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Platform GPL5644 Query DataSets for GPL5644
Status Public on May 06, 2008
Title NKI/VanSteensel_HSA_390k_1/8_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 5094
Support glass
 
Description Non-repetitive part of Human chromosomes HSA1, HSA13, HSA22. Probe spacing approximately 750bp. Based on Human genome sequence NCBI 36. Platform 1 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) GSM220158
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
5094_0001_0001 CACCAACCCCTGTGCCCCTGTGTTTGGACCTGGCTGCAGCTGCTGCCCGTGGGGGAAGGG HUMCHR01_0000098055 1 41037037 41037097 NC_000001.9 + 1 1
5094_0023_0001 GTAACAGGAAACCCAGGCACACTCACCACACACTAGAACGAGGTTAGCCACAGAGGCAGG HUMCHR22_0000070704 22 44108842 44108902 NC_000022.9 + 23 1
5094_0025_0001 GCACCCTGGAGAGTCCATAGTTTGTTGTCTCTGGGGGCAGTTGGGGGTGGGAGCTGTGGG HUMCHR01_0000341119 1 175305210 175305270 NC_000001.9 + 25 1
5094_0027_0001 ACAAATCTGCTGCTATTCCAATCAAATTTTGGGCACAAAGTCACATCACAATGTCACTGC HUMCHR01_0000228548 1 102592630 102592690 NC_000001.9 + 27 1
5094_0029_0001 GGGAAACCACACTAGGATGTATTAGTCATCAGACGATTTGCAGGTGAGTTTCTTGTGGGC HUMCHR01_0000202432 1 90064987 90065047 NC_000001.9 + 29 1
5094_0031_0001 ACCCTTTGGTCCCAGTGGTGCTCCATGTCCCCTGCTTTGCCAAATCTCTCTGCAAGCCAG HUMCHR13_0000035136 13 34064322 34064382 NC_000013.9 + 31 1
5094_0033_0001 ACTCACCTACTTGCAGACTATCAAAATATATAAGAAAAAAAAACCTGACAGATTGAAGGG HUMCHR13_0000137823 13 85965265 85965325 NC_000013.9 + 33 1
5094_0035_0001 ACGCAGGCACCTCTGCTTCCTCCTTCCCTGCTAGGGCTCCCATCCATGGTGTCTCTCCCC HUMCHR22_0000027069 22 26191367 26191427 NC_000022.9 + 35 1
5094_0039_0001 TTGTGCCACTGCTGGACTCTATCTAGGGCTGCGACATTGTGTGCTGTGTGGAAACAGCTG HUMCHR01_0000081943 1 34381095 34381155 NC_000001.9 + 39 1
5094_0041_0001 ATACTTGGAACTTTTCTGGGTATGATATATGTGTCTGTGTTATATTAACAGAAATACTGG HUMCHR01_0000152087 1 64962903 64962963 NC_000001.9 + 41 1
5094_0043_0001 GAGTCATTTATTTCCTATGGGAACTCCTACTGATACAGAGCCCACTTACCACAATAGCAG HUMCHR13_0000014593 13 24554511 24554571 NC_000013.9 + 43 1
5094_0045_0001 TCCAACTACAGCACCATCTCTTAGTCCATTCACTTTAACAATTAACTCTTAAGTTTCCTG HUMCHR01_0000387871 1 198619258 198619318 NC_000001.9 + 45 1
5094_0047_0001 GGGTGTCCAACTTGCATTACCTACTAAAGACTTTCCTAGCCCTACTCCTGCTCTCTCTGC HUMCHR13_0000042741 13 37784077 37784137 NC_000013.9 + 47 1
5094_0049_0001 CCAGCTCAAACCTCCACCACTTCCCAGACAGTCTTCCATGATGACCCCAGCCCACACTGG HUMCHR01_0000318349 1 164574404 164574464 NC_000001.9 + 49 1
5094_0051_0001 ACCTCTGTCTCTCACATCGAAGCAATTATAATGCAGTGATGATTCTTTACAGTGACCCTC HUMCHR01_0000310382 1 160800865 160800925 NC_000001.9 + 51 1
5094_0055_0001 AGGATGCAGAACAGAACAGGGCAGAACCAAGGACCCAGTGAGGGTGGCTGGCGTCAGAGC HUMCHR22_0000063949 22 41170991 41171051 NC_000022.9 + 55 1
5094_0199_0001 GAGGCCTCACCTGTGAGCCTCAGGCACACCAGCCTTCCCACCTCCTGGGCCCCATTCACC HUMCHR22_0000070108 22 43845591 43845651 NC_000022.9 + 199 1
5094_0201_0001 GGCCTCTCTCTTCCTTTCTCATTCTCATCCTCCATCAAAACTTCCCTCCAAAACAAGGTC HUMCHR13_0000169676 13 101715479 101715539 NC_000013.9 + 201 1
5094_0203_0001 GATGTGAGTATTCTAAACATTACATGACATTTATAAAAGTCCTGATGGTCCTGATGTGAC HUMCHR01_0000072983 1 30812100 30812160 NC_000001.9 + 203 1
5094_0205_0001 CCAGCTCCACTTTTCATGGTTCATTTGAAATTTGGTCCCTCGACCCAGAAGTGATTGTAC HUMCHR13_0000058313 13 44980819 44980879 NC_000013.9 + 205 1

Total number of rows: 382420

Table truncated, full table size 51985 Kbytes.




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