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Status
Public on Mar 03, 2007
Title
Riken Thermus thermophilus HB8 4K mRNA array
Technology type
in situ oligonucleotide
Distribution
custom-commercial
Organism
Thermus thermophilus HB8 Manufacturer
Affymetrix
Manufacture protocol
Affymetrix custom array standard protocol. Please see http://www.affymetrix.com for more information.
Contributor(s)
Nakagawa N , Hatakeyama M , Masui R , Konagaya A , Yokoyama S , Kuramitsu S Submission date
Mar 01, 2007
Last update date
Mar 03, 2007
Contact name
Akeo Shinkai
E-mail(s)
ashinkai@spring8.or.jp Organization name
RIKEN Harima Institute
Street address
1-1-1, Kouto, Sayo
City
Hyogo
ZIP/Postal code
679-5148
Country
Japan
Samples (179)
GSM172532 , GSM172533 , GSM172534 , GSM172535 , GSM172536 , GSM172537
GSM172538 ,
GSM172539 ,
GSM172540 ,
GSM172541 ,
GSM172542 ,
GSM172543 ,
GSM172544 ,
GSM172545 ,
GSM172546 ,
GSM172547 ,
GSM172548 ,
GSM172549 ,
GSM172550 ,
GSM172551 ,
GSM172552 ,
GSM172553 ,
GSM172554 ,
GSM172555 ,
GSM172556 ,
GSM172557 ,
GSM172558 ,
GSM172559 ,
GSM172560 ,
GSM172561 ,
GSM172564 ,
GSM172565 ,
GSM172566 ,
GSM172567 ,
GSM172568 ,
GSM172570 ,
GSM172571 ,
GSM172572 ,
GSM172573 ,
GSM172574 ,
GSM172575 ,
GSM218190 ,
GSM218191 ,
GSM218192 ,
GSM218514 ,
GSM218515 ,
GSM218516 ,
GSM218517 ,
GSM218519 ,
GSM218520 ,
GSM218521 ,
GSM218522 ,
GSM261366 ,
GSM261559 ,
GSM261560 ,
GSM261561 ,
GSM261562 ,
GSM261563 ,
GSM261564 ,
GSM261565 ,
GSM261566 ,
GSM261567 ,
GSM261568 ,
GSM261569 ,
GSM261570 ,
GSM261571 ,
GSM261572 ,
GSM261574 ,
GSM261576 ,
GSM261577 ,
GSM261578 ,
GSM261579 ,
GSM261589 ,
GSM261594 ,
GSM261595 ,
GSM261600 ,
GSM261601 ,
GSM261608 ,
GSM261615 ,
GSM261616 ,
GSM261617 ,
GSM261618 ,
GSM261619 ,
GSM261636 ,
GSM261643 ,
GSM261644 ,
GSM261645 ,
GSM261995 ,
GSM261996 ,
GSM261997 ,
GSM296605 ,
GSM296606 ,
GSM296607 ,
GSM296610 ,
GSM296611 ,
GSM296614 ,
GSM312311 ,
GSM312312 ,
GSM312313 ,
GSM312314 ,
GSM312315 ,
GSM312316 ,
GSM312317 ,
GSM312318 ,
GSM312319 ,
GSM312320 ,
GSM312321 ,
GSM312322 ,
GSM315677 ,
GSM315678 ,
GSM315679 ,
GSM315680 ,
GSM315681 ,
GSM315682 ,
GSM315683 ,
GSM315684 ,
GSM424658 ,
GSM424659 ,
GSM424660 ,
GSM424662 ,
GSM424665 ,
GSM424666 ,
GSM424667 ,
GSM424668 ,
GSM424669 ,
GSM424670 ,
GSM424671 ,
GSM424672 ,
GSM424673 ,
GSM424674 ,
GSM424675 ,
GSM424676 ,
GSM424677 ,
GSM424678 ,
GSM424679 ,
GSM424680 ,
GSM424681 ,
GSM424682 ,
GSM424683 ,
GSM424684 ,
GSM556326 ,
GSM556327 ,
GSM556328 ,
GSM556329 ,
GSM556330 ,
GSM556331 ,
GSM556332 ,
GSM556333 ,
GSM556334 ,
GSM556335 ,
GSM556336 ,
GSM556337 ,
GSM566834 ,
GSM566835 ,
GSM566836 ,
GSM566837 ,
GSM566838 ,
GSM566839 ,
GSM566840 ,
GSM566841 ,
GSM566842 ,
GSM566843 ,
GSM566844 ,
GSM566845 ,
GSM840072 ,
GSM840073 ,
GSM840074 ,
GSM840075 ,
GSM840076 ,
GSM840077 ,
GSM1139455 ,
GSM1139456 ,
GSM1139457 ,
GSM1139458 ,
GSM1139459 ,
GSM1139460 ,
GSM1139461 ,
GSM1139462 ,
GSM1139463 Series (24)
GSE7165 Time course of the mRNA expression in wild-type Thermus thermophilus HB8 strain grown on a rich medium (labeling:ENZO)
GSE7166 Comparative expression analysis between CRP (TTHA1437) deletion mutant and wild-type of T. thermophilus HB8
GSE7175 SuperSeries for the study of expression analysis of the T. thermophilus CRP (TTHA1437)
GSE8780 Comparative expression analysis between sigE (TTHB211) deletion mutant and wild-type of T. thermophilus HB8
GSE8781 SuperSeries for the study of expression analysis of the T. thermophilus sigE (TTHB211)
GSE8795 mRNA expression in TTHA1939 deletion mutant of Thermus thermophilus HB8 strain grown on minimum medium
GSE10368 Time course of the mRNA expression in wild-type Thermus thermophilus HB8 strain grown on a rich medium.
GSE10369 Comparative expression analysis between SdrP (TTHA1359) deletion mutant and wild-type of T. thermophilus HB8
GSE10370 SuperSeries for the study of expression analysis of the SdrP (TTHA1359) in T. thermophilus HB8
GSE10371 Comparative expression analysis between TTHB212 deletion mutant and wild-type of T. thermophilus HB8
GSE10548 SuperSeries for the study of expression analysis of the T. thermophilus sigE (TTHB211) and anti-sigE (TTHB212)
GSE11671 Comparative expression analysis between logarithmic and stationary phase of T. thermophilus HB8 on a synthetic medium
GSE12436 mRNA expression in ttcsp1 deletion mutant and wild type Thermus thermophilus HB8 strains grown on a rich medium
GSE12590 mRNA expression in TTHA0118 deletion mutant of Thermus thermophilus HB8 strain grown on minimum essential medium
GSE16954 Time course of the mRNA expression after bacteriophage ϕYS40 infection in wild-type Thermus thermophilus HB8 strain.
GSE16955 Time course of the mRNA expression after phage ϕYS40 infection in crp deletion mutant of Thermus thermophilus HB8.
GSE16978 Time course of bacteriophage ϕYS40 infection in wild-type and crp deletion Thermus thermophilus HB8 strain
GSE22348 mRNA expression in mutL deletion mutant of Thermus thermophilus HB8
GSE22349 mRNA expression in mutS2 deletion mutant of Thermus thermophilus HB8
GSE22350 mRNA expression in mutS deletion mutant of Thermus thermophilus HB8
GSE22567 Transcription profile of T. thermophilus HB8 strain lacking mutS, mutL, or mutS2 gene
GSE22962 mRNA expression in wild-type of Thermus thermophilus HB8 strain grown on a rich (TT) medium at 45˚C and 70˚C
GSE33985 Expression data from Thermus thermophilus HB8 wild type and TTHA1559 disrupted
GSE46868 Differential expression analysis of T. thermophilus HB8 wild-type strain in response to addition of silicic acid and removal of iron.
Data table header descriptions ID GeneChip Array name of the custum GeneChip array
ORGANISM source of gene
Probe_Pairs number of probe
ORF locus tag
Descriptions annotation of ORF
SPOT_ID spot identifier
Data table ID GeneChip Array ORGANISM Probe_Pairs ORF Descriptions SPOT_ID AFFX-BioB-5_at
TTHB8401a520105F
20
E. coli GEN=bioB DB_XREF=gb:J04423.1 NOTE=SIF corresponding to nucleotides 2032-2305 of gb:J04423.1 DEF=E.coli 7,8-diamino-pelargonic acid (bioA), biotin synthetase (bioB), 7-keto-8-amino-pelargonic acid synthetase (bioF), bioC protein, and dethiobiotin synthetase (bioD), complete cds.
E. coli
AFFX-BioB-M_at
TTHB8401a520105F
20
E. coli GEN=bioB DB_XREF=gb:J04423.1 NOTE=SIF corresponding to nucleotides 2482-2739 of gb:J04423.1 DEF=E.coli 7,8-diamino-pelargonic acid (bioA), biotin synthetase (bioB), 7-keto-8-amino-pelargonic acid synthetase (bioF), bioC protein, and dethiobiotin synthetase (bioD), complete cds.
E. coli
AFFX-BioB-3_at
TTHB8401a520105F
20
E. coli GEN=bioB DB_XREF=gb:J04423.1 NOTE=SIF corresponding to nucleotides 2755-3052 of gb:J04423.1 DEF=E.coli 7,8-diamino-pelargonic acid (bioA), biotin synthetase (bioB), 7-keto-8-amino-pelargonic acid synthetase (bioF), bioC protein, and dethiobiotin synthetase (bioD), complete cds.
E. coli
AFFX-BioC-5_at
TTHB8401a520105F
20
E. coli GEN=bioC DB_XREF=gb:J04423.1 NOTE=SIF corresponding to nucleotides 4218-4566 of gb:J04423.1 DEF=E.coli 7,8-diamino-pelargonic acid (bioA), biotin synthetase (bioB), 7-keto-8-amino-pelargonic acid synthetase (bioF), bioC protein, and dethiobiotin synthetase (bioD), complete cds.
E. coli
AFFX-BioC-3_at
TTHB8401a520105F
20
E. coli GEN=bioC DB_XREF=gb:J04423.1 NOTE=SIF corresponding to nucleotides 4626-4878 of gb:J04423.1 DEF=E.coli 7,8-diamino-pelargonic acid (bioA), biotin synthetase (bioB), 7-keto-8-amino-pelargonic acid synthetase (bioF), bioC protein, and dethiobiotin synthetase (bioD), complete cds.
E. coli
AFFX-BioDn-5_at
TTHB8401a520105F
20
E. coli GEN=bioD DB_XREF=gb:J04423.1 NOTE=SIF corresponding to nucleotides 4980-5256 of gb:J04423.1, not 100% identical DEF=E.coli 7,8-diamino-pelargonic acid (bioA), biotin synthetase (bioB), 7-keto-8-amino-pelargonic acid synthetase (bioF), bioC protein, and dethiobiotin synthetase (bioD), complete cds.
E. coli
AFFX-BioDn-3_at
TTHB8401a520105F
20
E. coli GEN=bioD DB_XREF=gb:J04423.1 NOTE=SIF corresponding to nucleotides 5286-5570 of gb:J04423.1, not 100% identical DEF=E.coli 7,8-diamino-pelargonic acid (bioA), biotin synthetase (bioB), 7-keto-8-amino-pelargonic acid synthetase (bioF), bioC protein, and dethiobiotin synthetase (bioD), complete cds.
E. coli
AFFX-CreX-5_at
TTHB8401a520105F
20
Bacteriophage P1 GEN=cre DB_XREF=gb:X03453.1 NOTE=SIF corresponding to nucleotides 513-1047 of gb:X03453.1 DEF=Bacteriophage P1 cre gene for recombinase protein.
Bacteriophage P1 GEN
AFFX-CreX-3_at
TTHB8401a520105F
20
Bacteriophage P1 GEN=cre DB_XREF=gb:X03453.1 NOTE=SIF corresponding to nucleotides 1089-1495 of gb:X03453.1 DEF=Bacteriophage P1 cre gene for recombinase protein.
Bacteriophage P1 GEN
AFFX-DapX-5_at
TTHB8401a520105F
20
B. subtilis GEN=dapB DB_XREF=gb:L38424.1 NOTE=SIF corresponding to nucleotides 1428-1926 of gb:L38424.1 DEF=Bacillus subtilis dihydropicolinate reductase (jojE) gene, complete cds; poly(A) polymerase (jojI) gene, complete cds; biotin acetyl-CoA-carboxylase ligase (birA) gene, complete cds; jojC, jojD, jojF, jojG, jojH genes, complete cds s.
B. subtilis
AFFX-DapX-M_at
TTHB8401a520105F
20
B. subtilis GEN=dapB, jojF DB_XREF=gb:L38424.1 NOTE=SIF corresponding to nucleotides 2020-2580 of gb:L38424.1, not 100% identical DEF=Bacillus subtilis dihydropicolinate reductase (jojE) gene, complete cds; poly(A) polymerase (jojI) gene, complete cds; biotin acetyl-CoA-carboxylase ligase (birA) gene, complete cds; jojC, jojD, jojF, jojG, jojH genes, complete cds s.
B. subtilis
AFFX-DapX-3_at
TTHB8401a520105F
20
B. subtilis GEN=jojG DB_XREF=gb:L38424.1 NOTE=SIF corresponding to nucleotides 2684-3130 of gb:L38424.1 DEF=Bacillus subtilis dihydropicolinate reductase (jojE) gene, complete cds; poly(A) polymerase (jojI) gene, complete cds; biotin acetyl-CoA-carboxylase ligase (birA) gene, complete cds; jojC, jojD, jojF, jojG, jojH genes, complete cds s.
B. subtilis
AFFX-LysX-5_at
TTHB8401a520105F
20
B. subtilis GEN=lys DB_XREF=gb:X17013.1 NOTE=SIF corresponding to nucleotides 387-658 of gb:X17013.1, not 100% identical DEF=B subtilis lys gene for diaminopimelate decarboxylase (EC 4.1.1.20).
B. subtilis
AFFX-LysX-M_at
TTHB8401a520105F
20
B. subtilis GEN=lys DB_XREF=gb:X17013.1 NOTE=SIF corresponding to nucleotides 720-990 of gb:X17013.1, not 100% identical DEF=B subtilis lys gene for diaminopimelate decarboxylase (EC 4.1.1.20).
B. subtilis
AFFX-LysX-3_at
TTHB8401a520105F
20
B. subtilis GEN=lys DB_XREF=gb:X17013.1 NOTE=SIF corresponding to nucleotides 1061-1343 of gb:X17013.1, not 100% identical DEF=B subtilis lys gene for diaminopimelate decarboxylase (EC 4.1.1.20).
B. subtilis
AFFX-PheX-5_at
TTHB8401a520105F
20
B. subtilis GEN=pheA DB_XREF=gb:M24537.1 NOTE=SIF corresponding to nucleotides 2028-2375 of gb:M24537.1, not 100% identical DEF=Bacillus subtillis sporulation protein (spoOB), GTP-binding protein (obg), phenylalanine biosynthesis associated protein (pheB), and monofunctional prephenate dehydratase (pheA) genes, complete cds.
B. subtilis
AFFX-PheX-M_at
TTHB8401a520105F
20
B. subtilis GEN=pheA DB_XREF=gb:M24537.1 NOTE=SIF corresponding to nucleotides 2437-2828 of gb:M24537.1 DEF=Bacillus subtillis sporulation protein (spoOB), GTP-binding protein (obg), phenylalanine biosynthesis associated protein (pheB), and monofunctional prephenate dehydratase (pheA) genes, complete cds.
B. subtilis
AFFX-PheX-3_at
TTHB8401a520105F
20
B. subtilis GEN=pheB DB_XREF=gb:M24537.1 NOTE=SIF corresponding to nucleotides 2885-3326 of gb:M24537.1, not 100% identical DEF=Bacillus subtillis sporulation protein (spoOB), GTP-binding protein (obg), phenylalanine biosynthesis associated protein (pheB), and monofunctional prephenate dehydratase (pheA) genes, complete cds.
B. subtilis
AFFX-ThrX-5_at
TTHB8401a520105F
20
B. subtilis GEN=thrC DB_XREF=gb:X04603.1 NOTE=SIF corresponding to nucleotides 288-932 of gb:X04603.1 DEF=B. subtilis thrB and thrC genes for homoserine kinase and threonine synthase (EC 2.7.1.39 and EC 4.2.99.2, respectively).
B. subtilis
AFFX-ThrX-M_at
TTHB8401a520105F
20
B. subtilis GEN=thrC, thrB DB_XREF=gb:X04603.1 NOTE=SIF corresponding to nucleotides 995-1562 of gb:X04603.1, not 100% identical DEF=B. subtilis thrB and thrC genes for homoserine kinase and threonine synthase (EC 2.7.1.39 and EC 4.2.99.2, respectively).
B. subtilis
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