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Status
Public on Jun 03, 2019
Title
NimbleGen GeoChip v.4.2 [110613_GeoChip_JV_Exp_new]
Technology type
in situ oligonucleotide
Distribution
custom-commercial
Organisms
Bacteria ; Archaea ; Eukaryota ; Viruses Manufacturer
NimbleGen
Manufacture protocol
see manufacturer's web site www.nimblegen.com
Description
Annotation based on DNA sequences in NCBI, see details in the design table The sequences and probe information on the design file (.ndf) is patent protected and thus, is removed from this submission
Submission date
Mar 27, 2017
Last update date
Jun 03, 2019
Contact name
Jizhong Zhou
E-mail(s)
jzhou@ou.edu Phone
(405) 325-6094
Organization name
University of Oklahoma
Department
Department of Microbiology and Plant Biology
Lab
Institute for Environmental Genomics
Street address
101 David L Boren Blvd
City
Norman
State/province
OK
ZIP/Postal code
73019
Country
USA
Samples (107)
GSM2551731 , GSM2551732 , GSM2551733 , GSM2551734 , GSM2551735 , GSM2551736
GSM2551737 ,
GSM2551738 ,
GSM2551739 ,
GSM2551740 ,
GSM2551741 ,
GSM2551742 ,
GSM2551743 ,
GSM2551744 ,
GSM2551745 ,
GSM2551746 ,
GSM2551747 ,
GSM2551748 ,
GSM2551749 ,
GSM2551750 ,
GSM2551751 ,
GSM2551752 ,
GSM2551753 ,
GSM2551754 ,
GSM2551755 ,
GSM2551756 ,
GSM2551757 ,
GSM2551758 ,
GSM2551759 ,
GSM2551760 ,
GSM2551761 ,
GSM2551762 ,
GSM2551763 ,
GSM2551764 ,
GSM2551765 ,
GSM2551766 ,
GSM2551767 ,
GSM2551768 ,
GSM2551769 ,
GSM2551770 ,
GSM2551771 ,
GSM2551772 ,
GSM2551773 ,
GSM2551774 ,
GSM2551775 ,
GSM2551776 ,
GSM2551777 ,
GSM2551778 ,
GSM2551779 ,
GSM2551780 ,
GSM2551781 ,
GSM2551782 ,
GSM2551783 ,
GSM2551784 ,
GSM2551785 ,
GSM2551786 ,
GSM2551787 ,
GSM2551788 ,
GSM2551789 ,
GSM2551790 ,
GSM2551791 ,
GSM2551792 ,
GSM2551793 ,
GSM2551794 ,
GSM2551795 ,
GSM2551796 ,
GSM2551797 ,
GSM2551798 ,
GSM2551799 ,
GSM2551800 ,
GSM2551801 ,
GSM2551802 ,
GSM2551803 ,
GSM2551804 ,
GSM2551805 ,
GSM2551806 ,
GSM2551807 ,
GSM2551808 ,
GSM2551809 ,
GSM2551810 ,
GSM2551811 ,
GSM2551812 ,
GSM2551813 ,
GSM2551814 ,
GSM2551815 ,
GSM2551816 ,
GSM2551817 ,
GSM2551818 ,
GSM2551819 ,
GSM2551820 ,
GSM2551821 ,
GSM2551822 ,
GSM2551823 ,
GSM2551824 ,
GSM2551825 ,
GSM2551826 ,
GSM2551827 ,
GSM2551828 ,
GSM2551829 ,
GSM2551830 ,
GSM2551831 ,
GSM2551832 ,
GSM2551833 ,
GSM2551834 ,
GSM2551835 ,
GSM2551836 ,
GSM2551837 Series (1)
GSE97107 Functional gene abundance of tundra soil microbial communities sampled at the EML Thaw Gradient site, AK in May 2004
Data table header descriptions ID GenBank GI of protein
SPOT_ID Name/symbol of gene detected
Gene.category Categories according to gene function
Sub.category1 Coarse division of gene categories
Sub.category2 Fine division of gene categories
Lineage Phylogenetic information of organism
Data table ID SPOT_ID Gene.category Sub.category1 Sub.category2 Lineage 260614748
GroES
Stress
Heat shock
superkingdom:Bacteria;phylum:Proteobacteria;class:Gammaproteobacteria;order:Vibrionales;family:Vibrionaceae;genus:Vibrio;species:Vibrio furnissii;
193225032
CopA
Metal Resistance
Copper
superkingdom:Bacteria;phylum:Proteobacteria;class:Betaproteobacteria;order:Burkholderiales;family:Burkholderiaceae;genus:Cupriavidus;
88062454
dsrB
Sulphur
sulfite reductase
superkingdom:Bacteria;
149927332
iro
virulence
Iron oxidation
superkingdom:Bacteria;phylum:Proteobacteria;class:Betaproteobacteria;order:Burkholderiales;family:Burkholderiaceae;genus:Limnobacter;
302918152
cellobiase_fungi
Fungi function
carbon degradation
superkingdom:Eukaryota;kingdom:Fungi;phylum:Ascomycota;class:Sordariomycetes;order:Hypocreales;family:Nectriaceae;genus:Nectria;species:Nectria haematococca;
229861703
sigma_24
Stress
Sigma factors
superkingdom:Bacteria;phylum:Actinobacteria;class:Actinobacteria;order:Actinomycetales;family:Glycomycetaceae;genus:Stackebrandtia;species:Stackebrandtia nassauensis;
116748148
pstB
Stress
Phosphate limitation
superkingdom:Bacteria;phylum:Proteobacteria;class:Deltaproteobacteria;order:Syntrophobacterales;family:Syntrophobacteraceae;genus:Syntrophobacter;species:Syntrophobacter fumaroxidans;
227496573
ahpC
Stress
Oxygen stress
superkingdom:Bacteria;phylum:Actinobacteria;class:Actinobacteria;order:Actinomycetales;family:Actinomycetaceae;genus:Actinomyces;species:Actinomyces urogenitalis;
269211903
pcc
Carbon cycling
Carbon fixation
superkingdom:Bacteria;phylum:Actinobacteria;class:Actinobacteria;order:Actinomycetales;family:Actinomycetaceae;genus:Actinomyces;species:Actinomyces sp. oral taxon 848;
84043129
pcaG
Organic Remediation
Aromatics
Other aromatics
superkingdom:Bacteria;
116256194
B_lactamase_C
Antibiotic resistance
Beta-lactamases
superkingdom:Bacteria;phylum:Proteobacteria;class:Gammaproteobacteria;order:Enterobacteriales;family:Enterobacteriaceae;genus:Escherichia;
33867146
CadA
Metal Resistance
Cadmium
superkingdom:Bacteria;phylum:Actinobacteria;class:Actinobacteria;order:Actinomycetales;family:Nocardiaceae;genus:Rhodococcus;
189218408
pstC
Stress
Phosphate limitation
superkingdom:Bacteria;phylum:Verrucomicrobia;order:Methylacidiphilales;family:Methylacidiphilaceae;genus:Methylacidiphilum;species:Methylacidiphilum infernorum;
115259785
ALN
Organic Remediation
Others
superkingdom:Bacteria;phylum:Proteobacteria;class:Alphaproteobacteria;order:Rhizobiales;family:Rhizobiaceae;genus:Rhizobium;species:Rhizobium leguminosarum;
121707184
phytase_fungi
Fungi function
phosphorous
superkingdom:Eukaryota;kingdom:Fungi;phylum:Ascomycota;class:Eurotiomycetes;order:Eurotiales;family:Trichocomaceae;genus:Aspergillus;species:Aspergillus clavatus;
15964325
cap
virulence
capsule
superkingdom:Bacteria;phylum:Proteobacteria;class:Alphaproteobacteria;order:Rhizobiales;family:Rhizobiaceae;genus:Sinorhizobium;species:Sinorhizobium meliloti;
15840078
pimF
Organic Remediation
Aromatics
Aromatic carboxylic acid
superkingdom:Bacteria;phylum:Actinobacteria;class:Actinobacteria;order:Actinomycetales;family:Mycobacteriaceae;genus:Mycobacterium;species:Mycobacterium tuberculosis;
183983051
B_lactamase_A
Antibiotic resistance
Beta-lactamases
superkingdom:Bacteria;phylum:Actinobacteria;class:Actinobacteria;order:Actinomycetales;family:Mycobacteriaceae;genus:Mycobacterium;species:Mycobacterium marinum;
154275098
mdlC
Organic Remediation
Aromatics
Aromatic carboxylic acid
superkingdom:Eukaryota;kingdom:Fungi;phylum:Ascomycota;class:Eurotiomycetes;order:Onygenales;family:Ajellomycetaceae;genus:Ajellomyces;species:Ajellomyces capsulatus;
149912898
grpE
Stress
Heat shock
superkingdom:Bacteria;phylum:Proteobacteria;class:Alphaproteobacteria;order:Rhodobacterales;family:Rhodobacteraceae;genus:Roseobacter;
46455 8536 Kbytes .Supplementary file Size Download File type/resource GPL23230_110613_GeoChip_JV_Exp_new_noseq.ndf.gz
982.1 Kb
(ftp) (http) NDF
GPL23230_GeoChip4.2_columns.txt.gz
2.3 Mb
(ftp) (http) TXT
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