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Platform GPL4558 Query DataSets for GPL4558
Status Public on Jan 01, 2007
Title ENCODE NimbleGen hg16 tiling array
Technology type in situ oligonucleotide
Distribution custom-commercial
Organism Homo sapiens
Manufacturer NimbleGen Systems Inc.
Manufacture protocol Tiling array; see NimbleGen website. Contains one 50-mer every 38 nts.
 
Description 388K element tiling array based on NCBI34 build of the human genome (hg16) and contains overlapping 50-mer oligonucleotides, positioned at every 38 basepairs (bp) throughout the ENCODE regions.
 
Web link http://www.nimblegen.com/
Contributor(s) Heintzman ND, Stuart RK, Hon G, Fu Y, Ching CW, Hawkins D, Barrera LO, Calcar SV, Qu C, Ching KA, Wang W, Weng Z, Green RD, Crawford GE, Ren B
Submission date Nov 13, 2006
Last update date Jul 13, 2007
Contact name Bing Ren
E-mail(s) biren@ucsd.edu
Organization name Ludwig Institute for Cancer Research
Department Department of Cellular and Molecular Medicine
Lab Laboratory of Gene Regulation
Street address 9500 Gilman Drive
City La Jolla
State/province CA
ZIP/Postal code 92093-0653
Country USA
 
Samples (3) GSM144303, GSM144304, GSM144305
Series (1)
GSE6273 Distinct and predictive chromatin signatures of transcriptional promoters and enhancers in the human genome

Data table header descriptions
ID
PROBE_ID Probe id P start position
SEQUENCE nucleotide sequence of the probe
ENCODE encode region
CHR chromosome
RANGE_GB RefSeq genome accession for chromosome (NCBI34 build)
RANGE_START nucleotide start position
SPOT_ID identifies empty spots

Data table
ID PROBE_ID SEQUENCE ENCODE CHR RANGE_GB RANGE_START SPOT_ID
0951_0001_0001 ENm000P0000116611 CCAGGCATGCTGGTGAAGGGGCTGGACTCCCGTAGTGCGCTACACATAAG ENm008 chr16 NC_000016.7 496851
0951_0004_0001 CPK6 TTGTGCTGGTGGTGAGTTGTTTGATAGGATTATTCATAGAGGTCATTACAGCGAGAGGAANN CPK6
0951_0006_0001 CPK6 TTGTGCTGGTGGTGAGTTGTTTGATAGGATTATTCATAGAGGTCATTACAGCGAGAGGAANN CPK6
0951_0008_0001 CPK6 TTGTGCTGGTGGTGAGTTGTTTGATAGGATTATTCATAGAGGTCATTACAGCGAGAGGAANN CPK6
0951_0010_0001 CPK6 TTGTGCTGGTGGTGAGTTGTTTGATAGGATTATTCATAGAGGTCATTACAGCGAGAGGAANN CPK6
0951_0012_0001 CPK6 TTGTGCTGGTGGTGAGTTGTTTGATAGGATTATTCATAGAGGTCATTACAGCGAGAGGAANN CPK6
0951_0014_0001 CPK6 TTGTGCTGGTGGTGAGTTGTTTGATAGGATTATTCATAGAGGTCATTACAGCGAGAGGAANN CPK6
0951_0016_0001 CPK6 TTGTGCTGGTGGTGAGTTGTTTGATAGGATTATTCATAGAGGTCATTACAGCGAGAGGAANN CPK6
0951_0018_0001 CPK6 TTGTGCTGGTGGTGAGTTGTTTGATAGGATTATTCATAGAGGTCATTACAGCGAGAGGAANN CPK6
0951_0020_0001 CPK6 TTGTGCTGGTGGTGAGTTGTTTGATAGGATTATTCATAGAGGTCATTACAGCGAGAGGAANN CPK6
0951_0022_0001 CPK6 TTGTGCTGGTGGTGAGTTGTTTGATAGGATTATTCATAGAGGTCATTACAGCGAGAGGAANN CPK6
0951_0025_0001 ENm000P0000192170 GTCCTGAGACACTTTTTCGGGATACTATGAATCCTGATTTTAAGGATAAT ENm014 chr7 NC_000007.10 126774817
0951_0027_0001 ENm000P0000023415 GTCCACCAAACCAAACTCACAACTTGTTACTATTCCCATACAGGCACAAA ENm001 chr7 NC_000007.10 117046258
0951_0029_0001 ENm000P0000160794 TATTACAGGTACTTTGGTTGTTTCTATCTGCTTGATAGTTATTTCTTAGG ENm012 chr7 NC_000007.10 114323066
0951_0031_0001 ENr100P0000229094 CTTAAATAAGTAGCAGTAAATGCAAAAACTTGAAAACCTTCTTTTGTTAC ENr123 chr12 NC_000012.8 38740363
0951_0033_0001 ENr100P0000211439 TAATGCATAAAAATTAAAACTGACTCACTGTGGAAACGCTAAATGAATAC ENr114 chr10 NC_000010.7 54979770
0951_0035_0001 ENr200P0000291834 CAACTGGAGAGGAAGATGACACAATTCAACATGCTATGGAGGAGGGAGAG ENr223 chr6 NC_000006.8 74003532
0951_0037_0001 ENm000P0000147180 GGGTCTTGACTTCTGGCATCATCTGTGTCAGGCCTGGTGGCCATGGAGGT ENm011 chr11 NC_000011.7 2296079
0951_0039_0001 ENm000P0000122762 TGTATTTCTTACCAAAAAGCAATAAAGTCAACATAGACAGAACTTTGCTA ENm009 chr11 NC_000011.7 5215781
0951_0041_0001 ENr300P0000352734 TACCAAAAGCTTTCTTTGACATTTTTCTCTTTCCGTGCCTTCCTGCCTTT ENr324 chrX NC_000023.7 121712706

Total number of rows: 388570

Table truncated, full table size 44945 Kbytes.




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