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Platform GPL23374 Query DataSets for GPL23374
Status Public on May 02, 2017
Title BC013_nirS
Technology type spotted oligonucleotide
Distribution non-commercial
Organism uncultured bacterium
Manufacturer Princeton Microarray Facility
Manufacture protocol 1.The probe oligonucleotides are printed onto Corning Ultragaps or Erie Scientific Epoxy Silane slides using a DeRisi style arrayer (DiRisi et al., 1997) and pins from Parallel Synthesis.
2.The 70-mer oligo probes (Operon Technologies) were adjusted to a concentration of 0.05 mg ml-1 in 50% DMSO and were spotted on CMT-GAPS amino silane-coated glass slides (Corning, Corning, NY).
3. After printing, the slides were baked at 80°C for 3 h and stored in the dark at room temperature under slight vacuum in a dessicator.
 
Description The probes on this array are 90-mers that consist of the 70-mer nirS sequence and a 20-mer universal reference sequence.
 
Submission date Apr 25, 2017
Last update date Jun 22, 2017
Contact name Jessica Anne Lisa
E-mail(s) jlisa610@gmail.com
Phone 1-850-934-92177
Organization name U.S. Environmental Protection Agency
Department Office of Research and Development
Street address 1 Sabine Island Drive
City Gulf Breeze
State/province FL
ZIP/Postal code 32561
Country USA
 
Samples (8) GSM2589047, GSM2589048, GSM2589049, GSM2589050, GSM2589051, GSM2589052 
Series (1)
GSE98190 Denitrifying bacterial assemblages respond to environmental conditions of a shallow estuary

Data table header descriptions
ID Clone ID
GB_ACC GenBank accession number of sequence used to design oligonucleotide probe
GENE_SYMBOL Gene symbols (nirS)
SEQUENCE
SPOT_ID

Data table
ID GB_ACC GENE_SYMBOL SEQUENCE SPOT_ID
Nir1_CB2-S-149 DQ675898.1 nirS CGGCAAGGTCCTGATGGTCAACTACGAGGATATCGACAACCTCAAGGTGACCACCATCGGTGCGGCGCGC
Nir2_209-23-230-C5 FJ596113.1 nirS AGGCCACATCCTGATGGTCAACTATGAGGACATGGAAAACCTCAAGGTGACCGCGATCGCGGCCGAGCGC
Nir3_209-23-230-G11 FJ596106.1 nirS TGGTTTTGCCGGCATTGTTGATTACTCCGATCCGGGTTTCCCCCTGGTCTCGACTATCGCGACCGAGAAA
Nir4_PseudomonasspBA25AJ440494 AJ440494.1 nirS CGGCAAGGTGATGCTGGTCAACTACCAGGACATCAAGAACCTCACCATCACCACCATCGACGCCGCGCCG
Nir5_CB2-S-5 DQ675816.1 nirS CGGCAAGATCCTGCTGGTCAACTACGAGGACGTGGACAACCTGTCAGTGACCACCATTCCTGCCGCACGC
Nir6_SK209-2-F9 FJ596123.1 nirS CGGCAAGATCATGCTGGTGAACTACGAAGACATGGAGAACATGAACATCACCTCCATTGATGCAGCGGAA
Nir7_ns7b6mRNAFJ799340 FJ799340.1 nirS CGGTCGTATTCTGTTGGTAAACTATAGCGACATCAATAATCTTACCGTGACCACCATCAATGCTGCCCGA
Nir8_G8401A AY336801.1 nirS CGGCAAGATCCTGATGGTCGATTACACGGACATCAAGAACCTGAAGACCACGACGGTCAATGCAGAGCGG
Nir9_CB1-S-25 DQ675713.1 nirS CGGCCAGATCCTGCTAGTGGACTACAGCGACATCAAGAACCTGAAGACCACCACGATCGAATCGGCCAAG
Nir10_CT1-S2-25 DQ676061.1 nirS CGGCCAGATCCTGCTGGTCGATTACTCGGATATCGAGAACCTGAAGACCACCACCATCGCTTCCGCCAAG
Nir11_209-1-230-A05 FJ596140.1 nirS CGGCAAGATCCTGATGGTCAACTATTCCGACATCGAAAACCTCAAGGTCACGTCTATCGCCGCCGAAAGG
Nir12_CB1-S-59 DQ675734.1 nirS GGGCAAGATCCTGTTGGTGGACTACAGCAATATGGATGCCCTGAGCGTGACCACACTGGATGCGGCTCGC
Nit13_CT2-S-187 DQ676224.1 nirS CGGCAAGGTCCTGATGGTCAACTATGACGACATCACGAACCTCAAGGTAACAACCATTGGTGCTGCCCGC
Nir14_209-1-230-B5 FJ596133.1 nirS GGGTCGTATTCTGCTGGTCAATTACAGTGATATCGAGAATCTGTCCGTCACGACCATCGCCGCCGCCCGA
Nir15_Braker(AJ248409)clonepA25 AJ248409.2 nirS CGGCAAGGTGTTGATGGTCAACTACGAAGACATCGACAATCTCCAGGTCACCACGATCGGTGCCGCACGT
Nir16_CT2-S-175 DQ676217.1 nirS GGGCAAGGTCCTGCTGGTCAATTACGCCGATGTGGACAACCTGCAGGTGACCGAGATCAGCGCCGCCCGC
Nir17_V4831B AY336899.1 nirS CGGTAAAATCCTGATGGTGAACTACGAGGATATTAACAACCTCAAGATCACTTCCGTCAATGTTGAACGC
Nir18_Braker(AJ248392)isolateA3-5 AJ248392.2 nirS CGGGCAGATCATCCTGGTCGATTACACCGATCTGAAGAACCTCAAGACCACTACCATCGAGTCGGCCAAG
Nir19_CT1-S2-118 DQ676113.1 nirS CGGCCAGATCCTGCTCGTGAACTACGAGGACATCAATAACCTCAAGACCACGACGATCGGCGCGGCCCGC
Nir20_CT1-S2-53 DQ676077.1 nirS CGGCCAGACCCTGATGGTGGACTACTCCGACATCAACAACCTCAAGGTCACGACCATCGGCACCGAGCGC

Total number of rows: 165

Table truncated, full table size 17 Kbytes.




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Supplementary data files not provided

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