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Platform GPL10306 Query DataSets for GPL10306
Status Public on Apr 11, 2010
Title Agilent/CCFFT Escherichia coli K12 MG1655 8x15k v1.0
Technology type in situ oligonucleotide
Distribution custom-commercial
Organism Escherichia coli str. K-12 substr. MG1655
Manufacturer Agilent
Manufacture protocol Described in: http://www.chem.agilent.com/en-us/products/instruments/dnamicroarrays/pages/gp557.aspx
 
Description Steps/settings in Earray (http://www.chem.agilent.com/en-US/products/instruments/dnamicroarrays/pages/gp50660.aspx):
a. Design Wizards - Create a Microarray Design from Target Transcripts
b. Selected Method - Tm matching methodology
c. Selected Parameters:
Probe Length - 60bp
Probes per Target - 3
Probe Orientation - Sense
Design Options - Best Distribution Methodology
NO - "Design with 3' Bias" and "Allow Probes to be Trimmed"
Preferred Probe Tm - 85C
Target File Details - Upload Gene Sequence File
Note: "e.coli.nuc" file was downloaded from the KEGG ftp site (ftp://ftp.genome.jp/pub/kegg/genes/organisms/eco/ )
Transcriptome Details - Use Target File as Transcriptome
d. 8x15K platform was used
 
Submission date Apr 10, 2010
Last update date Apr 11, 2010
Contact name Ranno Nahku
E-mail(s) ranno@tftak.org
Organization name TFTAK
Street address Akadeemia tee 15b
City Tallinn
ZIP/Postal code 12618
Country Estonia
 
Samples (7) GSM589790, GSM589791, GSM589792, GSM589793, GSM589794, GSM589795 
Series (1)
GSE23920 Systems biology approach reveals that overflow metabolism of acetate in Escherichia coli is triggered by carbon catabolite repression of acetyl-CoA synthetase

Data table header descriptions
ID
PrimaryAccession Kyoto Encyclopedia of Genes and Genomes (KEGG) identifier
ORF Locus tag
SEQUENCE Sequence of oligonucleotide

Data table
ID PrimaryAccession ORF SEQUENCE
CUST_423_PI400063532 eco:b2369 b2369 TCCCCTTCTCTCTCAACCGGTTTGTTGGAAGTTTAACGTCCGACCAGCAAAAACTCGACT
CUST_2843_PI400063532 eco:b2249 b2249 GCTGGATGTTAAACGTGTTGCCGGACAGAGCGTGATTTTCGAAGGCACTGAAGGACTGCC
CUST_4995_PI400063532 eco:b2164 b2164 CGGGCGGCACGCTGGAAGTGAAAACCATTGCGATTATCTCCTTTGCGCTTTGTGGTTTTG
CUST_9324_PI400063532 eco:b3669 b3669 GTGTATTTGCGATATCTCCATGCCCGATATCTCCGGTCTGGAGCTGCTAAGCCAGCTGCC
CUST_9866_PI400063532 eco:b0354 b0354 CCATTATTCCCGCCAGCGTTGCCGATAAAATTGCTCAGCGCGATGCCAGCAGTATAGTGT
CUST_6712_PI400063532 eco:b0513 b0513 GGCGCAGGGAATACGCGTTATCGTCGTAGCTTTGTGGCGACCGGATTTATGACGCTGATA
CUST_11449_PI400063532 eco:b1359 b1359 AGCTGGAAAAATTCCGCCAGCAGGGTTTTTCACCTGAGCAGGTGATTCGACACAGCATCG
CUST_1180_PI400063532 eco:b1214 b1214 AGTTGGAAAAACTGATCGCGCTGTTTTACGGCGACTGGGGATTTAAAGCCTCACGCGGTG
CUST_6341_PI400063532 eco:b1643 b1643 CGCCTGCTTCGTGGCTGGATCTACGCCGGTGACATCTGGCATCCCTTGTTAATGGATTTA
CUST_10014_PI400063532 eco:b3601 b3601 TGGCATTGCGTGAAGAGCTAAATCACGACGGCAACGAGTACGCCTTTACCGACGACGAAA
CUST_11752_PI400063532 eco:b0242 b0242 ATACCGCTGACCCGCGCAGCAATCCGCAGGCAGAACTGATTAAAGATGTTTACGGCATTG
CUST_7971_PI400063532 eco:b1562 b1562 ACCGTCATAGTGACGGCACTGGTAACGAGGAAAGACCTCTGCGAGGTACGAATCCGAACC
CUST_1376_PI400063532 eco:b1891 b1891 GGCGCTCGTTTGCAGATGCTGGAAAGCGAAACACAGTTAAGTCGCGGACGCCTGATAAAA
CUST_6331_PI400063532 eco:b2730 b2730 GTAAACGCGGTGGTTCATGAGTTCGCGGCAGCCTGCGGTTGTGGTATTGAACTTTCAGAA
CUST_12256_PI400063532 eco:b1946 b1946 TGGACGGTCTGGCGGGCGAACCACTGGATATTCTGATCAACGGTTATTTAATCGCCCAGG
CUST_6794_PI400063532 eco:b4282 b4282 CGACAAAACAGGCAACTGGAGTTTACCATTCTACGGTTCCGTCGCATTGCTTGTTATTGG
CUST_1694_PI400063532 eco:b0768 b0768 AACTCGCAAGGTTACGTTAACAAAAGCAGGAAAAAGGTTGCTCCCGGAGGCGCGGGAATT
CUST_4625_PI400063532 eco:b3294 b3294 CGCCGATGGCTTACATCGAGCTGGTTGATCGTTCAGAGAAAGCAGAAGCTGCTGCAGAGT
CUST_6442_PI400063532 eco:b1633 b1633 CAGTTCGCCTTTTGAATTGCTGATTGCCGTACTGCTTTCCGCTCAGGCGACCGATGTCAG
CUST_127_PI400063532 eco:b2392 b2392 TTCCGGTCATACTGGTGTTGCCGATCTTGATGAGGCTTATCTGACGCTGCAACCGCTGTT

Total number of rows: 12554

Table truncated, full table size 1215 Kbytes.




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Supplementary data files not provided

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