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Sample GSM22745

Query DataSets for GSM22745

Status

Public on May 21, 2004

Title

A chip: time 3 day Replicate 2

Sample type

RNA

Channel 1

Source name

Cornea burn eyes, 3 day Replicate 2

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	-3.57E-01	0	60.4444	38.8602	113.885	92.8012	8	7	29	21.5
2	NULL	0	72.6336	78.6586	156.091	122.631	10	13	72.5	49.5
3	NULL	0	164.157	34.4207	293.403	101.563	60	5	200	27
4	-3.59E-01	0	55.3916	42.7951	113.781	108.099	8	7	35	28
5	-6.29E-01	0	232.585	53.0986	667.528	114.418	142	8	488	42.5
6	-4.70E-01	0	55.459	44.5307	101.117	64.0129	8	7	23	9
7	-4.93E-01	0	47.6375	43.764	94.082	74.3851	7	6	16	11.5
8	-3.41E-01	0	43.2877	60.8627	76.3373	56.5163	7	7	12	9
9	-5.38E-01	0	213.588	58.4578	556.765	87.3012	121	9	435	21
10	-4.33E-01	0	46.1846	49.9862	85.2545	77.1384	7	7	16	9
11	-1.20E-01	0	120.02	37.0615	213.534	55.8447	25	6	112	8
12	1.36E-01	0	71.3469	50.1818	86.4634	43.2727	9	8	16	9
13	-2.74E-01	0	70.6812	29.2721	113	69.212	10	6	28	12
14	3.44E-01	0	51.2503	55.947	59.8434	60.1589	6	8	9	10
15	-1.52E-01	0	44.5274	43.2034	73.6164	61.4	7	6	12	11
16	1.50E-01	0	52.6175	35.8882	67.6375	57.9689	9	6	12	7
17	-2.68E-01	0	89.1737	40.2551	146.296	54.9184	13	7	47.5	8
18	1.21E-01	0	162.359	38.9223	261.204	62.2261	54	7	137	11
19	2.31E-01	0	49.4849	39.3362	65.0318	58.5022	8	6	9	11
20	-2.81E-01	0	41.483	32.817	77.3901	69.8758	7	6	13	14

Total number of rows: 16928

Table truncated, full table size 1012 Kbytes.

Supplementary data files not provided

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