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Platform GPL10323 Query DataSets for GPL10323
Status Public on Aug 05, 2010
Title UGAmamlab_Roseoarray_12k_v2
Technology type in situ oligonucleotide
Distribution custom-commercial
Organisms Sulfitobacter sp. EE-36; Roseovarius nubinhibens ISM; Ruegeria pomeroyi DSS-3; Pseudooceanicola batsensis HTCC2597; Jannaschia sp. CCS1; Ruegeria sp. TM1040; Yoonia vestfoldensis SKA53; Oceanicola granulosus HTCC2516; Roseobacter sp. MED193; Roseovarius sp. 217; Sulfitobacter sp. NAS-14.1; Sagittula stellata E-37; Maritimibacter alkaliphilus
Manufacturer CombiMatrix
Manufacture protocol See manufacturer website.
 
Description The microarray was designed based on selected Ruegeria pomeroyi DSS-3 genes and their orthologs in 12 other sequenced Roseobacter genomes. Probes were designed based on the DNA sequences of the orthologs using the Hierarchical Probe Design (HPD) algorithm. The array consists of 1,578 probes to 431 genes.
 
Contributor(s) Rinta-Kanto JM, Bürgmann H, Gifford SM, Sun S, Sharma S, Kiene RP, Moran MA
Submission date Apr 13, 2010
Last update date Aug 05, 2010
Contact name Shalabh Sharma
E-mail(s) ssharmai@uga.edu
Phone 706-542-0341
Organization name UGA
Department Marine Science
Lab Mary Ann Moran
Street address Department of Marine Science
City Athens
State/province GA
ZIP/Postal code 30605
Country USA
 
Samples (20) GSM532937, GSM532938, GSM532939, GSM532940, GSM532941, GSM532942 
Series (1)
GSE21325 Analysis of sulfur-related transcription by Roseobacter communities using a taxon-specific functional gene microarray

Data table header descriptions
ID
ORF Locus tag
GENOME_ACC RefSeq accession.version of genome from which ORF identifier is derived
Name Gene identifiers
GenomeAccession RefSeq accessions.version of genome sequences from which Names are derived
SEQUENCE Probe sequence
SPOT_ID

Data table
ID ORF GENOME_ACC Name GenomeAccession SEQUENCE SPOT_ID
atpD_SSE37_19847_649_612 SSE37_19847 NZ_AAYA00000000.1 GGCCATAAACCAGCGCGATCTTGGAATCCGTCAGGTTG SSE37_19847
atpD_SSE37_19847_649_612_m1 SSE37_19847 NZ_AAYA00000000.1 GGCCATAAACCAGCGCGATCTTGCAATCCGTCAGGTTG SSE37_19847
atpD_SSE37_19847_649_612_m2 SSE37_19847 NZ_AAYA00000000.1 GGCCATAAACCAGCGCGATCTTGCATTCCGTCAGGTTG SSE37_19847
atpD_SSE37_19847_649_612_m3 SSE37_19847 NZ_AAYA00000000.1 GGCCATAAACCAGCGCGATCTTGCATTGCGTCAGGTTG SSE37_19847
atpD_SSE37_19847_649_612_m4 SSE37_19847 NZ_AAYA00000000.1 GGCCATAAAGCAGCGCGTTCTTGCTATCCGTCAGGTTG SSE37_19847
DnaK_DSS3_957_923 SPO0043 NC_003911.11 SPO0043 NC_003911.11 GAGAGCGGCCTTGCACGGGTCCATCGACTTCTTGA
DnaK_DSS3_957_923_m1 SPO0043 NC_003911.11 SPO0043 NC_003911.11 GAGACCGGCCTTGCACGGGTCCATCGACTTCTTGA
DnaK_DSS3_957_923_m2 SPO0043 NC_003911.11 SPO0043 NC_003911.11 GTGACCGGCCTTGCACGGGTCCATCGACTTCTTGA
DnaK_DSS3_957_923_m3 SPO0043 NC_003911.11 SPO0043 NC_003911.11 GTGACCGGCCTTGCACGGGTCCATCGACTACTTGA
DnaK_DSS3_957_923_m4 SPO0043 NC_003911.11 SPO0043 NC_003911.11 CAGACCGGCCTTGCACGGGTGCATCGACTTCTTCA
DnaK_DSS3_957_923_m5 SPO0043 NC_003911.11 SPO0043 NC_003911.11 GTGACCGGCCTTGCACGGGTCGATCCACTTCATGA
DnaK_ISM_08455_1334_1300 ISM_08455 NZ_AALY00000000.1 TGGAAGACCCGGATCGTCACGGCCGATTGGTTGTC ISM_08455
DnaK_ISM_08455_1334_1300_m1 ISM_08455 NZ_AALY00000000.1 AACGAGTTCGTCGATCTCGGATGCGGATACACCGGC ISM_08455
DnaK_ISM_08455_1334_1300_m2 ISM_08455 NZ_AALY00000000.1 AACGTGTTCGTCGATCTCGGATGCGGATACACCGGC ISM_08455
DnaK_ISM_08455_1334_1300_m3 ISM_08455 NZ_AALY00000000.1 AACGTGTACGTCGATCTCGGATGCGGATACACCGGC ISM_08455
DnaK_ISM_08455_1767_1733 ISM_08455 NZ_AALY00000000.1 GATCTTGTCGGCGGCAGCGTCGTCCTTGTCGAGAT ISM_08455
DnaK_ISM_08455_1767_1733_m1 ISM_08455 NZ_AALY00000000.1 GATGTTGTCGGCGGCAGCGTCGTCCTTGTCGAGAT ISM_08455
DnaK_ISM_08455_1767_1733_m2 ISM_08455 NZ_AALY00000000.1 GATGTTGACGGCGGCAGCGTCGTCCTTGTCGAGAT ISM_08455
DnaK_ISM_08455_1767_1733_m3 ISM_08455 NZ_AALY00000000.1 GATGTTGAGGGCGGCAGCGTCGTCCTTGTCGAGAT ISM_08455
DnaK_ISM_08455_1767_1733_m4 ISM_08455 NZ_AALY00000000.1 GATGTTGACGGCGGGAGCGTCCTCCTTGTCGAGAT ISM_08455

Total number of rows: 1810

Table truncated, full table size 246 Kbytes.




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Supplementary file Size Download File type/resource
GPL10323_Roseoarray_v2.gal.gz 598.3 Kb (ftp)(http) GAL

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