8 124665510 124665570 NC_000008.9 + 39 1
5099_0041_0001 GCTCCGGAGGCTGCTGGGCTGTGGTTTGGGGTGAGGAGAGTGTGTTGTGCAACAGCGGCC HUMCHR08_0000083795 8 38909814 38909874 NC_000008.9 + 41 1
5099_0043_0001 GGAGTTTACCTAAAGAAATAGGACAATAATATGAAATAATTGGCTAAAATATTGGGGGCC HUMCHR0X_0000102259 X 47716709 47716769 NC_000023.9 + 43 1
5099_0045_0001 CTCTCTGCATCTCTGGCACTTTTTCAGGCTGTGGGTGTTTTGAGCAAAGACATTTACAGC HUMCHR08_0000051898 8 24711558 24711618 NC_000008.9 + 45 1
5099_0047_0001 CCCTCCAGTCATGGTCTCTGGCCGGCTCTCTTCTCCCCAGAGTGGTTCTTTTCCTGCCCC HUMCHR08_0000263444 8 129007518 129007578 NC_000008.9 + 47 1
5099_0049_0001 CCTACAGTAATACCTTAGGCGCTTGCCACTTCCCCTAAGTAGAACTGTTTCCTCTAGAAG HUMCHR16_0000165901 16 80548477 80548537 NC_000016.8 + 49 1
5099_0051_0001 TGTGCACGGATGGCTAGCAAGGGTCTCATTCCCCCAGGGTCAGCGGGGAGTCAGCTAGGC HUMCHR16_0000175501 16 84863041 84863101 NC_000016.8 + 51 1
5099_0053_0001 AAATGGGAGATTGCATAATATTTGAAGTCATTTTATATTAATGCATATGTGAGGCAAGGC HUMCHR08_0000227813 8 111669029 111669089 NC_000008.9 + 53 1
5099_0055_0001 TGTTGCATGTAAATCATACTACAATAGGCCGAGCATGAGAGCTCATGCCTGTAGTCCCAG HUMCHR16_0000035679 16 15014926 15014986 NC_000016.8 + 55 1
5099_0197_0001 GCATCAATTGTGCTTGATAAATACAATTTGATTTGAAAGCCAAGCTAGGGTTTTCTCTAC HUMCHR0X_0000062658 X 29290182 29290242 NC_000023.9 + 197 1
5099_0199_0001 CCTGGAGCCACTCCAGAAATTCTGATTTAGCTAGTGTGCTGTGGGACCCAGGAACCTGTC HUMCHR0X_0000091677 X 43218499 43218559 NC_000023.9 + 199 1
5099_0201_0001 CTCTCTAGTTGTGCAGAGAATCCACTGGAAGGGGAAAAACCAGTTAGGAGGCTATTGAGT HUMCHR0X_0000244370 X 118086204 118086264 NC_000023.9 + 201 1

Total number of rows: 380966

Table truncated, full table size 51611 Kbytes.




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