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Platform GPL13372 Query DataSets for GPL13372
Status Public on Mar 31, 2012
Title Agilent GCCRI Human 105k miRNA-focused v2
Technology type in situ oligonucleotide
Distribution custom-commercial
Organism Homo sapiens
Manufacturer Custom-design fabricated by Agilent Technologies.
Manufacture protocol eArray protocol.
 
Description Design ID: 027477

Custom arrays were designed based on the Agilent 2x105K Human Whole Genome Genomic microarray with Agilent’s eArray program (https://earray.chem.agilent.com/earray/), with additional probes that cover all miRNA regions (200 bps before, within and after each miRNA from miRBase v13, with each probe in triplicates to enhance the reliability). All custom-designed probes were designed in UCSC hg18. Probes from Agilent’s database were lifted-over from hg19 to hg18 (LiftOver tool: http://genome.ucsc.edu).
 
Submission date Apr 05, 2011
Last update date Jun 27, 2018
Contact name Yidong Chen
E-mail(s) cheny8@uthscsa.edu
Phone 2105629163
Organization name UT Health Science Center at San Antonio
Department Population Health Sciences
Street address 8403 Floyd Curl Drive, MSC 7784
City San Antonio
State/province Texas
ZIP/Postal code 78229
Country USA
 
Samples (18) GSM701905, GSM701906, GSM701907, GSM701908, GSM701909, GSM701910 
Series (2)
GSE28397 Copy number alteration in Wilms' tumor with custom-designed miRNA probes
GSE28401 miRNA and Wilms' tumor

Data table header descriptions
ID
ProbeID Oligonucleotide ID (either supplied by Agilent or internal unique ID)
Chromosome Chromosome (hg18)
RANGE_GB RefSeq accession.version of chromosome (hg18)
SPOT_ID
RANGE_START Start postion of oligonucleotide relative to RANGE_GB (hg18)
RANGE_END End postion of oligonucleotide relative to RANGE_GB (hg18)
SEQUENCE Sequence of oligonucleotide

Data table
ID ProbeID Chromosome RANGE_GB SPOT_ID RANGE_START RANGE_END SEQUENCE
1 A_16_P18241339 chr8 NC_000008.9 21593981 21594040 CTCATCTGTTGGGGTATTATTTCCATAGTTTTGTTGCTTAAAAAAAGGAAAGAAAGGGGA
2 A_18_P15917389 chr6 NC_000006.10 156309400 156309459 AACAACCTTTAAAATGTATATTGTTAAAGAATATTACAAGACATGGAACAATTGTTGGCA
3 A_14_P134084 chr2 NC_000002.10 222016444 222016503 CTCAGACACTTACCAACTCCTATAACTTTTTCAATCTTAATGCAGGATGCGTCAATTTCT
4 A_16_P18308763 chr8 NC_000008.9 55553591 55553650 ACATCAAATCAGAAACCAAAGTTCAACTCTCCTTTATTGCATTTCCTGAAACATCTGTCT
5 A_14_P113590 chr19 NC_000019.8 50101163 50101214 GACTGGGATGTAAGCCATAGCAGGACTCCACGAGTTGTCACTATCATTTATC
6 A_18_P12122977 chr14 NC_000014.7 100565582 100565629 CAAATAGAAGCCATCTGACGTCTGGTCTACCCAGTGCCATGTAGATTC
7 A_16_P36915982 chr4 NC_000004.10 132054832 132054891 TCTCAAACCACTTATGTATGACTTAATACTGCAACTTGAAATTAGAGATACCTACCCCAC
8 A_14_P118607 chr19 NC_000019.8 852694 852745 ACCACCTAGACCCCAGGTTCTGGATTGTCGAACTCCTATATATCCTTTAAAG
9 A_14_P200316 chr11 NC_000011.8 71482363 71482413 CTGTCCTTTAATGACCTGACTTCCATTGACCCTGTGAGTTCCTAACAGTAG
10 A_16_P03434389 chr19 NC_000019.8 22483078 22483137 CAAAGGCATATTCACCACAGAAATATTTTCATGTCCAAGTCACAAATTTTAGCCATGCTC
11 A_16_P21541673 chrX NC_000023.9 103942222 103942281 TGTGTTGAGTGTAGTTATACCCAGTATCCACTATTCCTAATTGTATCTTATACCCACCCA
12 A_14_P118250 chr13 NC_000013.9 79810375 79810434 TAACTGTGACGTATACGGCATTCTGTAACTTTTTCAAACCAGGTAGAATGAATATGGCAT
13 A_16_P16833782 chr4 NC_000004.10 120618279 120618338 TCCCATAGACTTGATTATGGTCAGAGTGTCATACAAATCTAGGCTATACACAGACATGTT
14 A_16_P19361572 chr11 NC_000011.8 106687986 106688045 TGAAAGAAACTTCTCATACTAATCAATCCACACAATACTCCTGAGTTTAGACAATGCCAT
15 A_14_P107382 chr20 NC_000020.9 4130319 4130378 CCCAGCCTGAATCATCATAGACAGATTTGATTAGGAACCATTGCTATATCCTAAATCTCT
16 A_16_P01207732 chr5 NC_000005.8 32123808 32123867 CCAGCCTTCGGTTTTAGATTCAATTAATCCCGACAAACATTTTACTGTGAACAAAAACTT
17 A_14_P202492 chrX NC_000023.9 20184675 20184734 ACTCACAAAAGCCTATTTAACCCACTGTATTTGGAAACTAACATCAACTTCACTCAGTTT
18 A_16_P00903359 chr3 NC_000003.10 197304909 197304968 GCAAACAGACGTCTACATCTAAATCCCAAGTCAGCAAATCTAGTATTCAGGAAAAATACC
19 A_14_P108000 chr14 NC_000014.7 77256531 77256590 TCCCTGGTTCTATTTTAGAAACAAAAGGTTGACATACCACAACACCAAGTTTTTAATCAC
20 A_16_P02564469 chr12 NC_000012.10 6147978 6148037 ACATTCTAAACCCCCAAATATTCACAGATATTCACCTCTAATTGCTTGTCAGTCACAATG

Total number of rows: 100306

Table truncated, full table size 11469 Kbytes.




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