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Platform GPL13358 Query DataSets for GPL13358
Status Public on Apr 02, 2011
Title Ocimum Biosolutions E.coli O157 OciChip (alternative version)
Technology type spotted oligonucleotide
Distribution custom-commercial
Organism Escherichia coli
Manufacturer Ocimum Biosolutions
Manufacture protocol E.coli O157 OcichipTM consists of 6336 spots printed on Corning® epoxy coated glass slides using Omnigrid (Gene Machines). Chip has been printed using 4x8 SMP4 pins on 75.5x 25.5x1.3 mm microarray glass slides with a spot area of 18 x36 cm. The origin offset values were 0 for X direction and 10000 for Y direction. The dot to dot distance is 240 mm; distance between subarrays is 150 mm and no of dots per array is 11x18=198. Oligos were printed using spotting buffer A from Ocimum Biosolution at 50% humidity and temperature at 22°C. The time taken by the robotic gridder to print was 16 hrs. Each probe was checked for its performance by standard QC process followed at Ocimum Biosolutions. Printed slides were stored in a light-tight box in a bench-top dessicator, with desiccant and were kept at 4°C until they were used for hybridization.
 
Description original version of this platform is GPL10291
 
Submission date Apr 01, 2011
Last update date Apr 25, 2011
Contact name Jinki Yeom
E-mail(s) tbhm@korea.ac.kr
Phone 82232903498
Organization name Korea University
Department Life Science
Lab East building #321
Street address Anam-Dong, Sungbuk-Gu
City Seoul
ZIP/Postal code 136-075
Country South Korea
 
Samples (1) GSM700398
Series (1)
GSE28312 Escherichia coli O157:H7 : Control vs. PEG8000 treated
Relations
Alternative to GPL10291 (original version)

Data table header descriptions
ID IMAGE clone number of sequence used to design oligonucleotide probe
ACCESSION accession number
DESCRIPTION Gene description
ORF ORF Name
SEQUENCE probe sequence
SPOT_ID spot identifier

Data table
ID ACCESSION DESCRIPTION ORF SEQUENCE SPOT_ID
B0001 B0001 thr operon leader peptide thrL CCACCATTACCACCACCATCACCATTACCACAGGTAACGGTGCGGGCTGA
B0017 B0017 IS186 and IS421 hypothetical protein yi82_1 TCGGTCCAGCCGTTCAGCGTCTCTGCTGTCGGTTAGCTCAAAATCAGTGA
B0024 B0024 unknown CDS yaaY GACAATGAAAAGCCACTTCTTTCTGATTTCGGTACTCAATCGCCGGTTAA
B0025 B0025 bifunctional: flavokinase ribF TCCACGGTGATGAATTAGGGCGCACTATAGGTTTCCCGACGGCGAATGTA
B0026 B0026 isoleucine tRNA synthetase ileS TGAAAGTCGCGTTGAGTAAAGCCGAAGGTGAGAAGTGCCCACGCTGCTGG
B0027 B0027 prolipoprotein signal peptidase (SPase II) lspA CTGATTATCGATCTGGGCAGCAAATACCTGATCCTCCAGAACTTTGCTCT
B0033 B0033 "carbamoyl phosphate synthase, large subunit" carB AAGAATGGCGAATATACCTACATCATCAACACCACCTCAGGCCGTCGTGC
B0034 B0034 transcriptional regulator of cai operon caiF GTTAAGATGATCCCTAATAAGCTGGAAGGGCGGGGATGCCAGTGTCAGCG
B0035 B0035 possible synthesis of cofactor for carnitine racemase and dehydratase caiE TGGAGGAAAATCGCCCCCGTTTGCAGGGGACGACGGATGTGACGCCTAAA
B0042 B0042 "probable flavoprotein subunit, carnitine metabolism" fixB ACAGGCAATCCAGCTCGGCGCTAATCATGTCTGGAAATTAAACGGCAAAC
B0043 B0043 carnitine metabolism related fixC AAAACCGTGCTTTCAGCGATGAAAAGCGACGATTTCAGTAAGCAAAAACT
B0044 B0044 putative ferredoxin fixX GTGAAAGCCGATGCCGATAAACAGGCGCTGGAGCTGCTGGTGAAAGCGTG
B0057 B0057 unknown CDS yabQ CCCCCCAAAAAAATTGATACTAAAGGAGTTGCTACTGAAGAAGTTGCTAC
B0059 B0059 ATPase associated with RNA polymerase and transcriptional activator hepA ATTCGTGACGACGAACTGACCGCCATTGAGAGCAACCGTCAGCAGGTAAT
B0069 B0069 putative periplasmic binding protein of transport system yabN TCTCCAACTAATCTGGTCTATTTCGCTGAGGAACAGTACCAGCAACTGTG
B0070 B0070 Sugar efflux protein setA GGGGCAGCTACCACCTTATTTACTAACAGTATTTCTACCGGGGTAATTCT
B0076 B0076 probable transcriptional activator for leuABCD operon leuO TTCTCTGCATTCCAATAAGGGAAAGGGAGTTAAGTGTGACAGTGGAGTTA
B0077 B0077 "acetolactate synthase III, valine sensitive, large subunit" ilvI GCGGGGGCGGAATGGATGAAATGTGGTTAAGCAAAACGGAGAGAACCTGA
B0078 B0078 "acetolactate synthase III, small subunit" ilvH GTTGCGCCAACCGACGATCCGACATTATCGCGTATGACCATCCAGACCGT
B0079 B0079 fruR leader peptide fruL TTTTTGCGAAATCAGTGGGAACCTGGAATAAAAGCAGTTGCCGCAGTTAA

Total number of rows: 6232

Table truncated, full table size 622 Kbytes.




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Supplementary data files not provided
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