GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Platform GPL13705 Query DataSets for GPL13705
Status Public on Aug 01, 2011
Title Glomus intraradices EST expression array
Technology type in situ oligonucleotide
Distribution custom-commercial
Organism Rhizophagus intraradices
Manufacturer Roche NimbleGen
Manufacture protocol Propriety in situ oligonucleotide synthesis
Description This is a condensed platform of the full array which has probes designed from a robust set of non-redundant virtual transcripts (NRVT) (25,906, ~20Mb) transcribed in quiescent and germinated spores, extraradical mycelium (ERM) and symbiotic roots of Glomus intraradices produced by Sanger- and 454-sequencing. The G. intraradices EST expression array (4 x 72K) manufactured by Roche NimbleGen Systems Limited (Madison, WI) contained three independent, non identical, 60-mer probes per sequence. Included in the oligoarray were 22,402 G. intraradices non-redundant transcripts, 5785 random 60-mer control probes and labeling controls.
Contributor(s) Tisserant E, Kohler A, Martin F
Submission date Jun 09, 2011
Last update date Aug 01, 2011
Contact name Annegret Kohler
Phone +33 (0)383 394072
Organization name INRAE
Department UMR 1136
Lab Interactions Arbres/Micro-organismes
Street address Centre INRAE Grand Est Nancy
City Champenoux
ZIP/Postal code 54280
Country France
Samples (12) GSM739596, GSM739598, GSM739602, GSM739632, GSM739633, GSM739635 
Series (1)
GSE29866 The transcriptome of the arbuscular mycorrhizal fungus Glomus intraradices

Data table header descriptions
SEQ_ID Accession assigned by NimbleGen to transcript
BLOCK Probe replicates
SEQ_INFO Name of non-redundant virtual Glomus intraradices transcript
Blastx vs nr Highest scoring BlastX return using NCBI nr database
BlastX e-value E value of highest scoring Blast return
Probable contaminants non Glomus transcripts, probably derived from contaminants in EST libraries
SPOT_ID Accession assigned by NimbleGen to transcript

Data table
ID SEQ_ID BLOCK SEQ_INFO Blastx vs nr BlastX e-value Probable contaminants SPOT_ID
1 0_0_EXTA60742_b0 BLOCK1 0_0_EXTA60742.b0_CACE_CCHU_EXTA_EXTB_EXTC Hypothetical Protein 0_0_EXTA60742_b0
2 0_0_EXTA96989_b0 BLOCK1 0_0_EXTA96989.b0_CACE_CCHU_EXTA_EXTB_EXTC Hypothetical Protein with HMG Box domain 0_0_EXTA96989_b0
3 0_0_EXTB107028_b0 BLOCK1 0_0_EXTB107028.b0_CACE_CCHU_EXTA_EXTB_EXTC no homology found 0_0_EXTB107028_b0
4 0_0_EXTB111776_b0 BLOCK1 0_0_EXTB111776.b0_CACE_CCHU_EXTA_EXTB_EXTC no homology found 0_0_EXTB111776_b0
5 0_0_EXTB116594_b0 BLOCK1 0_0_EXTB116594.b0_CACE_CCHU_EXTA_EXTB_EXTC Hypothetical Protein 0_0_EXTB116594_b0
6 0_0_EXTB129093_b0 BLOCK1 0_0_EXTB129093.b0_CACE_CCHU_EXTA_EXTB_EXTC bZIP protein 0_0_EXTB129093_b0
7 0_0_EXTB36870_b0 BLOCK1 0_0_EXTB36870.b0_CACE_CCHU_EXTA_EXTB_EXTC hypothetical protein 0_0_EXTB36870_b0
8 0_0_EXTB41695_b0 BLOCK1 0_0_EXTB41695.b0_CACE_CCHU_EXTA_EXTB_EXTC putative cytoskeleton assembly control protein Sla2 0_0_EXTB41695_b0
9 0_0_EXTB45823_b0 BLOCK1 0_0_EXTB45823.b0_CACE_CCHU_EXTA_EXTB_EXTC SNF2-family ATP dependent chromatin remodeling factor 0_0_EXTB45823_b0
10 0_0_EXTB48479_b0 BLOCK1 0_0_EXTB48479.b0_CACE_CCHU_EXTA_EXTB_EXTC hypothetical Protein 0_0_EXTB48479_b0
11 0_0_EXTB55429_b0 BLOCK1 0_0_EXTB55429.b0_CACE_CCHU_EXTA_EXTB_EXTC Hypothetical protein 0_0_EXTB55429_b0
12 0_0_EXTB59980_b0 BLOCK1 0_0_EXTB59980.b0_CACE_CCHU_EXTA_EXTB_EXTC hypothetical protein similar to myosin 0_0_EXTB59980_b0
13 0_0_EXTB80270_b0 BLOCK1 0_0_EXTB80270.b0_CACE_CCHU_EXTA_EXTB_EXTC Hypothetical Protein 0_0_EXTB80270_b0
14 0_0_EXTB88147_b0 BLOCK1 0_0_EXTB88147.b0_CACE_CCHU_EXTA_EXTB_EXTC Hypothetical Protein similar to transcriptional regulator AsnC 0_0_EXTB88147_b0
15 0_0_EXTB9609_b0 BLOCK1 0_0_EXTB9609.b0_CACE_CCHU_EXTA_EXTB_EXTC Hypothetical Protein with domain 0_0_EXTB9609_b0
16 0_0_EXTB96111_b0 BLOCK1 0_0_EXTB96111.b0_CACE_CCHU_EXTA_EXTB_EXTC Hypothetical Protein 0_0_EXTB96111_b0
17 0_0_EXTC1860_b0 BLOCK1 0_0_EXTC1860.b0_CACE_CCHU_EXTA_EXTB_EXTC vacuolar endopolyphosphatase, putative 0_0_EXTC1860_b0
18 10562_1 BLOCK1 10562_1_CACE_CCHU_EXTA_EXTB_EXTC fatty acid transporter, ATP-binding cassette, sub-family D (ALD) 10562_1
19 10658_1 BLOCK1 10658_1_CACE_CCHU_EXTA_EXTB_EXTC GiHMG9. HMG box containing protein 10658_1
20 10855_1 BLOCK1 10855_1_CACE_CCHU_EXTA_EXTB_EXTC no homology found 10855_1

Total number of rows: 22404

Table truncated, full table size 2347 Kbytes.

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

Supplementary file Size Download File type/resource
GPL13705_090319_G_intraradices_EST_expr.ndf.gz 4.2 Mb (ftp)(http) NDF
GPL13705_090319_G_intraradices_EST_expr.ngd.gz 157.5 Kb (ftp)(http) NGD

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap