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Platform GPL3598

Query DataSets for GPL3598

Status

Public on Mar 31, 2006

Title

CDMC_Drosophila_12k2

Technology type

spotted DNA/cDNA

Distribution

non-commercial

Organism

Drosophila melanogaster

Manufacturer

Canadian Drosophila Micoarray Centre

Manufacture protocol

The 12k2 arrays are printed on CMT-UltraGAPS substrates (Corning Inc, Acton, MA) using a SpotArray 72 microarrayer (Perkin Elmer, Boston, MA). There are 26812 spots and 836 blanks on each array in a 12 row by 4 column arrangement of blocks. Each block contains 560 spots and 16 blanks arrayed in a
24 row by 24 column grid. The blanks occupy positions 9 through 24 of the 24th row. The blocks are spaced at 4500 micron intervals and the spot-to-spot distance is
180 microns. The nominal spot diameter is 125 microns. Printing conditions and post-print treatments are as described earlier (Neal et al., 2003).

Support

glass

Coating

aminosilane

Description

The CDMC_Drosophila_12k2 platform is a primarily cDNA-based glass microarray.
The array features 10,844 Berkeley Drosophila Genome Project cDNAs, 231 NIH Testis cDNAs (Andrews et al., 2000) and 360 gene sequences that were amplified from genomic DNA. All of the features on the array are spotted in duplicate. This array is produced by the Canadian Drosophila Microarray Centre located at the University of Toronto. It is available for distribution to academic labs.

Web link

http://www.flyarrays.com

Contributor(s)

Westwood JT, Neal SJ, Lam M, Kasimer D, Razak Z, Mo K, Pei J, Li H

Submission date

Mar 27, 2006

Last update date

Jan 18, 2013

Contact name

Zak Razak

E-mail(s)

z.razak@utoronto.ca

Phone

905-569-4664

URL

http://www.flyarrays.com

Organization name

University of Toronto

Department

Zoology Department

Lab

Canadian Drosophila Microarray Centre

Street address

3359 Mississauga Road

City

Mississauga

State/province

ON

ZIP/Postal code

L5L 1C6

Country

Canada

Samples (48)

More...

GSM435987, GSM436078, GSM436079, GSM436080, GSM436083, GSM436084

Series (1)

Developmental time-course study of Drosophila melanogaster, D. sechellia, D. simulans, and D. sim x D.s sec hybrids

Data table header descriptions
ID
CDMC_ID	CDMC internal number to track individual amplifications.
Duplicate	Spots are printed in duplicate (a,b).
Block	Block, or sub-array, on the printed surface in which the feature appears.
Spot_Column	The column within the given block where the feature appears.
Spot_Row	The row within the given block where the feature appears.
Plate_Coordinate	Plate number (P) and alpha-numeric coordinate of the DNA in the printing source plate.
Clone	Clone identifier from the Berkeley Drosophila Genome Project, NIH Testis Library (bs), Incyte primer set, or gene-specific PCR amplicon (GS, KP).
ORF	The computed gene number (CG number) curated by FlyBase.
SPOT_ID	spot identifier
Flag	Flags are used to mark control sequences (W,X,Y,Z) and to designate problem clones (V).
FBan_Number	FlyBase annotation number.
CLONE_ID	FBgn_Number: FlyBase gene identifier.
Gene_Symbol	FlyBase gene symbol.
GENE	Entrez GENE ID
UniGene_ID	UniGene cluster identifier.
Chromosome	Chromosome.
Chromosome_Arm	Chromosome arm.
CytoBand	Polytene chromosome division.
Sequences_in_UniGene	Number of sequences found in the UniGene cluster.
7k_CDMC_Numbers	Spot identifier on the CDMC 7K2 array (GPL311).
12kv1_CDMC_Numbers	Spot identifier on the CDMC_Drosophila_12k1 array (GPL1467).

Data table

ID

CDMC_ID

Duplicate

Block

Spot_Column

Spot_Row

Plate_Coordinate

Clone

ORF

SPOT_ID

Flag

FBan_Number

CLONE_ID

Gene_Symbol

GENE

UniGene_ID

Chromosome

Chromosome_Arm

CytoBand

Sequences_in_UniGene

7k_CDMC_Numbers

12kv1_CDMC_Numbers

1

CDMC00012c

a

1

1

1

P01A12

GM01501

Galpha49B

Dm.13902

2

2R

49B8

149

CDMC00012

CDMC00012

2

CDMC00012c

b

1

2

1

P01A12

GM01501

Galpha49B

Dm.13902

2

2R

49B8

149

CDMC00012

CDMC00012

3

CDMC00024c

a

1

3

1

P01A24

LD02334

Cam

Dm.577

2

2R

48F1-48F6

90

CDMC00024

CDMC00024

4

CDMC00024c

b

1

4

1

P01A24

LD02334

Cam

Dm.577

2

2R

48F1-48F6

90

CDMC00024

CDMC00024

5

CDMC00108c

a

1

5

1

P01E12

LD05688

Tom

Dm.3033

3

3L

71A3

24

CDMC00108

CDMC00108

6

CDMC00108c

b

1

6

1

P01E12

LD05688

Tom

Dm.3033

3

3L

71A3

24

CDMC00108

CDMC00108

7

CDMC00120c

a

1

7

1

P01E24

LD06393

Dm.6959

3

3L

68C15

73

CDMC00120

CDMC00120

8

CDMC00120c

b

1

8

1

P01E24

LD06393

Dm.6959

3

3L

68C15

73

CDMC00120

CDMC00120

9

CDMC00204c

a

1

9

1

P01I12

Failed

--FAILED

Z

CDMC00204

10

CDMC00204c

b

1

10

1

P01I12

Failed

--FAILED

Z

CDMC00204

11

CDMC00216c

a

1

11

1

P01I24

LD14109

AP-1sigma

Dm.1305

3

3R

95D1

33

CDMC00216

CDMC00216

12

CDMC00216c

b

1

12

1

P01I24

LD14109

AP-1sigma

Dm.1305

3

3R

95D1

33

CDMC00216

CDMC00216

13

CDMC00300c

a

1

13

1

P01M12

LD18692

Dm.11215

2

2R

55D1

13

CDMC00300

CDMC00300

14

CDMC00300c

b

1

14

1

P01M12

LD18692

Dm.11215

2

2R

55D1

13

CDMC00300

CDMC00300

15

CDMC00312c

a

1

15

1

P01M24

LD19086

Fst

Dm.2456

3

3R

8.50E+03

46

CDMC00312

CDMC00312

16

CDMC00312c

b

1

16

1

P01M24

LD19086

Fst

Dm.2456

3

3R

8.50E+03

46

CDMC00312

CDMC00312

17

CDMC00396c

a

1

17

1

P02A12

LD05576

Dm.465

2

2L

37B13

7

CDMC00396

CDMC00396

18

CDMC00396c

b

1

18

1

P02A12

LD05576

Dm.465

2

2L

37B13

7

CDMC00396

CDMC00396

19

CDMC00408c

a

1

19

1

P02A24

LD05920

Dm.213

X

X

1.70E+07

13

CDMC00408

CDMC00408

20

CDMC00408c

b

1

20

1

P02A24

LD05920

Dm.213

X

X

1.70E+07

13

CDMC00408

CDMC00408

Total number of rows: 27648

Table truncated, full table size 2965 Kbytes.

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