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Clinical

Widespread downregulation of cardiac mitochondrial and sarcomeric genes in patients with sepsis - GSE79962

Purpose

The mechanism(s) for septic cardiomyopathy in humans is not known. To address this, we performed transcriptional profiling of hearts from patients who died from sepsis, in comparison to non-failing human donor hearts that could not be transplanted for technical reasons.

Hypothesis

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Experimental Design

20 sepsis patients, 11 ischemic heart disease (IHD), 9 nonischemic dilated cardiomyopathy (DCM), 11 non-failing donors.The additional de-identified, clinical data for GSM2109161-66, GSM2109168-79 (total 18 samples) is provided in the 'Clinical_metadata.xls' (as a series supplementary file).

Experimental Variables

Sepsis (2021 ICD-10-CM code* = A41)

Dilated cardiomyopathy (DCM) (2021 ICD-10-CM code* = I42.0)

Ischemic heart disease (IHD; aka ischemic cardiomyopathy) (2021 ICD-10-CM code* = I25.5)

Controls

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Methods

Raw data scans (in the form of .CEL files) were imported into Partek Genomics Suite 6.6 (Partek, St. Louis, MO) using RMA and quantile normalization together with corrections for %GC content and probe sequences, and probesets were summarized using median polish.

Additional Information

https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE79962

Microarray
Affymetrix HuGene 1.0 ST v1
51 Samples Loaded: 51
Human (Homo sapiens)
Cardiac tissue
Sepsis, Dilated cardiomyopathy (DCM), ischemic heart disease (IHD; aka ischemic cardiomyopathy)
Total RNA was extracted from frozen tissue, which was thawed in QIAzol (Qiagen, Valencia, CA) and homogenized with a TissueRuptor (Qiagen). RNA was purified by using a Qiagen RNeasy kit according to the manufacturer’s instructions.
Sample Set Spreadsheet
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Samples Preview
Sample ID !Sample_title tissue condition
GSM2109130 Nonischemic (dilated) cardiomyopathy, patient sample 20267 Left ventricular free wall nonischemic dilated cardiomyopathy
GSM2109131 Nonischemic (dilated) cardiomyopathy, patient sample 20270 Left ventricular free wall nonischemic dilated cardiomyopathy
GSM2109132 Nonischemic (dilated) cardiomyopathy, patient sample 20273 Left ventricular free wall nonischemic dilated cardiomyopathy
GSM2109133 Nonischemic (dilated) cardiomyopathy, patient sample 20283 Left ventricular free wall nonischemic dilated cardiomyopathy
GSM2109134 Nonischemic (dilated) cardiomyopathy, patient sample 20286 Left ventricular free wall nonischemic dilated cardiomyopathy
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File
Log2 Transformed
Raw Signal
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Clinical Datasource
Links

Samples Viewer / Editor

All fields are editable except the "Sample ID" column. To edit a cell, click within the cell. To edit a "date" cell, click on the calendar icon. To cancel an edit, press the ESC key.

Sample ID !Sample Title Tissue Condition
GSM2109130
Nonischemic (dilated) cardiomyopathy, patient sample 20267
Left ventricular free wall
nonischemic dilated cardiomyopathy
GSM2109131
Nonischemic (dilated) cardiomyopathy, patient sample 20270
Left ventricular free wall
nonischemic dilated cardiomyopathy
GSM2109132
Nonischemic (dilated) cardiomyopathy, patient sample 20273
Left ventricular free wall
nonischemic dilated cardiomyopathy
GSM2109133
Nonischemic (dilated) cardiomyopathy, patient sample 20283
Left ventricular free wall
nonischemic dilated cardiomyopathy
GSM2109134
Nonischemic (dilated) cardiomyopathy, patient sample 20286
Left ventricular free wall
nonischemic dilated cardiomyopathy
GSM2109135
Nonischemic (dilated) cardiomyopathy, patient sample 20296
Left ventricular free wall
nonischemic dilated cardiomyopathy
GSM2109136
Nonischemic (dilated) cardiomyopathy, patient sample 20301
Left ventricular free wall
nonischemic dilated cardiomyopathy
GSM2109137
Nonischemic (dilated) cardiomyopathy, patient sample 20309
Left ventricular free wall
nonischemic dilated cardiomyopathy
GSM2109138
Nonischemic (dilated) cardiomyopathy, patient sample 20312
Left ventricular free wall
nonischemic dilated cardiomyopathy
GSM2109139
Ischemic heart disease, patient sample 20262
Left ventricular free wall
ischemic heart disease
GSM2109140
Ischemic heart disease, patient sample 20271
Left ventricular free wall
ischemic heart disease
GSM2109141
Ischemic heart disease, patient sample 20279
Left ventricular free wall
ischemic heart disease
GSM2109142
Ischemic heart disease, patient sample 20281
Left ventricular free wall
ischemic heart disease
GSM2109143
Ischemic heart disease, patient sample 20282
Left ventricular free wall
ischemic heart disease
GSM2109144
Ischemic heart disease, patient sample 20285
Left ventricular free wall
ischemic heart disease
GSM2109145
Ischemic heart disease, patient sample 20291
Left ventricular free wall
ischemic heart disease
GSM2109146
Ischemic heart disease, patient sample 20298
Left ventricular free wall
ischemic heart disease
GSM2109147
Ischemic heart disease, patient sample 20302
Left ventricular free wall
ischemic heart disease
GSM2109148
Ischemic heart disease, patient sample 20306
Left ventricular free wall
ischemic heart disease
GSM2109149
Ischemic heart disease, patient sample 20310
Left ventricular free wall
ischemic heart disease
GSM2109150
Nonfailing donor heart, patient sample 20266
Left ventricular free wall
nonfailing heart
GSM2109151
Nonfailing donor heart, patient sample 20274
Left ventricular free wall
nonfailing heart
GSM2109152
Nonfailing donor heart, patient sample 20278
Left ventricular free wall
nonfailing heart
GSM2109153
Nonfailing donor heart, patient sample 20287
Left ventricular free wall
nonfailing heart
GSM2109154
Nonfailing donor heart, patient sample 20295
Left ventricular free wall
nonfailing heart
GSM2109155
Nonfailing donor heart, patient sample 20297
Left ventricular free wall
nonfailing heart
GSM2109156
Nonfailing donor heart, patient sample 20305
Left ventricular free wall
nonfailing heart
GSM2109157
Nonfailing donor heart, patient sample 20307
Left ventricular free wall
nonfailing heart
GSM2109158
Nonfailing donor heart, patient sample 21137
Left ventricular free wall
nonfailing heart
GSM2109159
Nonfailing donor heart, patient sample 21138
Left ventricular free wall
nonfailing heart
GSM2109160
Nonfailing donor heart, patient sample 21139
Left ventricular free wall
nonfailing heart
GSM2109161
Septic cardiomyopathy heart, patient sample 20263
Left ventricular free wall
septic cardiomyopathy
GSM2109162
Septic cardiomyopathy heart, patient sample 20264
Left ventricular free wall
septic cardiomyopathy
GSM2109163
Septic cardiomyopathy heart, patient sample 20265
Left ventricular free wall
septic cardiomyopathy
GSM2109164
Septic cardiomyopathy heart, patient sample 20268
Left ventricular free wall
septic cardiomyopathy
GSM2109165
Septic cardiomyopathy heart, patient sample 20272
Left ventricular free wall
septic cardiomyopathy
GSM2109166
Septic cardiomyopathy heart, patient sample 20275
Left ventricular free wall
septic cardiomyopathy
GSM2109167
Septic cardiomyopathy heart, patient sample 20276
Left ventricular free wall
septic cardiomyopathy
GSM2109168
Septic cardiomyopathy heart, patient sample 20277
Left ventricular free wall
septic cardiomyopathy
GSM2109169
Septic cardiomyopathy heart, patient sample 20280
Left ventricular free wall
septic cardiomyopathy
GSM2109170
Septic cardiomyopathy heart, patient sample 20284
Left ventricular free wall
septic cardiomyopathy
GSM2109171
Septic cardiomyopathy heart, patient sample 20288
Left ventricular free wall
septic cardiomyopathy
GSM2109172
Septic cardiomyopathy heart, patient sample 20289
Left ventricular free wall
septic cardiomyopathy
GSM2109173
Septic cardiomyopathy heart, patient sample 20290
Left ventricular free wall
septic cardiomyopathy
GSM2109174
Septic cardiomyopathy heart, patient sample 20293
Left ventricular free wall
septic cardiomyopathy
GSM2109175
Septic cardiomyopathy heart, patient sample 20294
Left ventricular free wall
septic cardiomyopathy
GSM2109176
Septic cardiomyopathy heart, patient sample 20299
Left ventricular free wall
septic cardiomyopathy
GSM2109177
Septic cardiomyopathy heart, patient sample 20303
Left ventricular free wall
septic cardiomyopathy
GSM2109178
Septic cardiomyopathy heart, patient sample 20304
Left ventricular free wall
septic cardiomyopathy
GSM2109179
Septic cardiomyopathy heart, patient sample 20308
Left ventricular free wall
septic cardiomyopathy
GSM2109180
Septic cardiomyopathy heart, patient sample 20311
Left ventricular free wall
septic cardiomyopathy

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