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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Dec 12, 2007 |
| Title |
UW Lidstrom Methylobacterium extorquens AM1 11K v1.0 |
| Technology type |
in situ oligonucleotide |
| Distribution |
custom-commercial |
| Organism |
Methylorubrum extorquens AM1 |
| Manufacturer |
Agilent |
| Manufacture protocol |
Agilent uses a non-contact in situ standard phosphoramidite chemistry synthesis process to print 60-mer oligonucleotide probes.
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| Description |
Platform annotation based on June 2002 annotation (genome sequencing done by Integrated Genomics, http://www.integratedgenomics.com/genomereleases.html)
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| Contributor(s) |
Lidstrom ME, Okubo Y, Sivam D, Nelson C, Hopkins C |
| Submission date |
Dec 10, 2007 |
| Last update date |
Dec 13, 2007 |
| Contact name |
Jonathan A. Miller |
| E-mail(s) |
millerja@u.washington.edu
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| URL |
https://depts.washington.edu/mllab/
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| Organization name |
University of Washington
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| Department |
Microbiology
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| Lab |
Lidstrom Laboratory
|
| Street address |
616 NE Northlake Place
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| City |
Seattle |
| State/province |
WA |
| ZIP/Postal code |
98195 |
| Country |
USA |
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| Samples (46)
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GSM371895, GSM371896, GSM391303, GSM391304, GSM391305, GSM391306
GSM391307, GSM391308, GSM391309, GSM391310, GSM391311, GSM391312, GSM391313, GSM391314, GSM391315, GSM391316, GSM391317, GSM391318, GSM391319, GSM391320, GSM510234, GSM510235, GSM547671, GSM547672, GSM547673, GSM547674, GSM547675, GSM547676, GSM547677, GSM547678, GSM547679, GSM547680, GSM547681, GSM547682, GSM547683, GSM547684, GSM547685, GSM547686, GSM547687, GSM547688, GSM547689, GSM547690, GSM547691, GSM547692, GSM547693, GSM547694
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| Series (5)
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| GSE14875 |
Fast Growth Increases the Selective Advantage of a Mutation Arising Recurrently during Evolution under Metal Limitation |
| GSE15631 |
Formaldehyde stress response in Methylobacterium extorquens AM1 |
| GSE20365 |
Ethylamine versus succinate cells of Methylobacterium extorquens |
| GSE22031 |
Transition from succinate to methanol growth in Methylobacterium Extorquens AM1 |
| GSE34662 |
Engineered Methylobacterium methanol |
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| Data table header descriptions |
| ID |
|
| ProbeName |
Probe names: either RMQ number or controls; RMQ numbers (from ERGO annotation) identify genes and unknown orfs |
| Start |
Start site of probes on orfs |
| SEQUENCE |
Probe sequences |
| GeneName |
Gene names of higher certainty |
| Description |
Known and putative gene names and descriptions |
| ORF |
gene name |
| SPOT_ID |
spot identifier (eg, control) |
| Data table |
| ID |
ProbeName |
Start |
SEQUENCE |
GeneName |
Description |
ORF |
SPOT_ID |
| 1 |
BrightCorner |
0 |
|
BrightCorner |
BrightCorner |
|
--BrightCorner |
| 2 |
3xSLv1 |
0 |
|
3xSLv1 |
3xSLv1 |
|
--CONTROL |
| 3 |
RMQ10099_239d |
239 |
CTCCGACCATGACCTTCTTCGGCCAACGCCTTCCTCCAGCGGTGTCGGCGGAGACCGGAG |
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Contig1561_23598_23059_49.63_540_90.29_-6.5_0__ |
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| 4 |
RMQ07238_1050e |
1050 |
GCCGCCCGCCACCGCTGCGAAAAACTCGCTGTTCGATCCCTCCGCCTTCCGGCTCAGGAG |
meaF |
Contig1323_8886_10001 meaF_96.68_1116_91.82_-3.1_0__OVERLAP |
meaF |
|
| 5 |
RMQ09989_129 |
129 |
GCTCGTGCGCCGTTCATCGGAGCCAGGGGGTGGGGGCAAATCCCTGACCCCCACGAATAC |
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Contig1501_5211_4912_52.67_300_91.05_-10.6_0__ |
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| 6 |
RMQ09826_101d |
101 |
GGAGTGCCCTAAAAGGCGCAACCGGAGCCGCTCCCGAGGTGATGGTTGGCCTCGGAGGCA |
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Contig1553_7765_7484_46.1_282_91.62_-11.5_0__ |
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| 7 |
RMQ08443_181 |
181 |
GTTCTGATCGCGCTCTCGGCTTTGCCGGGTCGTAGCGGGCTCCGAGGCTTAAGGGATCAT |
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Contig1389_1951_1709_86.42_243_88.79_-5.6_0__ |
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|
| 8 |
(+)Pro25G-02 |
0 |
|
(+)Pro25G-02 |
(+)Pro25G-02 |
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--CONTROL |
| 9 |
RMQ10695_61 |
61 |
CTCGTTGGCATGTCCTGCGATGCCCATGCTCAATCGGCGGCGACGCTAGAGGAGATCAGC |
|
Contig0592_325_873 Outer membrane receptor proteins, mostly Fe transport_16.39_549_88.46_-6.1_0__ |
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| 10 |
RMQ00946_101 |
101 |
AGTCCCGTGAGATGGAGGAGCGTTTCGAGGCGCGCCTGAAGCTCGCGGAACTGCCGCGCA |
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Contig1481_9600_9298 SSU ribosomal protein S14P_42.9_303_92.04_-8.9_0__ |
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| 11 |
RMQ10456_97d |
97 |
CGTCTGGATGAAAAACGATTTATTGCACAGTGTGCAAATTGTCCAGACTTCTCCATCGCC |
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Contig1568_3704_3952_50.6_249_81.17_-3.8_0__ |
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| 12 |
RMQ05554_1087cn |
1087 |
GAGAAGTTCGATCCGGTCGTGAACTGGGCCACCAAGGTCGACCTGGACAAGGGTTCCAAG |
mxaF-prime |
Contig1562_9692_11494 mxaF-prime, Methanol dehydrogenase large subunit homolog_61.9_1803_86.43_-4.8_1__ |
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| 13 |
RMQ07820_29d |
29 |
ATCTTTTTACAGGACGCGGCCGCATCGCGGGAACGGCAAAGGTTTCAGCCAAGTTAAGAC |
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Contig1557_11803_11675_44.96_129_85.86_-3.6_0__ |
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| 14 |
RMQ07815_401d |
401 |
CTGGCTTCGGCTTCGACCGGCTGATCGAGCGCATCGGCATCGAGCGCCGCGTCCACACCC |
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Contig1557_8878_9735 PROTEASE IV (EC 3.4.-.-)_50.12_858_92.43_-6.2_0__ |
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| 15 |
(+)Pro25G-02 |
0 |
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(+)Pro25G-02 |
(+)Pro25G-02 |
|
--CONTROL |
| 16 |
RMQ06364_601e |
601 |
TTCGTCACCACCGCCCAGGAATCAGCCTATGCCGTGGCCACCCAGGAGCCGGAGGTGCAC |
orfL1, orfA101 |
Contig1504_6250_5354 tr|O30804 Metal dependent hydrolase, OrfA101, OrfL1_70.23_897_91.58_-2.5_0__OVERLAP |
orfL1, orfA101 |
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| 17 |
RMQ08783_91d |
91 |
GACGTCGCCGTCGTCCTGATCCTGATGCTGACCGGCTTGGTGCACCTGCTCGGTGCAAGC |
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Contig1542_15364_15140_53.33_225_90.04_-7.2_0__ |
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| 18 |
RMQ01494_901 |
901 |
CGCATCACCGATGCGGACGACGAGAAGCCGGACGCGACCTCGTTCCTGCGCTCCCATCCG |
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Contig1509_9499_8366 Zinc metalloprotease (EC 3.4.24.-)_82.01_1134_91.17_-4.7_0__ |
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| 19 |
RMQ04655_364 |
364 |
GTGGGCAAGATGACGCGCATCCTCGATCTCGATTTCGCCAATCGTATCGCCTGGGTCGAG |
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Contig1167_3353_3976 (S)-2-hydroxy-acid oxidase chain D (EC 1.1.3.15)_62.98_624_86.63_-2.7_0__ |
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| 20 |
RMQ01472_691d |
691 |
GAGTTCATCATCCTGGCCAAGACCGGTGAGAGCGAAGTCTTCTGCGATCAGGCCTATCTC |
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Contig1539_5612_4224 EC-proS Prolyl-tRNA synthetase (EC 6.1.1.15)_51.84_1389_84.48_-1.3_0__ |
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Total number of rows: 10807
Table truncated, full table size 1611 Kbytes.
| Supplementary data files not provided |
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