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Platform GPL6566 Query DataSets for GPL6566
Status Public on Oct 19, 2008
Title Geobacter uraniumreducens Rf4 antisense-detecting array
Technology type in situ oligonucleotide
Distribution custom-commercial
Organism Geotalea uraniireducens Rf4
Manufacturer Combimatrix
Manufacture protocol In-situ electrochemically synthesized oligonucleotide array. For reference see: Mauer et al., Electrochemically generated acid and its containment to 100 micron reaction areas for the production of DNA microarrays. PLoS ONE. 2006, Dec 20;1:e34.
Catalog number 4818
Support silicon
Coating other
 
Description each oligonucleotide is synthesized on an array of gold electrodes embedded in a silicon chip.
 
Web link http://www.combimatrix.com
Contributor(s) Holmes DE, DiDonato RJ, Postier BL, Lovley DR
Submission date Mar 08, 2008
Last update date Oct 19, 2008
Contact name Derek Lovley
Organization name University of Massachusetts Amherst
Department Microbiology
Lab D. R. Lovley
Street address University of Massachusetts at Amherst, Dept. of Microbiology, Morrill IV north room 202
City Amherst
State/province MA
ZIP/Postal code 01003
Country USA
 
Samples (24) GSM274873, GSM274874, GSM274876, GSM276845, GSM276846, GSM276847 
Series (3)
GSE10920 Analysis of the physiological status of Geobacter uraniireducens growing in uranium-contaminated subsurface sediments
GSE12455 Gene expression patterns under conditions of oxidative stress in Geobacter uraniumreducens
GSE12874 Differential Gene Expression in G. uraniireducens during Growth on Iron or Manganese Oxide as Electron Acceptor

Data table header descriptions
ID
Block Oligonucleotide block position on array
Column Oligonucleotide column position on array
Row Oligonucleotide row position on array
ORF GeneID; Annotated open reading frame
OLIGO_ID unique oligonucleotide identifier
SEQUENCE oligonucleotide sequence
Tm oligonucleotide melting temperature
PROT_ACC Protein accession number
PROT_GI Protein GI number
GENOME_ACC Genome accession number
SPOT_ID

Data table
ID Block Column Row ORF OLIGO_ID SEQUENCE Tm PROT_ACC PROT_GI GENOME_ACC SPOT_ID
1 1 1 1 QC-3prime TGACTGACTGGACTGTGGGTGTGCGATACGTGTCC 74.96 --QC-3prime
2 1 1 2 QC-5prime TGGGTGTGCGATACGTGTCCGACTGACTGACTGAC 74.83 --QC-5prime
3 1 1 3 Gura_1960 269_3069_1041_1077 CCGCAATACGGAGAGGATTGAACAGGTAATCAAGAAT 70.02 YP_001230723.1 148264017 NC_009483
4 1 1 4 Gura_1680 267_2974_185_219 ACTATAAGAAGGCCGCGCGTGTTATTGATGTGCCA 72.99 YP_001230448.1 148263742 NC_009483
5 1 1 5 Gura_3854 202_839_2213_2247 GGGAAGCGATCGACCTCATCCGTTCGGGACATTTC 74.3 YP_001232577.1 148265871 NC_009483
6 1 1 6 Gura_0198 215_1061_303_338 ATTCATCGGCATGCAGGCAATCGTCATGGACAAGGT 74.67 YP_001228987.1 148262281 NC_009483
7 1 1 7 Gura_3081 271_3281_106_140 ATGGAGAAGATCATACGAAAACCGGGCCTTGACCC 72.7 YP_001231825.1 148265119 NC_009483
8 1 1 8 Gura_0891 267_2918_105_139 TCCGTTCCTCCAGCCTTACTACGACCTGGCAAAAC 73.89 YP_001229670.1 148262964 NC_009483
9 1 1 9 Gura_2591 275_3714_667_701 GTGCACTTCGTAATAGCGGGCGATGGTCCTTGCAG 74.87 YP_001231341.1 148264635 NC_009483
10 1 1 10 Gura_1052 133_129_1331_1365 ATATTGCGGAACGGGTTACCGATCTCATGCGCAAA 73.16 YP_001229831.1 148263125 NC_009483
11 1 1 11 Gura_3498 274_3669_2812_2846 GGGCTTTCCACGAAGAACGCCATCCTGATCATCCA 74.37 YP_001232226.1 148265520 NC_009483
12 1 1 12 Gura_1607 206_916_124_158 GGCAGCGGTTTCACAGACGATTGCTACCTGAAGAG 73.29 YP_001230376.1 148263670 NC_009483
13 1 1 13 190_655_11_45 ACCTGGATGTTCGCAATAAGGTCGTGATAGTGGTC 71.1 --190_655_11_45
14 1 1 14 Gura_2170 193_699_389_423 GTTTCGGCAGCGAGTATGATTGCATTCTCGATGAT 70.63 YP_001230930.1 148264224 NC_009483
15 1 1 15 Gura_0166 244_1825_29_63 AAGACAACCCGGATGACGAATTGCTGACCTTACGG 72.92 YP_001228955.1 148262249 NC_009483
16 1 1 16 Gura_4188 276_3859_392_426 GTATCGTCCCGGAAAATCGCCTGGCCAGAACCTTC 74.56 YP_001232904.1 148266198 NC_009483
17 1 1 17 Gura_1355 246_1897_89_123 CAAAGGGCAACTACATCGGCCTTGACGAGATCGGC 74.77 YP_001230129.1 148263423 NC_009483
18 1 1 18 Gura_3008 268_3034_244_278 GTGGATCTATGGCAGGCGGAGAAAGAGCTGGCAAA 74.4 YP_001231753.1 148265047 NC_009483
19 1 1 19 Gura_2836 247_1947_704_738 TCAGGGATTCCGGGAAATACGAGTTTGCACCCACT 73.79 YP_001231582.1 148264876 NC_009483
20 1 1 20 Gura_2946 136_153_113_147 TGAACGAGCACGTGTCTTACAAGCTATGGAGCGGC 74.29 YP_001231691.1 148264985 NC_009483

Total number of rows: 12544

Table truncated, full table size 1399 Kbytes.




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