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Platform GPL7100 Query DataSets for GPL7100
Status Public on Dec 10, 2008
Title Psychrobacter arcticus 273-4 whole genome oligonucleotide array
Technology type spotted oligonucleotide
Distribution non-commercial
Organism Psychrobacter arcticus 273-4
Manufacturer Operon Biotechnologies, Inc.
Manufacture protocol 70-mer oligonucleotide probes were designed and synthesized by Operon Biotechnologies, Inc. Probes were provided to Michigan State University in 96-well plate format. Probes were spotted onto Corning Ultra-GAPS II slides in a Genemachines Omnigrid Robot using 8 Telechem Chipmaker pins. Arrays were spotted in duplicate on slides and allowed to dry under controlled humidity. Probes were UV-crosslinked to slides Stratagene Stratalinker. Printed arrays were stored dessicated at room temperature for less than 3 months prior to use.
Support glass
Coating aminosilane
 
 
Contributor(s) Bergholz PW, Ponder MA, Landgraf J, Tiedje JM
Submission date Jul 26, 2008
Last update date Dec 10, 2008
Contact name Peter W Bergholz
E-mail(s) [email protected]
Organization name Michigan State University
Department Center for Microbial Ecology
Lab James M. Tiedje
Street address 540 Plant and Soil Sciences
City East Lansing
State/province MI
ZIP/Postal code 48824
Country USA
 
Samples (30) GSM315381, GSM315382, GSM315592, GSM315593, GSM315594, GSM318446 
Series (1)
GSE12871 Microarray Transcriptome Comparison Subzero Temperature and Optimal Temperature Growth in Psychrobacter arcticus 273-4

Data table header descriptions
ID
ORF Open Reading Frame number according to CP000082.1 version of genome; locus tag
BLOCK Printing pin block of spot within array
ROW Printing row of spot within block
COLUMN Printing column of spot within block
WELLID Internal reference for oligo position in 96 well storage plate
GB_RANGE ORF base pair position in P. arcticus genome sequence
PRODUCT Annotation of ORF
STRAND Strand of ORF within P. arcticus genome sequence
SEQUENCE Sequence of oligonucleotide probe
SPOT_ID spot identifier

Data table
ID ORF BLOCK ROW COLUMN WELLID GB_RANGE PRODUCT STRAND SEQUENCE SPOT_ID
PA0001 Psyc_0936 1 1 1 1A2 CP000082.1[1122572..1122952] probable transposase orfA + TAGTTTGGCTGAGAAAGCATGGTAAATTAGACTGGATTCACCCACCTAAGAGCCAGCGTATGCCACATAA
PA0002 Psyc_1468 1 1 2 1A4 CP000082.1[1783417..1785900] probable penicillin-binding protein transpeptidase domain + ATTCTCCCATTACGGTCAGTCTAAGTGACGGTACCGAGTGGAATCCTAAAAACTATGACAATCGTGACCA
PA0003 Psyc_0739 1 1 3 1A6 CP000082.1[881704..883416] conserved hypothetical protein + GAAAGCGGGTGGCACCGTTCGCGTGAACAGCCCCGTGCAATCAGTTATTCGCGAAGATAACAAGGTCATA
PA0004 Psyc_0591 1 1 4 1A8 CP000082.1[705035..705583] NADH dehydrogenase I, subunit I + AGACGGACGCTGGTATCCAGAGTTCTTTCGAATCAACTTTTCACGTTGTATTTTTTGTGGATTGTGTGAA
PA0005 Psyc_1168 1 1 5 1A10 CP000082.1[1395400..1397094] probable medium chain acyl-CoA ligase (AMP binding domain) - AAAGAAATGGCAACACGAGGCCGCAAGTTTAACGGTCTTAAGTTGTCAGTAGGTGGCTCCAAATTAAACG
PA0006 Psyc_0659 1 1 6 1A12 CP000082.1[781860..782537] probable methionyl-tRNA formyltransferase + TTCATATGACTGATGTTCCTTATGGCCGAGGTGGCTCGCCACTACAAAATCTTATAGTTCGCGGTCATAA
PA0007 Psyc_0437 1 1 7 1A14 CP000082.1[548132..548662] hypothetical protein - GAGACGTCTGAACGTAGCTTTTGGTTCAATCGAATCTGCCGCCAAAGTGTCGATTATGTGATTGTCGATG
PA0008 Psyc_0681 1 1 8 1A16 CP000082.1[809438..810259] hypothetical protein + CCAGTAGCTTTGATGCGGCATACCCAAATGAGCTAAAATCGCGTTCAGCCAGTAATACTCAGTCGCTACT
PA0009 Psyc_1260 1 1 9 1A18 CP000082.1[1516085..1518028] putative sigma-70 factor (RpoD) + TCGCCGTGGTCGTATGCCGCGCGAAGAGTTCCGTAAGACTTTCCCAAGTAATGAAACCAACGTTGATTGG
PA0010 Psyc_0397 1 1 10 1A20 CP000082.1[499186..499533] hypothetical protein + GTGTTAACAGGCTGCCAGACAATGCCAAATACCTTGTCCAAAGTACCTAGTGTAATGACTATGAATAATC
PA0011 Psyc_1212 1 1 11 1A22 CP000082.1[1455014..1456096] dTDP-glucose 4,6-dehydratase + TGGGATCGAACTTACGGCTTACCAGTGGTAATTACCAATTGCTCTAATAACTACGGTCCTTATCATTTCC
PA0012 Psyc_1786 1 1 12 1A24 CP000082.1[2198362..2198751] hypothetical protein + TTGCCAAGCATTGAATCAAGAGTATGTCCGTATTAATAGCTACGTAAACGCTACCCGTAACGAGCAATCA
PA0013 Psyc_1928 1 1 13 1E2 CP000082.1[2376628..2377542] ABC phosphate transporter, inner membrane subunit PstA + ACGCCAAAGTGGAAGCTGATAAGCACAGTCACGCTTAAAGCGGCTAAAGCAGGTCTAACTACAGGGGTGC
PA0014 Psyc_1253 1 1 14 1E4 CP000082.1[1504345..1505637] probable TolB periplasmic receptor - GCTCTATCTTCTCCCCAGCATGGTCGCCTGATGGCAACCGTATTGCCTATGCGGTACAACGCGATAAATC
PA0015 Psyc_1266 1 1 15 1E6 CP000082.1[1524603..1524890] conserved hypothetical protein + ACAGTTATCAGGTCATAATGATACTTATAAAATTAAATTGCGCACGATAGGATATCGTCTGGTGTATACC
PA0016 Psyc_2030 1 1 16 1E8 CP000082.1[2498057..2498923] ATP synthase Fo, A subunit - TTTTCTGTCTTTATACTTATTCTTTTCTATAGTATCAAAGAAAAAGGTCTGGGCGGCTTTGTTGGCGAGC
PA0017 Psyc_1656 1 1 17 1E10 CP000082.1[2049196..2050008] putative outer membrane protein/scaffolding protein MipA - TAAGCTACCTTGGTAAAATCAGTAAGAACAAACTCACCGTCTATCCAAGCGTTGGCTTTGAATATCATGA
PA0018 Psyc_0919 1 1 18 1E12 CP000082.1[1100965..1102716] probable DNA mismatch repair enzyme + TATTTATGTGAATGGCAGATTGGTAAAAGAGGCGTTAATTAGCAATCAGCTGCGTCAAATGGCTCAAAGT
PA0019 Psyc_2093 1 2 1 1E14 CP000082.1[2575345..2576079] conserved hypothetical protein - GCATACGTTATTTAAAGTACCGGTACTTGCACAATTGTTGCATTGGATAGGTATGGTTCCTATTGATCGC
PA0020 Psyc_1615 1 2 2 1E16 CP000082.1[1995727..1996716] hypothetical protein - AAAGCCTACTTAAAGGATAAGCATAGCCAATCCGATAAGCCTTTGAGCAGTCATCGTAATACAAAACCAG

Total number of rows: 4896

Table truncated, full table size 705 Kbytes.




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