Sample Set Annotation Tool: Widespread downregulation of cardiac mitochondrial and sarcomeric genes in patients with sepsis - GSE79962 [Sepsis, Dilated cardiomyopathy (DCM), Ischemic heart disease (IHD; aka ischemic cardiomyopathy)]

Study Design
Assay
Sample Info
Files
Info
Samples
Group Sets
Analysis

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

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

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

Expected Samples:

51 Samples Loaded: 51

Species

Human (Homo sapiens)

Sample Source

Cardiac tissue

Disease

Sepsis, Dilated cardiomyopathy (DCM), ischemic heart disease (IHD; aka ischemic cardiomyopathy)

Treatment Protocol

Growth Protocol

Extraction Protocol

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.

Storage Conditions

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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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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