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Platform GPL5646 Query DataSets for GPL5646
Status Public on May 06, 2008
Title NKI/VanSteensel_HSA_390k_2/8_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 5095
Support glass
 
Description Non-repetitive part of Human chromosomes HSA2, HSA14, HSA21. Probe spacing approximately 750bp. Based on Human genome sequence NCBI 36. Platform 2 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 24, 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) GSM220159
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 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
5095_0001_0001 AAGTTGCACATGTGTCTGTATGTCCTTTTACTTTTGTGCCCATGTCTGTTACCGTTTCAC HUMCHR02_0000296240 2 145446804 145446864 NC_000002.10 + 1 1
5095_0023_0001 CCTTCCCCCCAGCCTAGACCAATTAAATCAGAATTTCCGGAAGTGGGAGGACTTGGGCAC HUMCHR02_0000415854 2 204297409 204297469 NC_000002.10 + 23 1
5095_0025_0001 GGTCCTCTTGCTCCATCAATTCCTGAAAATCCAGGGGGACCTGGAGAACCTGGCTCACCC HUMCHR02_0000465067 2 227623032 227623092 NC_000002.10 + 25 1
5095_0027_0001 CTATTTGGAAGCATGTCCCCAGGCTGGAGATTAAATTTGGTATACGTGTCAGCTCTCCTT HUMCHR02_0000322772 2 158779611 158779671 NC_000002.10 + 27 1
5095_0029_0001 GGTGACAGTCACCCAGGATAACGCACTATACACTCATTGGTGCAGTGGGCTGGCAGTGCC HUMCHR02_0000114963 2 54457251 54457311 NC_000002.10 + 29 1
5095_0031_0001 GTCACAAAGTGAGCACATGCTTTTAGAGAAATGACATTGATAGACTTGCCTGATGCAGGG HUMCHR02_0000251225 2 123302992 123303052 NC_000002.10 + 31 1
5095_0033_0001 AGTCTGGAACAAGACAAGAAAGTCAAAAGCAGTAAAAAGGCATTGGAAAGGAAGCAAAAC HUMCHR14_0000053269 14 43739476 43739536 NC_000014.7 + 33 1
5095_0035_0001 GCCCAGCCCTCGAACCTAGAGCTCCATAGCCAAAGTGTTTCTCTTTGCTTGCAACCACAG HUMCHR02_0000193790 2 95744914 95744974 NC_000002.10 + 35 1
5095_0037_0001 GTCTAGGATATTCTGTTTTGTTCATTCCCTAAGCATTGTCCTGTTAGCCCATCTCCCCAG HUMCHR02_0000168069 2 79360453 79360513 NC_000002.10 + 37 1
5095_0039_0001 TACTAAAGTCAGGTAGAGAGAAAAGGCACCTATATAGGGAACCCTGTCTGCCTGACAGTG HUMCHR02_0000317476 2 156151019 156151079 NC_000002.10 + 39 1
5095_0041_0001 GCTTCCAGTTTGGGACTGGGCACAAAATAAAAATGACTTCTTGCCTGCTGGGAAGCTGGG HUMCHR14_0000082464 14 57545582 57545642 NC_000014.7 + 41 1
5095_0043_0001 CAGAGGAGTCCCACGTGTCACAGGAGTCATTCTGCCTTAGCAGCCCTGCTGTGCTTCGTC HUMCHR02_0000479027 2 233811322 233811382 NC_000002.10 + 43 1
5095_0045_0001 TTCTAAAGTCTATACTACAACTTCATTTCCAAAGTTCTAACAGTGAGAATGGGTAACTGC HUMCHR02_0000357566 2 175482966 175483026 NC_000002.10 + 45 1
5095_0047_0001 GGCCCAATCAATGCTTTGTATTCTCAAAAACTTTCATGTCAACACATTTTTCAGAGCCTC HUMCHR02_0000231146 2 113481602 113481662 NC_000002.10 + 47 1
5095_0049_0001 GCAACACTCTTTTGGGGACTTCACATATACAGTATGGTCAAAGGCCACACCGTTTTTAGG HUMCHR14_0000131669 14 79348794 79348854 NC_000014.7 + 49 1
5095_0051_0001 GGTTACCCACCATCTTCTTCCTCTCCAGTCTAGCTTTGGAAGGTTGAAAGTAGTTGAGAC HUMCHR02_0000088345 2 41930303 41930363 NC_000002.10 + 51 1
5095_0055_0001 ATGACATTTGGTGTGAAGAGATTTGTCAGAGAGAGTCCATGTATTTCTTACGACATACAG HUMCHR02_0000381093 2 187417945 187418005 NC_000002.10 + 55 1
5095_0197_0001 GACCTCTTCTCTGTGTGCTCACTGATATAGTTAATACAGCAGTTGTTCAAAAGAGGTAGG HUMCHR02_0000376776 2 185106443 185106503 NC_000002.10 + 197 1
5095_0201_0001 GGAAAAGCATTTCTGCAAACCCAGGTAGTACGGACAAACCGAAGGGAGTTTTATTCTGTC HUMCHR02_0000364836 2 178987534 178987594 NC_000002.10 + 201 1
5095_0203_0001 CAGGTTAGTGGCAAAGTTAATTCAATGGGAGCAAGTCAAAGGAGAAGTAAAGAGCATGGG HUMCHR02_0000130785 2 61917843 61917903 NC_000002.10 + 203 1

Total number of rows: 368121

Table truncated, full table size 50257 Kbytes.




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