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Platform GPL7714 Query DataSets for GPL7714
Status Public on Aug 18, 2009
Title Custom made Escherichia coli K12 MG1655 tiling array
Technology type in situ oligonucleotide
Distribution custom-commercial
Organism Escherichia coli str. K-12 substr. MG1655
Manufacturer Nimblegen for Affymetrix
Manufacture protocol Photolitography
Catalog number No catalog number as it is custom
Support unknown
Coating unknown
 
Description This is a custom made tiling array, with probes for almost all genes and all intergenic regions. Intergenic regions have much denser coverage than coding regions, and a uniform probe affinity has been strived after. The array design is described in Thomassen et al. (submitted)
The genome used is:NC_000913
 
Contributor(s) Thomassen GO, Lindvall JM, Lagesen K, Rognes T
Submission date Dec 01, 2008
Last update date Aug 18, 2009
Contact name Gard Thomassen
E-mail(s) gardt@ifi.uio.no
Phone +4793674926
URL http://cmbn.no/rognes
Organization name Centre for Molecular Biology and Neuroscience (CMBN) and Institute of Medical Microbiology
Department Molecular microbiology
Lab Bioinformatics
Street address Rikshospitalet University Hospital
City Oslo
State/province Oslo
ZIP/Postal code 0027
Country Norway
 
Samples (20) GSM347947, GSM347948, GSM347949, GSM347950, GSM347951, GSM347952 
Series (2)
GSE13829 UV treated Escherichia coli reveals a high number of differentially expressed regions and many novel transcripts
GSE13830 MNNG treated Excherichia coli reveal new up or down regulated genes belonging to the Ada regulon

Data table header descriptions
ID
RANGE_START Start coordinate of the probe sequence (see column SEQUENCE)
RANGE_END End coordinate of the probe sequence (see column SEQUENCE)
RANGE_STRAND Strand from which the probe sequence is derived (see column SEQUENCE)
SEQUENCE Probe sequence ordered from Affymetric
GB_RANGE Accession.version[Start..End]
SPOT_ID spot identifier

Data table
ID RANGE_START RANGE_END RANGE_STRAND SEQUENCE GB_RANGE SPOT_ID
rev_probe_1200292_at_3 1200423 1200448 + GGGCGGTACCAGAAAGGACTAAGGA NC_000913.2[1200423..1200448]
rev_probe_4216619_at_2 4216782 4216807 + ATCATCACGTTGGTCTGGTCGTGGA NC_000913.2[4216782..4216807]
probe_924764_at_9 924846 924871 - TTACCATCATCATTAAAAAAAGGGT NC_000913.2[924846..924871]
rev_probe_1949423_at_36 1949745 1949770 + GGAGCTGCCTGCGCTTTGGCATTTT NC_000913.2[1949745..1949770]
probe_924764_at_12 924875 924900 - ACCTTCCCGCAGCACTAATTATCAA NC_000913.2[924875..924900]
probe_924764_at_11 924862 924887 - ACTAATTATCAACAACTTACCATCA NC_000913.2[924862..924887]
rev_probe_1949423_at_38 1949761 1949786 + TGGCATTTTCTCGATTCTCTTCCTG NC_000913.2[1949761..1949786]
probe_924764_at_14 924897 924922 - TGCAGCACCCTTTTTTATCCTTACC NC_000913.2[924897..924922]
probe_924764_at_13 924889 924914 - CCTTTTTTATCCTTACCTTCCCGCA NC_000913.2[924889..924914]
probe_2860361_at_122 2861498 2861523 - TACCCACGGCACGCCGGGGAAATGG NC_000913.2[2861498..2861523]
probe_2948657_at_0 2948658 2948683 - CGGCGTTGTTTAGTTCACGGGAATA NC_000913.2[2948658..2948683]
probe_2860361_at_121 2861488 2861513 - ACGCCGGGGAAATGGTTGGGCCAAT NC_000913.2[2861488..2861513]
rev_probe_4216619_at_8 4217172 4217197 + GGACAGACAACCTCGCGGAAAGTCA NC_000913.2[4217172..4217197]
probe_924764_at_15 924905 924930 - CATTCTCCTGCAGCACCCTTTTTTA NC_000913.2[924905..924930]
rev_probe_379127_at_77 379845 379870 + GGCATTGAAATGTTCAGTTTCATAA NC_000913.2[379845..379870]
rev_probe_4216619_at_7 4217115 4217140 + GGCAGAATAAAAGCCGTGACATCCA NC_000913.2[4217115..4217140]
rev_probe_3390051_at_335 3393582 3393607 + CTGCATCCATTTACCGAGCCACGGC NC_000913.2[3393582..3393607]
probe_3779712_at_3 3779739 3779764 - TGTCCTGTGATCGTGCCGGATGCGA NC_000913.2[3779739..3779764]
probe_2860361_at_119 2861474 2861499 - GTTGGGCCAATATGAAACCCTTTTA NC_000913.2[2861474..2861499]
probe_3779712_at_1 3779725 3779750 - GCCGGATGCGATGTAATCATCTATC NC_000913.2[3779725..3779750]

Total number of rows: 276563

Table truncated, full table size 25659 Kbytes.




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Supplementary data files not provided
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