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Platform GPL5669 Query DataSets for GPL5669
Status Public on May 06, 2008
Title NKI/VanSteensel_HSA_390k_8/8_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 5101
Support glass
 
Description Non-repetitive part of Human chromosomes HSA3, HSA9, HSAY. Probe spacing approximately 750bp. Based on Human genome sequence NCBI 36. Platform 8 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) GSM220165
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
5101_0001_0001 TAGCAGGAATGTCATTTCGTGACCTCAAGAAGGATAGCGCCACAAGTATATTTGGGCAGC HUMCHR21_0000005233 21 15514082 15514142 NC_000021.7 + 1 1
5101_0023_0001 TAATGCCATTCAACTTGCTGGCACTTAGATTGTCTGAGGAACCTTTCCAAATATGGTGTC HUMCHR03_0000129659 3 59809468 59809528 NC_000003.10 + 23 1
5101_0025_0001 GAGGGGGGATAAGTAGCTTCACTTAATACAGTCCTCTTCCCCCCACCCTTGAGACAGCAC HUMCHR09_0000212288 9 119853773 119853833 NC_000009.10 + 25 1
5101_0027_0001 GATTAGGCCAAGAACGTCTTTGAGCCATTTTCTGGTCTCCCAAGTCCCTTACCCTCTTGG HUMCHR03_0000078604 3 37546091 37546151 NC_000003.10 + 27 1
5101_0029_0001 GGTAGCACTGGTCATAGATTATAAAAAAAGGATGCTATTTGAATATGAGCAGATGTAGGC HUMCHR03_0000052751 3 25202991 25203051 NC_000003.10 + 29 1
5101_0031_0001 GCATGACTGGAGCTAAAGCTGTTGTCAGTTTTTCCACTTGACAGTCACTGTCTTCTCATG HUMCHR09_0000207119 9 117403810 117403870 NC_000009.10 + 31 1
5101_0033_0001 GACTTCATAAGGAGAGTTCCTTTCTGCCCTCTTTGAATTCAGCTTCCTTCTGTCCTTCAC HUMCHR03_0000117604 3 54421025 54421085 NC_000003.10 + 33 1
5101_0035_0001 ATTGGTTTAAGAACACATGCCATGAGTCAAGAAACTTAGGTGGTGCTTACCCATACAAAC HUMCHR09_0000142267 9 87599731 87599791 NC_000009.10 + 35 1
5101_0037_0001 TTGCTTCCATAGGAACCTAAAGCACCGGGACTGTCTCAGTCTAATGGCCTCTCTGTTAGG HUMCHR03_0000342356 3 169771489 169771549 NC_000003.10 + 37 1
5101_0039_0001 GCTGGAAGGGACATTGAAGCTCACTAAGAGGGACCCAAGTCCTTTCAGAGGGTACTGCCC HUMCHR03_0000243909 3 121873893 121873953 NC_000003.10 + 39 1
5101_0041_0001 CAACACCTAAACATAGAAAGATTTCTGTAATTGTGAATGTGGTTCAGTGGCCACAAGGGC HUMCHR09_0000041284 9 19866157 19866217 NC_000009.10 + 41 1
5101_0043_0001 CCAAAACTGACTCCAGACAAGGCTCTCCACCCCTCCCCACCCTGTGTATGTGGGTGTAGG HUMCHR03_0000382750 3 188551088 188551148 NC_000003.10 + 43 1
5101_0045_0001 CTTGGAGACGTGTCAGAAGAAGAGCTTACCAACCTCATATGTTAGCCGTATTGCACAGCA HUMCHR03_0000061587 3 29553081 29553141 NC_000003.10 + 45 1
5101_0047_0001 CCCTGCCTTAATTTATGTGAACAAATTACCAAACTACTGATAGTAATAAACAATGCCAGC HUMCHR03_0000053710 3 25674834 25674894 NC_000003.10 + 47 1
5101_0051_0001 GAAAAATACCTCTACCCTCAATCCCCATCCAGATTTCTCCTCTTAAAAGCCTATAGCTAG HUMCHR03_0000331918 3 164077612 164077672 NC_000003.10 + 51 1
5101_0055_0001 GTGGAAGCTCAGTCTCCAGGAATATTTGAGGGTTGCGGGTGGTGAGGACGGGAGGAGAGG HUMCHR03_0000165989 3 77572672 77572732 NC_000003.10 + 55 1
5101_0197_0001 AGAGAAAATATTGGTCTGTCCCACTCTCCCTCTGAGAAAAAAGAATATCTTTGCAGGTTG HUMCHR03_0000222765 3 111536228 111536288 NC_000003.10 + 197 1
5101_0199_0001 CAGCTGGGTGGCCTAAGAAGGCCTCATTCACATGTGTAGCATTTGGAAGCTAGCTGTTGG HUMCHR03_0000187016 3 88944506 88944566 NC_000003.10 + 199 1
5101_0201_0001 AGAACTGAGACAAACTGAGGTGGAACAGCTCCAGAGTCCCTGTTCTTAACTAGCCTAGGC HUMCHR09_0000017172 9 7891536 7891596 NC_000009.10 + 201 1
5101_0203_0001 CTTTGCTGAGCCATACCAAATATTGACAGCATTGGTAACACAAGAAAGGGTTTAGCAGTC HUMCHR03_0000192207 3 96071883 96071943 NC_000003.10 + 203 1

Total number of rows: 366434

Table truncated, full table size 50011 Kbytes.




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