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Platform GPL22278

Query DataSets for GPL22278

Status

Public on Aug 03, 2016

Title

SUCEST-FUN Sugarcane 44k v1.0 (probe name version)

Technology type

spotted oligonucleotide

Distribution

custom-commercial

Organism

Saccharum officinarum

Manufacturer

Agilent Technologies

Manufacture protocol

We labeled, hybridized, and washed the arrays according to Agilent's Two-Color Microarray-Based Gene Expression Analysis(Quick Amp labeling) Protocol (version 5.7, March 2008)

Support

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Description

CaneRegNet microarray (44k multiplex chip, agilent) was designed using an in-house developed method for empirical selection of best performing probes (60bp long oligomers) for each SAS (Sugarcane Assembled Sequence - Pre Selection Strategy based on gene function and categorization). Were designed two probes for each cluster SAS from SUCEST Project, one in the sense orientation and another one in the antisense orientation if available or one sense probe. The microarray contain 21902 oligo probes in sense and antisense orientation corresponding of a total of 14522 SAS.

The ID column includes the Probe Names. A different version of this platform with a unique numeral id (for each 'spot' on the array) in the ID column is assigned accession number GPL14862.

Submission date

Aug 03, 2016

Last update date

Aug 03, 2016

Contact name

GEO admin

E-mail(s)

geo@ncbi.nlm.nih.gov

Organization name

NCBI/NLM/NIH

Street address

9000 Rockville Pike

City

Bethesda

State/province

ZIP/Postal code

20892

Country

USA

Samples (58)

More...

GSM2267694, GSM2267695, GSM2267696, GSM2267697, GSM2267698, GSM2267699

Series (3)

GSE85489	Ethephon- and AVG-induced transcriptional changes at the onset of sugarcane ripening
GSE171222	Microarrays of 4-month-old sugarcane collected in winter
GSE187416	Leaf transcriptome profiling of contrasting sugarcane genotypes for drought tolerance under field conditions

Data table header descriptions
ID	probe_name; unique identifier from Sucest-Fun Project - Oligo Accession Number
CLONE_ID	Name of EST Sequence
GB_ACC	GenBank Accession Number
SPOT_ID

Data table
ID	CLONE_ID	GB_ACC	SPOT_ID
GS1_AS_00002_16346	SCAGLR1043H05.g	CA116993.1
GS1_AS_00003_16889	SCBGLR1119G08.g	CA119262.1
GS1_AS_00007_14860	SCCCAD1001C08.g	CA064626.1
GS1_AS_00011_16790	SCCCAD1001D09.g	CA064636.1
GS1_AS_00016_00324	SCACST3158C10.g	CA180687.1
GS1_AS_00019_02016	SCCCAD1001F08.g	CA064654.1
GS1_AS_00021_01563	SCCCAD1001F12.g	CA064658.1
GS1_AS_00027_18007	SCCCAD1002D03.g	CA064707.1
GS1_AS_00030_01298	SCACRZ3035D09.g	CA155133.1
GS1_AS_00035_01670	SCCCAD1002G09.g	CA064744.1
GS1_AS_00044_00665	SCCCAD1003B07.g	CA064772.1
GS1_AS_00048_16361	SCAGCL6012C06.g	CA096259.1
GS1_AS_00050_15320	SCBFLR1083D11.g	CA117569.1
GS1_AS_00051_20569	SCCCAD1003D12.g
GS1_AS_00060_06372	SCCCAD1004B06.g	CA064844.1
GS1_AS_00061_18972	SCCCAD1004C01.g	CA064849.1
GS1_AS_00064_19602	SCCCAD1004D07.g	CA064866.1
GS1_AS_00069_01156	SCCCAD1004F05.g	CA064885.1
GS1_AS_00082_06510	SCRLFL1007B02.g	CA201131.1
GS1_AS_00084_18449	SCAGLR2011H05.g	CA127887.1

Total number of rows: 21959

Table truncated, full table size 1004 Kbytes.

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

Supplementary data files not provided