NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Platform GPL7072 Query DataSets for GPL7072
Status Public on Aug 25, 2008
Title JCVI PFGRC Staphylococcus aureus version 4 array
Technology type spotted oligonucleotide
Distribution non-commercial
Organism Staphylococcus aureus
Manufacturer JCVI PFGRC
Manufacture protocol Number of Grids - 96; Element Type - 70mer Oligonucleotide; Surface Coating - Epoxy; Oligonucleotides Designed - 4546; Replicate Oligo Printings - 4x; Controls - 500 Arabidopsis thaliana 70mers; 10 Arabidopsis thaliana amplicons.
Support glass
Coating other
 
Description This set includes 20224 elements on array in 96 grids.
This is the condensed template of replicated (4x) features of PFGRC/JCVI Staphylococcus aureus version 4 array.
For full template information please refer to: http://pfgrc.jcvi.org/index.php/microarray/array_description/staphylococcus_aureus/version4.html
 
Web link http://www.jcvi.org/
Submission date Jul 19, 2008
Last update date Aug 25, 2008
Contact name John E Gustafson, Arunachalam Muthaiyan
E-mail(s) jgustafs@nmsu.edu, amuthai@gmail.com
Phone 575-646-5660
Fax 575-646-5665
Organization name New Mexico State University
Department Department of Biology and Molecular Biology Program
Lab Staph lab
Street address PO Box 30001 Dept. 3AF
City Las Cruces
State/province NM
ZIP/Postal code 88003-8001
Country USA
 
Samples (12) GSM306855, GSM307131, GSM307132, GSM307133, GSM414108, GSM414109 
Series (2)
GSE12210 The Fusidic acid Stimulon of Staphylococcus aureus
GSE16479 Comparison of Clinical hVISA Parent and Laboratory-Derived VISA Mutants

Data table header descriptions
ID
Row Row
Column Column
Meta Row Meta Row
Meta Column Meta Column
Sub Row Sub Row
Sub Column Sub Column
ORF Locus_tag
Oligo ID Oligo ID
SEQUENCE Sequence
GC% GC%
Internal Repeat Score Internal Repeat Score
Self-Annealing Score Self-Annealing Score
Primary Strain Primary Strain
Common Name of Primary Target Common Name
Gene Symbol Gene Symbol
Strain MRSA252 Target map of strain MRSA252
Strain MSSA476 Target map of strain MSSA476
Strain Mu50 Target map of strain Mu50
Strain MW2 Target map of strain MW2
Strain N315 Target map of strain N315
Strain pLW043 Target map of plasmid pLW043
Strain COL Target map of strain COL
SPOT_ID

Data table
ID Row Column Meta Row Meta Column Sub Row Sub Column ORF Oligo ID SEQUENCE GC% Internal Repeat Score Self-Annealing Score Primary Strain Common Name of Primary Target Gene Symbol Strain MRSA252 Strain MSSA476 Strain Mu50 Strain MW2 Strain N315 Strain pLW043 Strain COL SPOT_ID
SAS0843 1 1 1 1 1 1 SAS0843 4SA00001_C_1 TATATTGACTGCGGGGACCCAACACAGAGAATTTCTAAAAGAAATTCTACAGGCAATGCACGTTTATGTT 38.57 30 106 MSSA476 hypothetical protein SAR0936::64::93.75::6.9E-8::+ SAS0843::70::100.0::9.8E-11::+ SAV0973::70::100.0::9.8E-11::+ MW0855::70::100.0::9.8E-11::+ SAS024::70::100.0::9.8E-11::+
SACOL0642 2 1 1 1 2 1 SACOL0642 4SA00001_K_13 CAATACTTATGTTTGAAAAGTGTTGAATTAGGTGTGGTTATTGTGATGATTTATTGTTTGAAAGTTGATG 28.57 34 65 COL hypothetical protein SACOL0642::70::100.0::8.9E-11::+
SAV2494 3 1 1 1 3 1 SAV2494 4SA00002_D_1 TATATGTAATCTTGATTCCAATTTTGACTATTTTAGCTAGTTTAATCAATTTAATTTGTGATATTAAAAA 18.57 33 113 Mu50 hypothetical protein SAS2381::70::97.14286::2.5E-10::+ SAV2494::70::100.0::3.9E-11::+ MW2414::70::97.14286::2.5E-10::+ SA2282::70::100.0::3.9E-11::+
SA1785 4 1 1 1 4 1 SA1785 4SA00002_L_13 ATTGAACTTGATGAAGCAGTAGGAATTATGGCAGGTCAAGTTATCTATAAATATGAGGAGGAACAAGGAA 35.71 30 88 N315 hypothetical protein SAR2074::69::95.652176::1.9E-9::+,SAR2031::69::95.652176::7.0E-9::- SAS0918::70::94.28571::2.9E-9::+ SAV0875::70::90.0::4.7E-8::+ SA1785::70::100.0::3.7E-11::+ SACOL0356::65::95.38461::8.6E-9::+
SAR2046 5 1 1 1 5 1 SAR2046 4SA00003_C_13 CGGAGACGTTAAATTTGTTATATCAATTAACTAACAAAAAACAACGTGTGAAAGTAGTGAAAGAAGTTGT 30 31 86 MRSA252 hypothetical phage protein SAR2046::70::100.0::3.2E-11::+,SAR2031::70::100.0::1.3E-10::-
SAV0269 6 1 1 1 6 1 SAV0269 4SA00004_K_1 CAATTCCAAATGATCATCGCCGTATCGACCTAGCTGTCACAAAAAACTTACCACGCTTTATTGATGTCTT 40 30 77 Mu50 ribose permease rbsD SAR0267::70::97.14286::1.5E-10::+ SAS0246::70::95.71428::3.7E-10::+ SAV0269::70::100.0::2.2E-11::+ MW0245::70::95.71428::3.7E-10::+ SA0259::70::100.0::2.2E-11::+ SACOL0254::70::95.71428::3.7E-10::+
SAV2271 7 1 1 1 7 1 SAV2271 4SA00004_D_13 AAACAATTTGAAATCGTGATAGAACCGATACAAACAGAACAATATCGTGAATTCACTATAAATGAATATC 28.57 31 90 Mu50 molybdopterin converting factor moaE SAR2355::70::98.57143::5.2E-11::+ SAS2161::70::98.57143::5.2E-11::+ SAV2271::70::100.0::2.0E-11::+ MW2189::70::98.57143::5.2E-11::+ SA2066::70::100.0::2.0E-11::+ SACOL2264::70::98.57143::5.2E-11::+
SAS1531 8 1 1 1 8 1 SAS1531 4SA00005_L_1 CAGATGAATTTTATTTTTTACCTAGTTTTATGTCTCCATTGAAAAAGCACAATAATTTTATAGATGTTCA 24.29 33 94 MSSA476 conserved hypothetical protein SAR1671::70::95.71428::2.6E-10::+ SAS1531::70::100.0::1.6E-11::+ SAV1594::70::100.0::1.6E-11::+ MW1545::70::100.0::1.6E-11::+ SA1422::70::100.0::1.6E-11::+ SACOL1650::70::95.71428::2.6E-10::+
SA0761 9 1 1 1 9 1 SA0761 4SA00006_C_1 ATTGTGGAATAAAGTCAATCCATCCTTCGCGCTAAAATTTAACCATAGTATAATAAATAATAGTAGTTAA 27.14 31 75 N315 hypothetical protein truncated-SA SA0761::70::100.0::1.5E-11::+
SAV1780 10 1 1 1 10 1 SAV1780 4SA00006_K_13 TATTCAGAAAACACTTATTTTTAGGGTTACTTGTGTCTAGTTTAGTTTTTGCATCATTACACGAATCTGA 30 31 84 Mu50 hypothetical protein SAS1703::70::95.71428::2.7E-10::+ SAV1780::70::100.0::1.4E-11::+ MW1720::70::95.71428::2.7E-10::+ SA1598::70::100.0::1.4E-11::+ SACOL1830::70::95.71428::2.7E-10::+
SAS2352 14 1 1 1 14 1 SAS2352 4SA00007_K_1 ATTAATCCCTTTAAAGATTACAATAGTATTATCCGTTATTCTTGAAACACTGTACTATTATCCATACATT 25.71 32 98 MSSA476 putative membrane protein SAR2548::70::97.14286::2.1E-10::+ SAS2352::70::100.0::2.6E-11::+ SAV2460::70::97.14286::2.1E-10::+ MW2384::70::100.0::2.6E-11::+ SA2249::70::97.14286::2.1E-10::+ SACOL2470::70::90.0::3.2E-8::+
SAV0869 15 1 1 1 15 1 SAV0869 4SA00007_D_13 AATTTCACGTTAGACAATAAACAATCGCTACTAATTCAAGGCTCATTTGGTACAGGTAAATCACACTTAT 32.86 30 75 Mu50 hypothetical protein SAV0869::70::100.0::3.1E-11::+
SACOL2276 16 1 1 1 16 1 SACOL2276 4SA00008_L_1 ATGTCATAAATCATGTAGATAACAACGCATTTTTTGATTATATAACTGCACTTGCTAAAAAAGTAAATTA 24.29 32 96 COL inosine-uridine preferring nucleoside hydrolase SAR2367::70::100.0::4.9E-11::+ SAS2173::70::100.0::4.9E-11::+ SAV2283::70::100.0::4.9E-11::+ MW2201::70::100.0::4.9E-11::+ SA2078::70::100.0::4.9E-11::+ SACOL2276::70::100.0::4.9E-11::+
SAV0999 17 1 1 1 17 1 SAV0999 4SA00009_C_1 CATAGTTTGTTTATTAATCCAATCACTCGAAAACTTCATACGTTCAATTTAGAGAAAAAACAAATAATGA 25.71 31 131 Mu50 similar to transcription factor SAR0967::70::95.71428::9.9E-10::+ SAS0869::70::95.71428::9.9E-10::+ SAV0999::70::100.0::5.3E-11::+ MW0881::70::95.71428::9.9E-10::+ SA0858::70::100.0::5.3E-11::+ SACOL1004::70::95.71428::9.9E-10::+
SACOL0705 18 1 1 1 18 1 SACOL0705 4SA00009_K_13 TTATTCATTATATTAACAATTAGTAAACAACTTACCATTTTAAATCTTGGTGAATCATTAGCTAAAGGTT 22.86 31 99 COL iron compound ABC transporter, permease protein SAR0658::70::98.57143::1.4E-10::+ SAS0613::70::100.0::5.4E-11::+ SAV0648::70::100.0::5.4E-11::+ MW0610::70::100.0::5.4E-11::+ SA0603::70::100.0::5.4E-11::+ SACOL0705::70::100.0::5.4E-11::+
SAV2512 19 1 1 1 19 1 SAV2512 4SA00010_D_1 ATAATTTCTTTAAACGTTTTAGCTTCTATGCAATTGCAATTCAATACTTTGTTGTACAATTTATCATTAC 24.29 33 106 Mu50 glucarate transporter SAR2589::70::98.57143::1.9E-10::+ SAS2397::70::98.57143::1.9E-10::+ SAV2512::70::100.0::7.2E-11::+ MW2431::70::98.57143::1.9E-10::+ SA2300::70::100.0::7.2E-11::+ SACOL2521::70::98.57143::1.9E-10::+
SAV0970 20 1 1 1 20 1 SAV0970 4SA00010_L_13 TATTGGTTATAGGTGCAGGGTATGTTTCATTAGAAGTTCTTGAAAATCTTTACGAACGTGGTTTACACCC 37.14 31 106 Mu50 coenzyme A disulfide reductase cdr SAR0933::70::97.14286::5.0E-10::+ SAS0840::70::97.14286::5.0E-10::+ SAV0970::70::100.0::7.4E-11::+ MW0852::70::97.14286::5.0E-10::+ SA0831::70::100.0::7.4E-11::+ SACOL0975::70::95.71428::1.3E-9::+
SACOL0643 21 1 1 1 21 1 SACOL0643 4SA00011_C_13 CAGTATTTGCATTAGGAACAGATTTAATTTATCAAAATAATATTTTTGGATTAAAAGATAAAGTAGACTG 22.86 32 129 COL conserved hypothetical protein SAS0555::70::100.0::7.8E-11::+ MW0551::70::100.0::7.8E-11::+ SACOL0643::70::100.0::7.8E-11::+
SAS2401 22 1 1 1 22 1 SAS2401 4SA00012_K_1 TCTACGTGAAGATGTGAATATGGTTCGTAAAATGCTCAGTGATTTTGGATTAAATGCAGATGAAGGTCGC 38.57 30 74 MSSA476 conserved hypothetical protein SAR2596::70::94.28571::4.2E-9::+ SAS2401::70::100.0::9.5E-11::+ SAV2516::70::94.28571::4.2E-9::+ MW2435::70::100.0::9.5E-11::+ SA2304::70::94.28571::4.2E-9::+ SACOL2527::70::94.28571::4.2E-9::+
SAV1757 23 1 1 1 23 1 SAV1757 4SA00012_D_13 TATGTTAATAACTCATTGACTAAAGATTTTCCAAGCAGTAATTCAGGTGTTGATATGAATGATTTTAATG 27.14 31 101 Mu50 Mrp protein mrp SAR1841::70::90.0::8.9E-8::+ SAV1758::70::100.0::1.2E-10::+,SAV1757::70::100.0::1.2E-10::+ SA1577::70::100.0::1.2E-10::+

Total number of rows: 4381

Table truncated, full table size 1327 Kbytes.




Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp

Supplementary data files not provided
| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap