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Platform GPL517

Query DataSets for GPL517

Status

Public on Dec 31, 2003

Title

Heidelberg FlyArray

Technology type

spotted DNA/cDNA

Distribution

non-commercial

Organism

Drosophila melanogaster

Description

cDNA Microarray from spotted PCR products containing 47,616 features from Drosophila melanogaster and various controls. Primer design was made with GenomePride software. Average length is 500 bp within exonic sequence.
Microarray construction
The 2nd round PCR-product was spotted in 3x SSC, 150mM NaPO4, 1.5M betaine onto QMT Amino slides (Quantifoil, Jena, Germany)
using a MicroGrid II arrayer (BioRobotics, Cambridge, UK) and SMP3 pins (TeleChem International Inc., Sunnyvale, USA).
Each PCR-product was spotted twice at different positions on the microarray. As controls, PCR-products of Arabidopsis cDNAs,
genomic Drosophila DNA and C. elegans cDNAs were spotted. The DNA was UV-crosslinked (250mJ/cm2) and baked for 4h at 80°C.
In total, the Heidelberg FlyArray contains 47,616 features, representing the 21,306 ORF-amplicons and 2,502 controls.

Web link

http://HDFlyArray.zmbh.uni-heidelberg.de/cgi-bin/gbrowse

Contributor(s)

Hild M, Beckmann B, Haas SA, Koch B, Solovyev V, Busold C, Fellenberg K, Boutros M, Vingron M, Sauer F, Hoheisel JD, Paro R

Submission date

Oct 02, 2003

Last update date

Oct 28, 2005

Contact name

Boris Beckmann

E-mail(s)

b.beckmann@dkfz.de

Phone

+49-6221-424679

Organization name

Deutsches Krebsforschungszentrum

Department

Funktionelle Genomanalyse

Street address

Im Neuenheimer Feld 580

City

Heidelberg

ZIP/Postal code

69121

Country

Germany

Samples (85)

More...

GSM10917, GSM10918, GSM10919, GSM10920, GSM10921, GSM10922

Series (3)

GSE695	Drosophila melanogaster transcriptome life cycle
GSE2551	underreplication
GSE3257	Time course microarray approach comparing the ectopic expression and loss-of-function of gcm to wildtype

Data table header descriptions
ID
Block	48 Blocks each with 31 columns and 32 rows
Column	The column number of a spot within a block.
Row	The row number of a spot within a block.
Mchips_ID	Mchips_ID for inhouse datawarehouse system.
HDFlyArray_ID	Internal ID for PCR product on the Heidelberg FlyArray.
CLONE_ID	CLONE_ID for genes matching Flybase 3.1.
Primerseq_rev	The sequence for the reverse primer that is used in the PCR reaction to amplify a gene fragment.
Primerseq_fwd	The sequence for the forward primer that is used in the PCR reaction to amplify a gene fragment.
QC_PCR2	Quality control of PCR2 used for spotting. '+' means successs, 'db' means double band, '-' and Blank means no success.
QC_PCR2_repeat_1	Quality control of 1st repeat of PCR2 used for spotting. '+' means successs, 'db' means double band, '-' and Blank means no success.
QC_PCR2_repeat_2	Quality control of repeat of 1st repeat PCR2 used for spotting. '+' means successs, 'db' means double band, '-' and Blank means no success.

Data table
ID	Block	Column	Row	Mchips_ID	HDFlyArray_ID	CLONE_ID	Primerseq_rev	Primerseq_fwd	QC_PCR2	QC_PCR2_repeat_1	QC_PCR2_repeat_2
1	1	1	1	01_61_03_12	Landmark
2	1	2	1	01_61_05_12	spotting_sol
3	1	3	1	01_61_07_12	spotting_sol
4	1	4	1	01_61_09_12	spotting_sol
5	1	5	1	01_61_11_12	dro_genom_DNA
6	1	6	1	01_61_13_12	dro_genom_DNA
7	1	7	1	01_61_15_12	dro_genom_DNA
8	1	8	1	01_61_01_24	dro_genom_DNA
9	1	9	1	01_61_03_24	spotting_sol
10	1	10	1	01_61_05_24	spotting_sol
11	1	11	1	01_61_07_24	spotting_sol
12	1	12	1	01_61_09_24	EGFP
13	1	13	1	01_61_11_24	beta_gal
14	1	14	1	01_61_13_24	Gal4_AD
15	1	15	1	01_61_15_24	hrGFP
16	1	16	1	01_62_01_12	empty
17	1	17	1	01_62_03_12	empty
18	1	18	1	01_62_05_12	empty
19	1	19	1	01_62_07_12	empty
20	1	20	1	01_62_09_12	empty

Total number of rows: 47616

Table truncated, full table size 4453 Kbytes.

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Supplementary data files not provided