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Platform GPL5666 Query DataSets for GPL5666
Status Public on May 06, 2008
Title NKI/VanSteensel_HSA_390k_5/8_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 5098
Support glass
 
Description Non-repetitive part of Human chromosomes HSA7, HSA17, HSA18, HSA19. Probe spacing approximately 750bp. Based on Human genome sequence NCBI 36. Platform 5 of 8, covering the whole human genome. Includes 9731 probes common to all 8 arrays of this series, used for between array normalization.
 
Web link http://www.nki.nl/nkidep/vansteensel
Contributor(s) Pagie L, Guelen L, van Steensel B
Submission date Jul 25, 2007
Last update date May 06, 2008
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) GSM220162
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 GenBank accession number
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
5098_0001_0001 CGGGCGGCATCCTGACTCCCGCCTTGCTCCTCAGACCCCTCCCCACACCCTGGCCCATTC HUMCHR17_0000175927 17 73405045 73405105 NC_000017.9 + 1 1
5098_0023_0001 GGGCTGACCCCATTGGTGGAGACTGTCATTTCCCAATAGAGTACCAGAGGTAACCGGGAG HUMCHR07_0000052167 7 24853284 24853344 NC_000007.12 + 23 1
5098_0025_0001 CTGAGTTCAGCAGAGCACTGCACTACGTTTTAGAAGCCATCTTCATGACTTTCTCTTCAG HUMCHR18_0000008520 18 3805627 3805687 NC_000018.8 + 25 1
5098_0027_0001 CCCTAATGAAAGAGTCTTTTCTCCTTTGTGCAGCAGGTCACAACTTTCCTAGGTTAACGC HUMCHR07_0000046575 7 22296985 22297045 NC_000007.12 + 27 1
5098_0029_0001 AGAGTTGGCCATATTTACCTCAGCCTGGGCGCTGGTCCTTTCTTCCGGCCCCTCCCCTCC HUMCHR17_0000142150 17 59126054 59126114 NC_000017.9 + 29 1
5098_0031_0001 TGTCACTGAATCCGCTCATAAAATATAAAAATTTGAGCCACTTGGCCATGAGAATACTCC HUMCHR17_0000132472 17 55160607 55160667 NC_000017.9 + 31 1
5098_0033_0001 TTGAGAGACTAAATATGCTCTTTTATCGCTTGTGATACAAGTTTTGCTTCTAAGGAGCTC HUMCHR07_0000246527 7 117519728 117519788 NC_000007.12 + 33 1
5098_0035_0001 CACACAATATCTTTCAATACATACGTAACTGAAGGATATTGAGTTGAGCTGGCTTTGAGG HUMCHR07_0000027530 7 12603209 12603269 NC_000007.12 + 35 1
5098_0037_0001 AAGCTGAAGGAACTCTTCCCAGTCCTTTGCCAACCGGACAACCCTTCTGTTCGGGTACTG HUMCHR17_0000094216 17 38924090 38924150 NC_000017.9 + 37 1
5098_0039_0001 CTCACCTAAAAGACCATTATGATGGTTTAGTTTAGGTTGGAACATCTTATGCTGTCATCG HUMCHR17_0000064317 17 26516559 26516619 NC_000017.9 + 39 1
5098_0041_0001 CAGATAGTGTATAACTGTCACGTTTAACTGACCACAGGTTGCCTCCAAGGGACATCACAC HUMCHR07_0000332225 7 157680241 157680301 NC_000007.12 + 41 1
5098_0043_0001 TCACCTGAATATTCTTACAGCAGCCAATGGAAATTTTCTCAATGTTGAGTATGTAAGTAG HUMCHR18_0000062669 18 30775897 30775957 NC_000018.8 + 43 1
5098_0045_0001 TGGCCATCACTTCTGATGATAACACTCATGGCGACATCTAAGTGGCGCCATGAGAGCATC RND_SPIKE0000000344 oligo_spike_2 1 61 + 45 1
5098_0047_0001 CCGCACATCCTACTGCAATTTGTTATCACAGTCCAAGGTGGCTAAGACACCATGGAAAAC HUMCHR07_0000098773 7 46822826 46822886 NC_000007.12 + 47 1
5098_0049_0001 GCTTCCCACCAACATGCTCTATAAGGAAGTGGTGGAAAGCACTGCCCCCGCTCTGCTCTC HUMCHR18_0000134025 18 65837529 65837589 NC_000018.8 + 49 1
5098_0051_0001 GCCACCCTCCCCTGGAGCTAGGGTCAGCGCCCACTGACCTCTGACCCAAGTGTAGCCCTC HUMCHR17_0000056168 17 23312224 23312284 NC_000017.9 + 51 1
5098_0053_0001 GGCGTGCACCCTGTCATTTGCGCATCCCCTCTAAGTGGCCTGGGTCTTGCTCCTCTCTGC HUMCHR17_0000108763 17 44651403 44651463 NC_000017.9 + 53 1
5098_0055_0001 GCTCTATTGCCTGGTGTTATGTAACTGTACCTGTGACATCACAATTGCACCCTCTGACAC HUMCHR19_0000129133 19 57685280 57685340 NC_000019.8 + 55 1
5098_0197_0001 GGAACAGAACTCTCTGCCCCTCCCTAGGGCTCTTCCCACTGTATCTGGCAGCTTCTAGTC HUMCHR07_0000071195 7 33774167 33774227 NC_000007.12 + 197 1
5098_0199_0001 CCCAACGCTGAACCTGTCTTTCTCCTGCTCAGAACCTTTGTGGCTCCCTGGTGTTCCCAG HUMCHR19_0000096449 19 45464908 45464968 NC_000019.8 + 199 1

Total number of rows: 385117

Table truncated, full table size 52356 Kbytes.




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