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Platform GPL5649 Query DataSets for GPL5649
Status Public on May 06, 2008
Title NKI/VanSteensel_HSA_390k_4/8_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 5097
Support glass
 
Description Non-repetitive part of Human chromosomes HSA4, HSA5. Probe spacing approximately 750bp. Based on Human genome sequence NCBI 36. Platform 4 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) GSM220161
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
5097_0215_0031 AGGTAGCATTTCCAATCAGTGAGAAAAGATAGGTTATTCAATTTGTGTTGGGACTAGTGG HUMCHR05_0000116741 5 60738806 60738866 NC_000005.8 + 215 31
5097_0217_0031 GCAATGGCCGGGCAGCCAGGGACACTGTGGAGTCCTTAGGTAGCCAGGTCAGGACCTGGG HUMCHR04_0000364858 4 184750877 184750937 NC_000004.10 + 217 31
5097_0219_0031 GCTGGAGAAGAAAGCAGCAAGCTCACCACCCCACCCCCCCAAGATTCCCACTCTCCCCTG HUMCHR04_0000052741 4 25596023 25596083 NC_000004.10 + 219 31
5097_0221_0031 GACTCTTCTCTGAAGTACCAGTGGAAAAAATTCTTCTTACTGACGTGAGGGGAATCTCCC HUMCHR05_0000132388 5 68304817 68304877 NC_000005.8 + 221 31
5097_0223_0031 GCTCCCACAGGGCTAGAATTCACAGTGACAGCTAAGTGCCTTGCCCTGTATCCCCTCCTC HUMCHR05_0000011377 5 6005403 6005463 NC_000005.8 + 223 31
5097_0225_0031 TGAGGAAGTCCAAGGTGGAAATAATGAACTCCAGGATAAAGCGCTGTCACGAGGCATGCC HUMCHR04_0000286161 4 145483754 145483814 NC_000004.10 + 225 31
5097_0227_0031 TTTAAGCAGGGCAGTTGTGCCAGGCTCTGAGAGAGGGGGATTCTAATAATCCTGCCCTCC HUMCHR05_0000215146 5 109238654 109238714 NC_000005.8 + 227 31
5097_0229_0031 GGGTTCCATCAGAAACTCATTAAGTAACTCATGGAGCCAGGATTCAAGCCTGCCTCGCTA HUMCHR04_0000034177 4 16653737 16653797 NC_000004.10 + 229 31
5097_0231_0031 ACAAATGGGATTTGGGGAGATGACTGGGAGGAGTCGCTAGCAGCCAACCTTTGTAGACCC HUMCHR05_0000324175 5 160279037 160279097 NC_000005.8 + 231 31
5097_0233_0031 GTCTGGCAGCTATAGTGTTCATCTTGTGGACAAGATGCCTAGCAGAAGCTCACAACATAA HUMCHR04_0000352365 4 178514678 178514738 NC_000004.10 + 233 31
5097_0235_0031 GGGCATGAGACAGGGACAGCGAGGTGCTGGGCAGGGAAAGGCTGTCAGGTGGGACCCTGG HUMCHR04_0000013141 4 6409669 6409729 NC_000004.10 + 235 31
5097_0237_0031 GCCTTCCCTCCTGTTGGGCAGCACCCTGATGGAAGCTCAGGCTTGCACAGCCCAGGGCCG HUMCHR04_0000016059 4 7808129 7808189 NC_000004.10 + 237 31
5097_0239_0031 AGGTCTACAAATAATTCCATTTGCGTTGTGGATTCCAACCAAAAGTAAACTAACCCTTGC HUMCHR05_0000255161 5 128967080 128967140 NC_000005.8 + 239 31
5097_0241_0031 TCTGTGCACACTCAACTTTATGCAGCCAACTTTTATGGCTAGGAAGGGCACGCAATTCAT SPECCHR40000304098 4 78279631 78279691 NC_000004.10 + 241 31
5097_0243_0031 GCATGTGCTAGCTAATTCCCATAGTTATTTCATATTAATAGATTCCCTAGGATTCGCTAC HUMCHR05_0000333168 5 164876591 164876651 NC_000005.8 + 243 31
5097_0245_0031 TTGGGTTCTGACAGAGCATGGAGGAATATTGTGCACCAGACATTAATCAGGAAATTATGC HUMCHR05_0000332179 5 164358868 164358928 NC_000005.8 + 245 31
5097_0247_0031 AGAAGCTCAGTGAATCCTATGGGAAAAGCTCTCTGGAGAACTACTGAGTTGCAAATTCAC HUMCHR04_0000262402 4 133343729 133343789 NC_000004.10 + 247 31
5097_0249_0031 GAAGAAGATGCACTAGCCTGGAGTCCATATACGGAGAAGCCTAGTAGGTATAAAACACTC HUMCHR05_0000118321 5 61511967 61512027 NC_000005.8 + 249 31
5097_0253_0031 GAAGGAGGCACCTTCTTCACAGAGTGGCAAGATGGAGTGACTGCAGGCAGGGGAAACACC HUMCHR04_0000059842 4 29133526 29133586 NC_000004.10 + 253 31
5097_0255_0031 AGGAGAAAACAGGAGAAGCACAGAAGTGACAGACAGGAACCTATTGCACATGAGAATGAC HUMCHR04_0000374098 4 188981973 188982033 NC_000004.10 + 255 31

Total number of rows: 384017

Table truncated, full table size 52297 Kbytes.




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