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Sample GSM22756

Query DataSets for GSM22756

Status

Public on May 21, 2004

Title

A chip: time 15 day Replicate 1

Sample type

RNA

Channel 1

Source name

Cornea burn eyes, 15 day Replicate 1

Organism

Extracted molecule

total RNA

Channel 2

Source name

Matched control, non burn eyes

Organism

Extracted molecule

total RNA

Description

Examine the effect of stimulation stress produced by chemical burn to the mice cornea in the lacrimal gland over a time course (0.5 - 360 hours) in comparison with the non-stimulated control animals.
Using silver nitrate applicator (silver nitrate 37.5 mg and potassium nitrate 12.5 mg, Graham-Field,Inc.,) do two burns per eye, each with a separate applicator.
For animals observed for more than 24 hours, eyes were then treted with gentamicin ointment to minimize infection.
Total RNA were extracted from both burn and control eyes and were covalently coupled separately with Cy5 and Cy3 monoreactive fluors. The Cy5 and Cy3 labelled RNA were hybridized to the microarray.
Fluorescent array images were collected for both Cy3 and Cy5 with ScanArray 4000XL and image intensity data were extracted and analyzed with Imagene analysis software.
Keywords = Cornea burn

Submission date

May 11, 2004

Last update date

May 27, 2005

Contact name

Yuan Fang

E-mail(s)

[email protected]

Phone

503-494-1425

Fax

503-494-3929

Organization name

Oregon Health & Science University

Department

Ophthalmology, Casey Eye Institute

Lab

Cornea Division

Street address

3375 SW Terwilliger Blvd

City

Portland

State/province

OR

ZIP/Postal code

97239-4197

Country

USA

Platform ID

Series (1)

A time course microarray study of gene expression in the mouse lacrimal gland after acute corneal trauma.

Data table header descriptions
ID_REF	reference key to corresponding platform
VALUE	normalized ratio of the cy5 mean signal intensity/ cy3 mean signal intensity
Flag	Spot flagging schemas to help remove suspicious spots from consideration. Flag = 1: Bad spots, Flag = 0: good spots"
Cy5_Signal_Mean	Cy5 (F635) mean fluorescence intensity
Cy5_Background_Mean	Cy5 (F635) background mean fluorescence intensity
Cy3_Signal_Mean	Cy3 (F532) mean fluorescence intensity
Cy3_Background_Mean	Cy3 (F532) background mean fluorescence intensity
Cy5_Signal_Median	Cy5 (F635) median fluorescence intensity
Cy5_Background_Median	Cy5 (F635) background median fluorescence intensity
Cy3_Signal_Median	Cy3 (F532) median fluorescence intensity
Cy3_Background_Median	Cy3 (F532) background median fluorescence intensity

Data table
ID_REF	VALUE	Flag	Cy5_Signal_Mean	Cy5_Background_Mean	Cy3_Signal_Mean	Cy3_Background_Mean	Cy5_Signal_Median	Cy5_Background_Median	Cy3_Signal_Median	Cy3_Background_Median
1	-2.54E-01	0	64.8616	48.5683	71.9927	61.528	8	7	12	7
2	-3.22E-01	0	64.4099	55.4276	88.9114	93.9448	9	8	20	22.5
3	4.83E-01	0	255.184	46.53	194.443	59.9293	159	7	75	8
4	-2.90E-01	0	70.3424	52.3292	78.1603	57.5124	9	7	12	7
5	7.05E-02	0	520.138	59.2913	567.838	71.2427	393	8	452	14
6	-2.62E-01	0	53.2477	60.8123	61.725	67.178	8	7	10	9
7	-3.45E-01	0	61.6725	50.9964	77.2909	69.5216	9	7	11	11.5
8	-5.50E-01	0	46.9024	50.9706	52.6747	60.8758	6	6	7	9
9	-8.13E-02	0	256.424	35.7339	288.537	53.422	163	6	203	8
10	-6.25E-01	0	46.7887	52.5016	60.8871	45.3754	7	7	8	7
11	-5.55E-01	0	90.7832	44.2968	132.847	58.371	15	6	47	9
12	-4.06E-01	0	69.1093	40.4627	85.3843	37.9596	7	4	13	6
13	2.54E-01	0	114.474	49.8851	96.0055	34.9689	16	6	12	5
14	-8.12E-01	0	44.2671	39.47	48.7886	54.4826	7	6	7	7
15	-6.71E-01	0	45.6353	44.6889	66.1627	44.1111	7	6	9	8
16	4.21E-01	0	67.4098	47.1855	50.3097	43.5091	8	7	7	6
17	1.52E-01	0	150.8	55.9849	133.634	35.2111	39	8	32	6
18	-1.52E-01	0	202.82	33.3463	235.419	47.2085	93	6	113	7
19	-8.15E-01	0	45.4247	52.58	50.4914	56.356	6	7.5	6	7
20	-1.09E-01	0	52.2814	40.0185	52.8521	80.155	6	5	8	10

Total number of rows: 16928

Table truncated, full table size 1017 Kbytes.

Supplementary data files not provided

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