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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Nov 24, 2010 |
| Title |
Affymetrix human microbiota probiotic transcriptional platform |
| Technology type |
in situ oligonucleotide |
| Distribution |
custom-commercial |
| Organisms |
Bacteroides thetaiotaomicron; Streptococcus thermophilus; Lacticaseibacillus casei; Lactobacillus delbrueckii; Bifidobacterium animalis; Agathobacter rectalis; Bifidobacterium longum |
| Manufacturer |
Affymetrix |
| Manufacture protocol |
See manufacturer's website.
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| |
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| Description |
probiota520522F
Affymetrix high-density 25-basepair oligonucleotide array.
Multiple human gut bacteria and/or food supplements.
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| Contributor(s) |
Sonnenburg J, Sonnenburg E, Gordon J |
| Submission date |
Nov 05, 2010 |
| Last update date |
Nov 24, 2010 |
| Contact name |
Eric Charles Martens |
| E-mail(s) |
emartens@umich.edu
|
| Phone |
734-647-5800
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| Organization name |
University of Michigan Medical School
|
| Department |
Dept. of Microbiology and Immunology
|
| Street address |
1150 West Medical Center Drive
|
| City |
Ann Arbor |
| State/province |
MI |
| ZIP/Postal code |
48109 |
| Country |
USA |
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| Samples (12)
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GSM624065, GSM624066, GSM624067, GSM624068, GSM624069, GSM624070
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| Series (1) |
| GSE25415 |
Transcription analysis of wild-type and chuR Bacteroides thetaiotaomicron genes in the mouse cecum |
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| Data table header descriptions |
| ID |
|
| ORF |
Locus tag |
| PT_ACC |
Protein accession.version |
| ORGANISM |
Source bacterium |
| Description |
Sequence description or identifier |
| SPOT_ID |
Open reading frame designation from source bacterium or control |
| Data table |
| ID |
ORF |
PT_ACC |
ORGANISM |
Description |
SPOT_ID |
| AFFX-18SRNAMur/X00686_3_at |
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M. musculus GEN=18S rRNA DB_XREF=gb:X00686.1 NOTE=SIF corresponding to nucleotides 1321-1821 of gb:X00686.1 DEF=Mouse gene for 18S rRNA. |
AFFX-18SRNAMur/X00686_3 |
| AFFX-18SRNAMur/X00686_5_at |
|
|
|
M. musculus GEN=18S rRNA DB_XREF=gb:X00686.1 NOTE=SIF corresponding to nucleotides 27-612 of gb:X00686.1 DEF=Mouse gene for 18S rRNA. |
AFFX-18SRNAMur/X00686_5 |
| AFFX-18SRNAMur/X00686_M_at |
|
|
|
M. musculus GEN=18S rRNA DB_XREF=gb:X00686.1 NOTE=SIF corresponding to nucleotides 755-1227 of gb:X00686.1 DEF=Mouse gene for 18S rRNA. |
AFFX-18SRNAMur/X00686_M |
| AFFX-BioB-3_at |
|
|
|
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. |
AFFX-BioB-3 |
| AFFX-BioB-5_at |
|
|
|
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. |
AFFX-BioB-5 |
| AFFX-BioB-M_at |
|
|
|
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. |
AFFX-BioB-M |
| AFFX-BioC-3_at |
|
|
|
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. |
AFFX-BioC-3 |
| AFFX-BioC-5_at |
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|
|
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. |
AFFX-BioC-5 |
| AFFX-BioDn-3_at |
|
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|
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. |
AFFX-BioDn-3 |
| AFFX-BioDn-5_at |
|
|
|
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. |
AFFX-BioDn-5 |
| AFFX-CreX-3_at |
|
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|
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. |
AFFX-CreX-3 |
| AFFX-CreX-5_at |
|
|
|
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. |
AFFX-CreX-5 |
| AFFX-DapX-3_at |
|
|
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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. |
AFFX-DapX-3 |
| AFFX-DapX-5_at |
|
|
|
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. |
AFFX-DapX-5 |
| AFFX-DapX-M_at |
|
|
|
B. subtilis GEN=dapB, jojF DB_XREF=gb:L38424.1 NOTE=SIF corresponding to nucleotides 2020-2580 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. |
AFFX-DapX-M |
| AFFX-GapdhMur/M32599_3_at |
|
|
|
M. musculus GEN=gapd DB_XREF=gb:M32599.1 NOTE=SIF corresponding to nucleotides 841-1153 of gb:M32599.1 DEF=Mouse glyceraldehyde-3-phosphate dehydrogenase mRNA, complete cds. |
AFFX-GapdhMur/M32599_3 |
| AFFX-GapdhMur/M32599_5_at |
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|
|
M. musculus GEN=gapd DB_XREF=gb:M32599.1 NOTE=SIF corresponding to nucleotides 90-409 of gb:M32599.1 DEF=Mouse glyceraldehyde-3-phosphate dehydrogenase mRNA, complete cds. |
AFFX-GapdhMur/M32599_5 |
| AFFX-GapdhMur/M32599_M_at |
|
|
|
M. musculus GEN=gapd DB_XREF=gb:M32599.1 NOTE=SIF corresponding to nucleotides 458-812 of gb:M32599.1 DEF=Mouse glyceraldehyde-3-phosphate dehydrogenase mRNA, complete cds. |
AFFX-GapdhMur/M32599_M |
| AFFX-HXB2_3_at |
|
|
|
Human immunodeficiency virus GEN=HXB2 DB_XREF=gb:K03455.1 NOTE=SIF corresponding to nucleotides 2933-3275 of gb:K03455.1, not 100% identical DEF=Human immunodeficiency virus type 1 (HXB2), complete genome; HIV1 HTLV-III LAV reference genome. |
AFFX-HXB2_3 |
| AFFX-HXB2_5_at |
|
|
|
Human immunodeficiency virus GEN=HXB2 DB_XREF=gb:K03455.1 NOTE=SIF corresponding to nucleotides 2243-2585 of gb:K03455.1, not 100% identical DEF=Human immunodeficiency virus type 1 (HXB2), complete genome; HIV1 HTLV-III LAV reference genome. |
AFFX-HXB2_5 |
Total number of rows: 22993
Table truncated, full table size 1547 Kbytes.
| Supplementary file |
Size |
Download |
File type/resource |
| GPL11169_probiota520522F.cdf.gz |
6.9 Mb |
(ftp)(http) |
CDF |
| GPL11169_probiota520522F.gin.gz |
227.6 Kb |
(ftp)(http) |
GIN |
| GPL11169_probiota520522F.grc.gz |
7.9 Kb |
(ftp)(http) |
GRC |
| GPL11169_probiota520522F.psi.gz |
114.5 Kb |
(ftp)(http) |
PSI |
| GPL11169_probiota520522F.sif.gz |
5.3 Mb |
(ftp)(http) |
SIF |
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