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Series GSE12493

Query DataSets for GSE12493

Status

Public on Sep 15, 2009

Title

A TGFB Responsive Gene Expression Signature is Associated With More Severe Skin and Lung Disease in Diffuse Scleroderma

Organism

Experiment type

Expression profiling by array

Summary

Primary dermal fibroblasts from patients with dSSc and healthy controls were treated with TGF beta for up to 24h and the genome-wide patterns of gene expression measured on DNA microarrays. 894 genes were identified as TGF beta-responsive in 4 independent cultures of dermal fibroblasts (2 healthy control and 2 dSSc patients). The 894 genes in the TGF beta-responsive signature are associated with induction of growth factor signaling, collagen synthesis and extracellular matrix deposition.

Overall design

Common reference design; we used Universal Human Reference RNA (Stratagene) as our reference for every array; For every hybridization sample RNA was always labeled with Cy3, and reference RNA was always labeled with Cy5

All processed data is displayed as log2 of the LOWESS-normalized Cy5/Cy3 ratio and was multiplied by negative 1 for analysis in the associated publication.

Contributor(s)

Sargent JL, Milano A, Bhattacharyya S, Varga J, Connolloy K, Chang HY, Whitfield ML

Citation(s)

Submission date

Aug 19, 2008

Last update date

Jan 23, 2019

Contact name

Jennifer L Sargent

E-mail(s)

jennifer.sargent@gmail.com

Organization name

Dartmouth Medical School

Department

Genetics

Lab

Whitfield

Street address

Dartmouth College; HB7400

City

Hanover

State/province

NH

ZIP/Postal code

03755

Country

USA

Platforms (2)

GPL6480	Agilent-014850 Whole Human Genome Microarray 4x44K G4112F (Probe Name version)
GPL6848	Agilent-012391 Whole Human Genome Oligo Microarray G4112A (Probe Name version)

Samples (40)

More...

GSM313344	C17_TGFB_T01 (baseline)
GSM313348	C17_TGFB_T02 (baseline)
GSM313349	C17_TGFB_T03 (baseline)

GSM313350	C17_TGFB_T2 (2 hour TGFB treatment)
GSM313351	C17_TGFB_T4 (4 hour TGFB treatment)
GSM313352	C17_TGFB_T8 (8 hour TGFB treatment)
GSM313360	C17_TGFB_T12 (12 hour TGFB treatment)
GSM313458	C17_TGFB_T24 (24 hour TGFB treatment)
GSM313459	P43_TGFB_T01 (baseline, SSc FBs)
GSM313460	P43_TGFB_T02 (baseline, SSc FBs)
GSM313461	P43_TGFB_T03 (baseline, SSc FBs)
GSM313462	P43_TGFB_T2 (2 hours TGFB treatment, SSc FBs)
GSM313463	P43_TGFB_T4 (4 hours TGFB treatment, SSc FBs)
GSM313480	P43_TGFB_T8 (8 hours TGFB treatment, SSc FBs)
GSM313481	P43_TGFB_T12 (12 hours TGFB treatment, SSc FBs)
GSM313532	P43_TGFB_T24 (24 hours TGFB treatment, SSc FBs)
GSM313541	P42_TGFB_T01 (baseline, SSc FBs)
GSM313542	P42_TGFB_T02 (baseline, SSc FBs)
GSM313543	P42_TGFB_T03 (baseline, SSc FBs)
GSM313544	P42_TGFB_T2 (2 hours TGFB treatment, SSc FBs)
GSM313545	P42_TGFB_T4 (4 hours TGFB treatment, SSc FBs)
GSM313546	P42_TGFB_T8 (8 hours TGFB treatment, SSc FBs)
GSM313547	P42_TGFB_T12 (12 hours TGFB treatment, SSc FBs)
GSM313548	P42_TGFB_T24 (24 hours TGFB treatment, SSc FBs)
GSM313549	NHDF_TGFB_T0-1 (baseline, healthy FBs)
GSM313550	NHDF_TGFB_T03 (baseline, healthy FBs)
GSM313551	NHDF_TGFB_T0-2 (baseline, healthy FBs)
GSM313552	NHDF_TGFB_T2 (2 hours TGFB treatment, healthy FBs)
GSM313553	NHDF_TGFB_T4 (4 hours TGFB treatment, healthy FBs)
GSM313554	NHDF_TGFB_T8 (8 hours TGFB treatment, healthy FBs)
GSM313555	NHDF_TGFB_T12 (12 hours TGFB treatment, healthy FBs)
GSM313556	NHDF_TGFB_T24 (24 hours TGFB treatment, healthy FBs)
GSM313644	NHDF_MOCK_T0-1 (baseline, healthy FBs)
GSM313647	NHDF_MOCK_T0-2 (baseline, healthy FBs)
GSM313648	NHDF_MOCK_T0-3 (baseline, healthy FBs)
GSM313649	NHDF_MOCK_T2 (2 hours MOCK treatment, healthy FBs)
GSM313651	NHDF_MOCK_T4 (4 hours MOCK treatment, healthy FBs)
GSM313654	NHDF_MOCK_T8 (8 hours MOCK treatment, healthy FBs)
GSM313656	NHDF_MOCK_T12 (12 hours MOCK treatment, healthy FBs)
GSM313658	NHDF_MOCK_T24 (24 hours MOCK treatment, healthy FBs)

Relations

BioProject

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
GSE12493_RAW.tar	230.3 Mb	(http)(custom)	TAR (of GPR)
Processed data included within Sample table

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