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pmid:26981379

Gene expression profiling of human calcific aortic valve disease

Jaana Rysä

Genomics Data · 2015 doi:10.1016/j.gdata.2015.12.015

Paper

complete

Experiment

partial

Data

partial

Analysis

partial

Execution

absent

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Record details sci_version · id · kind · revision · content_hash · schema · created_at · updated_at · generator
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pmid:26981379
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generator object · 2 fields
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paper object · 10 fields
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title
Gene expression profiling of human calcific aortic valve disease
doi
10.1016/j.gdata.2015.12.015
pmid
26981379
authors array · 1 item
[0]
Jaana Rysä
journal
Genomics Data
year
2015
abstract
Calcific aortic valve disease is a slowly progressive disorder that ranges from mild valve thickening (i.e. aortic sclerosis) to severe calcification of valves (i.e. aortic stenosis). Gene expression profiling analysis of non-calcified controls, sclerotic, and calcified aortic valves was performed to better understand the progression of calcific aortic valve disease. The complementary information related to processing and statistical analysis of the DNA microarray data is provided in this article. Interpretation of this data can be found in a research article entitled “MicroRNA-125b and chemokine CCL4 expression are associated with calcific aortic valve disease” [1]. The microarray data complies with MIAME guidelines and is deposited in the Gene Expression Omnibus (GEO) database under accession number GSE51472.
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Genes were defined as differentially expressed if the change was at least 2.0-fold and statistically significant (P < 0.05, one-way ANOVA and Benjamini and Hochberg false discovery rate).
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sections[6] "Statistical analysis" paragraph 2
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Genes were defined as differentially expressed if the change was at least 2.0-fold and statistically significant (P < 0.05, one-way ANOVA and Benjamini and Hochberg false discovery rate).
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Genes were defined as differentially expressed if the change was at least 2.0-fold and statistically significant (P < 0.05, one-way ANOVA and Benjamini and Hochberg false discovery rate).
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sections[6] "Statistical analysis" paragraph 2
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Genes were defined as differentially expressed if the change was at least 2.0-fold and statistically significant (P < 0.05, one-way ANOVA and Benjamini and Hochberg false discovery rate).
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sections[2] "Direct link to deposited data" paragraph 2
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All samples are separately available in GEO database under accession number GSE51472 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE51472.
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The study identified differentially expressed genes using a ≥2.0-fold change with one-way ANOVA and Benjamini–Hochberg false discovery rate (P < 0.05), and the source microarray data were deposited in GEO under accession number GSE51472.
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sample_count
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Normal aortic valve
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GEO sample metadata for GSE51472: fifteen samples in three groups of five. Sample metadata only; no data was downloaded.
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570
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Homo sapiens
title
Expression data of human aortic valve cusps
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Human aortic valve tissue samples
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Sequencer or array type
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Affymetrix GeneChip® Human Genome U133 Plus 2.0 Arrays
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Samples are from 3 groups: non-calcified control, fibro(sclero)tic and stenotic valves, n = 5 in each group
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[0]
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[1]
RNA was extracted from valvular cups, converted to cDNA and hybridized to Affymetrix arrays
[7] array · 2 items
[0]
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[1]
Not applicable
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[0]
Sample source location
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Aortic valves were removed from patients undergoing valve or aortic root surgery at Oulu University Hospital, Oulu Finland
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section[1]/table-wrap[1]#t0005
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fibro(sclero)tic valves
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15
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Samples are from 3 groups: non-calcified control, fibro(sclero)tic and stenotic valves, n = 5 in each group
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Affymetrix CEL files generated by GCOS 1.2
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GeneSpring version 7.2 (Agilent)
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all the samples were then normalized to the median of the controls
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the controls: the non-calcified control group, n = 5, named by the paper's own group list
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ocessing and statistical analysis of the DNA microarray data is provided in this article. Interpreta
[1]
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Gene expression profiling analysis of non-calcified controls, sclerotic, and calcified aortic valves was performed to better understand the progression of calcific aortic valve disease. The complementary information related to processing and statistical analysis of the DNA microarray data is provided in this article. Interpretation of this data can be found in a research article entitled “MicroRNA-125b and chemokine CCL4 expression are associated with calcific aortic valve disease” [1]. 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