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Series GSE1105

Query DataSets for GSE1105

Status

Public on Mar 10, 2004

Title

Hindlimb unloading alters wound healing in ligaments

Organism

Rattus norvegicus

Experiment type

Expression profiling by array

Summary

A recent physiological study established that hindlimb unloading of rats at 3 and 7 weeks inhibits healing of injured ligaments, resulting in a badly aligned, discontinuous collagen matrix. Using tissue from these rats, we focused on the 3-week time point employing microarray analysis to identify what cellular processes or lack of processes could account for these observed deficiencies. We used the Afyymetrix RG_U34A GeneChip and performed image analysis with Microarray Suite 5.0. For normalization we used the MAS global normalization protocol with a default target mean signal of 500. Gene expression in medial collateral ligament tissue under 4 different treatment conditions was measured: loaded control, loaded wound healing, unloaded control, and unloaded wound healing. From our results, it appears that unloaded tissue lags behind loaded tissue in its progression through the healing process and at 3 weeks is still engaged in the proliferative phase, whereas loaded tissue is actively remodeling its collagen matrix.

Summary tables below: Affymetrix MAS comparative analysis data for the 1778 genes qualified for further analysis as a result of detection call values.
Keywords: other

Contributor(s)

Strasnick SL, Martinez DA, Manickam P, Grindeland RE, Wade CE

Citation missing

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Submission date

Mar 04, 2004

Last update date

Feb 21, 2017

Contact name

Steven Strasnick

E-mail(s)

sstrasnick@mail.arc.nasa.gov

Phone

650-604-1740

Fax

650-604-3954

URL

http://shahulid.biology.uh.edu/ctpl/index.html

Organization name

University of Houston

Department

Dept. of Biology and Biochemistry

Lab

Connective Tissue Physiology Laboratory

Street address

369 Science and Research Bldg. II

City

Houston

State/province

ZIP/Postal code

77204

Country

USA

Platforms (1)

GPL85

[RG_U34A] Affymetrix Rat Genome U34 Array

Samples (8)

More...

GSM18238	loaded control 1
GSM18239	loaded control 2
GSM18240	loaded healing 1

Relations

BioProject

PRJNA87209

loaded versus unloaded healing header descriptions
ID_REF
LH1UH1 SL	LH1 versus UH1 signal log ratio
LH1UH1 PV	LH1 versus UH1 change p-value
LH2UH2 SL	LH2 versus UH2 signal log ratio
LH2UH2 PV	LH2 versus UH2 change p-value
LH2UH1 SL	LH2 versus UH1 signal log ratio
LH2UH1 PV	LH2 versus UH1 change p-value
LH1UH2 SL	LH1 versus UH2 signal log ratio
LH1UH2 PV	LH1 versus UH2 change p-value

Data table
ID_REF	LH1UH1 SL	LH1UH1 PV	LH2UH2 SL	LH2UH2 PV	LH2UH1 SL	LH2UH1 PV	LH1UH2 SL	LH1UH2 PV
AA799389_g_at	-0.3	0.5	-0.5	0.5	-0.36	0.5	-0.35	0.839168
AA848218_at	0.76	0.134962	0.07	0.5	1.23	0.147517	-0.29	0.5
AA944073_at	0.55	0.000382	0.32	0.16544	0.54	0.002517	0.28	0.433177
AB000491_at	0.27	0.028241	1.3	0.007929	0.77	0.003962	0.89	0.160832
AB000929_at	-0.32	0.5	-0.25	0.5	-0.06	0.5	-0.43	0.610447
AB002086_g_at	0.32	0.000841	0.32	0.041017	-0.1	0.5	0.69	0.00029
AB002169_at	-0.41	0.761321	-0.59	0.5	0.01	0.5	-0.86	0.860937
AB003357_at	0.4	0.274798	-0.35	0.5	0.4	0.174908	-0.33	0.326797
AB003515_at	0.1	0.024801	0.56	0.004188	0.54	0.000001	0.17	0.5
AB003726_at	-0.39	0.90472	0.16	0.16544	-0.39	0.71259	0.2	0.5
AB003991_at	-0.37	0.537245	0.01	0.35421	-0.56	0.581483	-0.03	0.12316
AB004277_at	-0.93	0.997483	-0.47	0.794676	-0.49	0.999846	-0.79	0.529811
AB006451_at	0.01	0.051889	1.09	0.006111	0.06	0.042689	0.78	0.06033
AB006607_at	-0.34	0.5	-0.18	0.5	-1.3	0.978282	1	0.06033
AB006802_at	0.02	0.5	-0.3	0.5	0.14	0.5	-0.24	0.5
AB006881mRNA_at	0.09	0.5	-0.28	0.5	-0.68	0.913877	0.17	0.5
AB009890_at	-0.74	0.997483	-0.31	0.537245	-0.88	0.998009	-0.2	0.5
AB010119_g_at	-0.49	0.829869	-0.26	0.5	-0.72	0.699711	0.03	0.5
AB010743_at	-0.35	0.856752	0.36	0.010207	-0.39	0.799953	0.5	0.020766
AB011544_at	-0.03	0.5	-1.31	0.927651	-1.04	0.5	-0.42	0.967929

Total number of rows: 1778

Table truncated, full table size 112 Kbytes.

loaded healing versus control header descriptions
ID_REF
LH1LC1 SL	LH1 versus LC1 signal log ratio
LH1LC1 PV	LH1 versus LC1 change p-value
LH2LC2 SL	LH2 versus LC2 signal log ratio
LH2LC2 PV	LH2 versus LC2 change p-value
LH2LC1 SL	LH2 versus LC1 signal log ratio
LH2LC1 PV	LH2 versus LC1 change p-value
LH1LC2 SL	LH1 versus LC2 signal log ratio
LH1LC2 PV	LH1 versus LC2 change p-value

Data table
ID_REF	LH1LC1 SL	LH1LC1 PV	LH2LC2 SL	LH2LC2 PV	LH2LC1 SL	LH2LC1 PV	LH1LC2 SL	LH1LC2 PV
AA799389_g_at	-0.06	0.5	-0.3	0.5	-0.13	0.5	-0.07	0.5
AA848218_at	0.24	0.5	0.23	0.5	0.7	0.411228	-0.04	0.5
AA944073_at	0.66	0.000009	0.75	0.000236	0.72	0.000357	0.75	0.000165
AB000491_at	1.29	0.001767	1.14	0.010725	1.55	0.000154	0.66	0.086123
AB000929_at	-0.17	0.5	0.04	0.44793	-0.14	0.5	-0.2	0.5
AB002086_g_at	0.54	0.009235	0.78	0.007152	0.08	0.455335	1.16	0.000107
AB002169_at	0.14	0.5	-0.13	0.5	0.2	0.5	-0.33	0.5
AB003357_at	-0.02	0.5	-0.24	0.544665	0.12	0.256407	-0.21	0.5
AB003515_at	0.85	0.000021	0.48	0.001767	1.25	0.000001	0	0.36119
AB003726_at	-0.34	0.848129	-0.5	0.5	-0.3	0.603256	-0.45	0.6176
AB003991_at	-1.19	0.999969	-0.48	0.907849	-0.77	0.999689	-0.54	0.63881
AB004277_at	-0.52	0.5	-0.29	0.794676	-0.14	0.679919	-0.51	0.686578
AB006451_at	0.31	0.134962	2.77	0.006111	0.46	0.143248	2.42	0.013035
AB006607_at	0.01	0.5	-1.01	0.5	-0.88	0.971759	-0.1	0.174908
AB006802_at	-0.03	0.5	-0.04	0.5	0.17	0.5	-0.18	0.5
AB006881mRNA_at	0.55	0.001017	0.02	0.477632	-0.05	0.250422	0.41	0.189741
AB009890_at	-0.68	0.996037	-0.31	0.5	-0.76	0.999809	-0.34	0.5
AB010119_g_at	-0.16	0.916778	-0.51	0.5	-0.45	0.71893	-0.25	0.5
AB010743_at	-0.24	0.829869	0.2	0.105134	-0.4	0.686578	0.15	0.425834
AB011544_at	-0.23	0.860937	-0.98	0.927651	-0.8	0.922359	-0.07	0.887899

Total number of rows: 1778

Table truncated, full table size 112 Kbytes.

unloaded healing versus control header descriptions
ID_REF
UH2UC1 SL	UH2 versus UC1 signal log ratio
UH2UC1 PV	UH2 versus UC1 change p-value
UH2UC2 SL	UH2 versus UC2 signal log ratio
UH2UC2 PV	UH2 versus UC2 change p-value
UH1UC1 SL	UH1 versus UC1 signal log ratio
UH1UC1 PV	UH1 versus UC1 change p-value
UH1UC2 SL	UH1 versus UC2 signal log ratio
UH1UC2 PV	UH1 versus UC2 change p-value

Data table
ID_REF	UH2UC1 SL	UH2UC1 PV	UH2UC2 SL	UH2UC2 PV	UH1UC1 SL	UH1UC1 PV	UH1UC2 SL	UH1UC2 PV
AA799389_g_at	0.35	0.64579	-0.13	0.880608	0	0.925041	-0.4	0.986965
AA848218_at	-0.21	0.659602	0.11	0.673203	-1.01	0.901514	-1.19	0.839168
AA944073_at	4.27	0.00005	4.44	0.000467	3.91	0.000408	4.15	0.00224
AB000491_at	1.8	0.221643	0.38	0.5	2.02	0.5	0.81	0.5
AB000929_at	0.23	0.5	-0.28	0.93967	0.16	0.5	-0.38	0.932662
AB002086_g_at	0.01	0.913877	-0.05	0.916778	0.35	0.5	0.61	0.5
AB002169_at	-0.2	0.998983	-0.46	0.99978	-0.86	0.999467	-0.96	0.999729
AB003357_at	-0.16	0.994506	-0.21	0.994506	-0.56	0.996037	-0.47	0.998526
AB003515_at	0.36	0.256407	0.86	0.127011	0.16	0.631784	0.75	0.5
AB003726_at	-0.74	0.999885	-1.41	0.999876	-0.37	0.989793	-0.6	0.995066
AB003991_at	-0.97	0.999667	-1.49	0.999765	-0.55	0.99776	-0.56	0.995066
AB004277_at	1.33	0.000896	1.8	0.000205	1.45	0.000467	1.97	0.000143
AB006451_at	0.94	0.5	-0.95	0.925041	2.17	0.5	-0.38	0.783877
AB006607_at	-0.56	0.937401	1.06	0.767078	0.78	0.5	2.36	0.418517
AB006802_at	-0.43	0.999835	-0.31	0.999971	-0.57	0.995576	-0.91	0.998233
AB006881mRNA_at	-0.11	0.825092	-0.5	0.994506	0.03	0.588772	-0.36	0.865038
AB009890_at	0.17	0.5	-0.16	0.5	0.69	0.156309	0.31	0.268596
AB010119_g_at	-0.52	0.925041	-0.02	0.834561	0.07	0.693175	0.2	0.5
AB010743_at	-0.11	0.990765	-0.33	0.998848	0.63	0.320081	0.37	0.5
AB011544_at	-0.66	0.997009	0.29	0.980151	-0.83	0.999921	-0.25	0.997625

Total number of rows: 1778

Table truncated, full table size 116 Kbytes.

Download family	Format
SOFT formatted family file(s)	SOFT
MINiML formatted family file(s)	MINiML
Series Matrix File(s)	TXT

Supplementary file	Size	Download	File type/resource
GSE1105_RAW.tar	14.3 Mb	(http)(custom)	TAR (of CEL)