Chronic stroke - OmicsDI

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Repository

biostudies-arrayexpress (213)
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Tissue

Brain (4)
Heart (2)
Stem cell (2)
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Cell culture (1)
Colon (1)
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Primary cell line cell (1)
Primary neuron (1)
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Disease

Myocardial infarction (2)
Normal (2)
Bronchitis (2)
Colorectal Neoplasms (2)
Cerebrovascular disease (2)
Ischemic (1)
Ischaemia reperfusion injury (1)
Internal Carotid Artery Stenosis (NCI Metathesaurus C0340569) has DiseaseStaging Asymptomatic (1)
Sham (1)
Carotid artery disease: ASYMPTOMATIC high-grade inner carotid artery stenosis (1)
Coronary artery disease (1)
Hypertensive (1)
Cataract (1)
Multiple Sclerosis (1)
Advanced incurable solid cancer: lung (1)
Chronic kidney disease (1)
Parkinson Disease (1)
Multi-pathological condition. According with Working Group of the Sociedad Española de Medicina Interna (SEMI), a patients are defined as multi-pathological or polypathological when they have chronic diseases that belong to two or more of the eight next categories:-Category A: NYHA heart failure class II (slight limitation of physical activity, in which ordinary physical activity causes dyspnea, angina, fatigue or palpitations). Ischemic heart disease.- Category B: Vasculitis and systemic autoimmune diseases. Chronic kidney disease defined by elevated creatinine (>1.4 mg/dL in men or >1.3 mg/dL in women) or proteinuria (albumin/creatinine ratio >300 mg/g, microalbuminuria >3mg/dL in urine sample or albumin >300 mg/day in 24-hour urine, for 3 months).- Category C: Chronic respiratory disease classified as MCR grade 2 (unable to keep the pace of another person of the same age (1)
Carotid artery occlusion (1)
Type 2 diabetes mellitus (1)

Technology Type

Mass Spectrometry (12)
Mass spectrometry (6)
Shotgun proteomics (5)
Bottom-up proteomics (4)
Data-dependent acquisition (2)
SWATH MS (2)
NMR spectroscopy (1)
Mass spectrometry assay (1)
Affinity purification coupled with mass spectrometry proteomics (1)
Data-independent acquisition (1)

Instrument Platform

Illumina NovaSeq 6000 (22)
NextSeq 500 (6)
Illumina HiSeq 4000 (5)
Single nuclei were captured using the 10x Genomics Chromium Controller. (2)
Illumina NovaSeq X (2)
Illumina HiSeq 2000 (2)
Q Exactive HF-X (2)
Liquid Chromatography MS - negative - reverse phase (2)
Liquid Chromatography MS - negative - hilic (2)
Liquid Chromatography MS - positive - hilic (2)
Chromium Next GEM Chip G (1)
Single-Cell Extraction: For enzymatic digestion, pronase (Septomyces argeus, 1 mg/mL) was applied for 25 minutes at room temperature for P0 to P8 datasets. Cells were dissociated and triturated into a single-cell suspension in ACSF supplemented with 1% fetal calf serum (FCS) and DNase (1 µL/10 mL). Trituration was performed using three glass Pasteur pipettes of decreasing diameters. For P30 datasets, enzymatic digestion and cell dissociation were carried out using the Worthington Papain Dissociation System, following the manufacturer’s instructions. Single-Nuclei Extraction: For nuclei isolation, the Hibernate™-E Medium was removed, and 500 µL of chilled 0.1X NP40 Lysis Buffer was added. Tissue was homogenized using a Pellet Pestle (15 strokes) and incubated on ice for 5 minutes. The suspension was pipette-mixed 10 times using a wide-bore pipette tip and incubated for an additional 10 minutes on ice. Following lysis, 500 µL of chilled wash buffer was added, and the mixture was pipette-mixed 5 times using a regular-bore pipette tip. The suspension was filtered through a 30 µm cell strainer into a 50 mL tube to remove debris. The filtered suspension was transferred to a 1.5 mL tube and centrifuged at 950 × g for 10 minutes at 4°C. The supernatant was carefully removed, and the nuclei pellet was retained for downstream analysis. (1)
Chromium Controller (10X) (1)
10X Genomics Chromium Controller (1)
DNA Microarray Scanner BA [Agilent Technologies] (1)
NA (1)
NextSeq 2000 (1)
BGISEQ-500 (1)
NextSeq 550 (1)
Illumina HiSeq 2500 (1)
LTQ (1)
MALDI Synapt G2-S HDMS (1)
Orbitrap Fusion Lumos (1)
Q-Exactive HF (1)
QE-HF in DIA mode in the LC-MS/MS (1)
Q Exactive (1)
Bruker (1)
Gas Chromatography MS - positive (1)
Liquid Chromatography MS - positive - reverse-phase (1)
Liquid Chromatography MS - negative - reverse-phase (1)

Publication Date

2010 (26)
2025 (25)
2026 (24)
2013 (23)
2014 (22)
2011 (20)
2024 (18)
2016 (17)
2012 (15)
2008 (13)
2022 (12)
2021 (12)
2023 (10)
2019 (10)
2009 (10)
2015 (9)
2007 (7)
2020 (6)
2006 (5)
2017 (4)
2018 (1)

CHEBI ID

CHEBI:30769 (5)
CHEBI:17196 (4)
CHEBI:15843 (4)
CHEBI:18257 (4)
CHEBI:18019 (4)
CHEBI:28842 (4)
CHEBI:16737 (4)
CHEBI:16919 (4)
CHEBI:17895 (4)
CHEBI:16024 (3)
CHEBI:17266 (3)
CHEBI:29019 (3)
CHEBI:30794 (3)
CHEBI:1148 (3)
CHEBI:28747 (3)
CHEBI:17203 (3)
CHEBI:16977 (3)
CHEBI:17202 (3)
CHEBI:15428 (3)
CHEBI:16359 (3)
CHEBI:17053 (3)
CHEBI:30860 (3)
CHEBI:15891 (3)
CHEBI:15318 (3)
CHEBI:16411 (3)
CHEBI:30887 (3)
CHEBI:30797 (3)
CHEBI:15971 (3)
CHEBI:33508 (3)
CHEBI:16708 (3)

Metabolite Name

Creatinine (6)
Creatine (6)
Ornithine (5)
Hypoxanthine (5)
L-Lysine (4)
Betaine (4)
L-Alanine (4)
L-Proline (4)
Cytosine (4)
Choline (4)
Adenosine (4)
L-Histidine (4)
Cytidine (4)
Xanthine (4)
Guanosine (4)
Histidine (3)
PC(16:0/16:0) (3)
Indoleacetic acid (3)
Picolinic acid (3)
N6,N6,N6-Trimethyl-L-lysine (3)
Trigonelline (3)
Valine (3)
1-Methylnicotinamide (3)
Thiamine (3)
Sphingosine (3)
Alanine (3)
Glycine (3)
Glutathione (3)
Glutathione disulfide (3)
Triethanolamine (3)

First Public Date

2026 (14)
2025 (10)
2024 (10)
2014 (10)
2021 (7)
2023 (6)
2022 (5)
2020 (4)
2019 (4)
2018 (2)
2013 (2)
2015 (1)

Classification

bacteria (2)

Study status

Completed (4)
Not yet recruiting (3)
Recruiting (2)
Terminated (1)

Study type

Transcription profiling by array (91)
ChIP-chip by tiling array (26)
ChIP-seq (25)
RNA-seq of coding RNA from single cells (22)
RNA-seq of coding RNA (17)
Other (7)
Interventional (7)
ChIP-chip by array (5)
Genotyping by array (2)
Transcription profiling by RT-PCR (2)
ATAC-seq (2)
Single nucleus RNA sequencing (2)
Observational patient registry (2)
Single-nucleus ATAC-seq (1)
Unknown experiment type (1)
One-color microarray (1)
Animal - Single-cell sequencing (1)
Cell line - One-color microarray (1)
Animal - High-throughput sequencing (1)
Transcription profiling by tiling array (1)
Ribo-seq (1)
ScATAC-seq (1)
MicroRNA profiling by array (1)
Methylation profiling by high throughput sequencing (1)
RNA-seq of total RNA (1)
Observational (1)

Release Date

2022 (779)
2025 (771)
2021 (753)
2023 (706)
2024 (690)
2020 (589)
2019 (478)
2018 (407)
2017 (270)
2016 (243)
2015 (176)
2014 (144)
2026 (116)
2013 (90)
2012 (70)
2011 (54)
2010 (50)
2009 (33)
2008 (31)
2007 (14)
2006 (12)
2005 (3)
2002 (2)
2001 (1)

Lab affiliation

Core Unit Proteomics, Berlin Institute of Health at Charite - Universitaetsmedizin Berlin and Max Delbrueck Center for Molecular Medicine, Berlin, Germany (1)
Croatian Institute for Brain Research and Department of Histology and Embryology, University of Zagreb School of Medicine, 10000 Zagreb, Croatia (1)
Department of Biochemistry and Molecular Biology Bio21 Molecular Science and Biotechnology Institute Cell Signalling Research Laboratories The University of Melbourne Parkville, Victoria 3010, Australia (1)
Department of Cardiology, Smidt Heart Institute and Proteomics and Metabolomics Core Facility (1)
Department of Chemistry, the University of Hong Kong (1)
Department of Experimental Pharmacology and 35 Toxicology, University Medical Center Hamburg-Eppendorf, Hamburg, Germany, 36 Martinistrasse 52, 20246 Hamburg, Germany (1)
Department of Molecular Physiology and Biophysics, University of Iowa, Iowa city, IA (1)
Department of Rehabilitation Medicine, The Second Affiliated Hospital, School of Medicine, South China University of Technology, Guangzhou 510180, China (1)
Department of Systems Biology (Physiology). University of Alcala. Spain. (1)
Genetics and Biochemistry Branch, NIDDK, National Institutes of Health, Bethesda, MD 20814, USA.  National Institute of Neurological Disorders and Stroke (NINDS), National Institutes of Health, Bethesda, MD, USA (1)
Institute for Stroke and Dementia Research (ISD), University Hospital, Ludwig-Maximilian-University (LMU), Munich, Germany (1)
U o Edinburgh (1)

Location

France (2)
Canada (2)
United Kingdom (2)
Hong Kong (1)
Norway (1)
New Zealand (1)
Denmark (1)
Colombia (1)
Italy (1)
Australia (1)
United States (1)

Keyword

Qualitative interviews (1)
Treatment burden (1)
Cancer aftercare (1)
Obesity-related Cancer (1)
Multi-Cancer Screening (1)
Neglected Diseases (1)
Orphan Diseases (1)
Rare Disease Research (1)
Registries (1)
Batten Disease (1)
Mucolipidosis IV (1)
Undiagnosed (1)
Uncommon Disease (1)
Hypersomnia (1)
Marinesco-Sjogren Syndrome (1)
4p-/Wolf-Hirschhorn Syndrome (1)
Wiedermann-Steiner Syndrome (1)
Hemophagocytic Lymphohistiocytosis (HLH) (1)
Behcet’s Disease (1)
Jansen metaphyseal chondrodysplasia (1)
Chronic recurrent multifocal osteomyelitis (CRMO) (1)
Hereditary Sensory and Autonomic Neuropathy (1)
Nephropathic infantile cystinosis (1)
Ocular cystinosis (1)
Spinal Bulbar Muscular Atrophy (SBMA) (1)
Mucolipidosis (1)
Mitochondrial aminoacyl-tRNA synthetases (Mt-aaRS Disorders) (1)
Shine Syndrome (1)
Intestinal Bromhidrosis Syndrome (1)
Autosomal recessive extra oral halitosis (1)

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Increased fatty acid metabolism and decreased glycolysis are hallmarks of metabolic reprogramming within microglia in degenerating white matter during recovery from experimental stroke

The goal of this study was to evaluate changes in metabolic homeostasis during the first 12 weeks of recovery in a distal middle cerebral artery occlusion mouse model of stroke. To achieve this goal, we compared the brain metabolomes of ipsilateral and contralateral hemispheres from aged male mice u...

2022-10-06 | MTBLS5543 | MetaboLights

The age and genomic integrity of neurons after cortical stroke in humans

It has been unclear whether ischemic stroke induces neurogenesis or neuronal DNA-rearrangements in the human neocortex. We show here that neither is the case, using immunohistochemistry, transcriptome-, genome- and ploidy-analyses, and determination of nuclear bomb test-derived 14C-concentration in ...

ORGANISM(S): Homo sapiens

2014-03-28 | E-GEOD-56267 | biostudies-arrayexpress

Transcription profiling of stroke-susceptible and asymptomatic human carotid plaques

A microarray analysis of advanced human atherosclerotic carotid artery plaques (equal or over 70% stenosis, NASCET criteria) from radiologically confirmed ipsilateral stroke patients (stroke-susceptible plaques, n=12) compared with carotid plaques collected from clinically asymptomatic patients with...

ORGANISM(S): Homo sapiens

2011-12-30 | E-MEXP-2257 | biostudies-arrayexpress

Genomic profiles for human peripheral blood T cells, B cells, natural killer cells, monocytes, and polymorphonuclear cells: comparisons to ischemic stroke, migraine, and Tourette syndrome

Blood genomic profiling has been applied to disorders of the blood and various organ systems including brain to elucidate disease mechanisms and identify surrogate disease markers. Since most studies have not examined specific cell types, we performed a preliminary genomic survey of major blood cell...

ORGANISM(S): Homo sapiens

2015-09-03 | E-GEOD-72642 | biostudies-arrayexpress

Gene Expression Following Cardioembolic Stroke

Blood from subjects with cardioembolic stroke and controls was collected, and the RNA extracted was interrogated and whole genome U133 Affymetrix Arrays. Twenty-three control samples and sixty-nine cardioembolic stroke samples were assayed. Blood from subjects with cardioembolic stroke and controls ...

ORGANISM(S): Homo sapiens

2014-09-02 | E-GEOD-58294 | biostudies-arrayexpress

Robust Neurogenesis in Chronic Stroke Monkeys Following Mesenchymal Stem Cell Transplantation Plus Intermittent Theta-burst Stimulation

A significant population of chronic stroke patients urgently requires more effective therapies due to functional plateaus and limited intervention options. Intermittent theta-burst stimulation (iTBS) has been increasingly adopted in chronic-phase ischemic stroke management. However, the efficacy dec...

ORGANISM(S): Homo sapiens (Human) Macaca mulatta (Rhesus macaque)

2026-03-12 | PXD071582 | Pride

Integrated proteomic and metabolomic analyses of the mitochondrial neurodegenerative disease MELAS

MELAS (mitochondrial encephalomyopathy, lactic acidosis, stroke-like episodes) is a progressive neurodegenerative disease caused by pathogenic mitochondrial DNA variants. The pathogenic mechanism of MELAS remains enigmatic due to the exceptional clinical heterogeneity and the obscure genotype-phenot...

ORGANISM(S): Homo Sapiens (ncbitaxon:9606)

2021-10-16 | MSV000088237 | MassIVE

RNA Sequencing of WT Chronic Stroke Infarcts vs. Contralateral Cortices

PRJNA726051 | ENA

Validation of the UK English Oxford cognitive screen-plus in sub-acute and chronic stroke survivors.

Not available

S-EPMC9720845 | biostudies-literature

Transcriptomic profile of brain endothelial cells after stroke w/o chronic stress

PRJNA504670 | ENA

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