Brain circuit - OmicsDI

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Mus musculus (247)
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synthetic construct (2)
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Organisms

Mus musculus (196)
Homo sapiens (40)
Drosophila melanogaster (11)
Rattus norvegicus (10)
Taeniopygia guttata (4)
Danio rerio (4)
Macaca mulatta (3)
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Aplysia californica (2)
Caenorhabditis elegans (2)
Sus scrofa (2)
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Mus (1)
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mouse gut metagenome (1)
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Repository

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geo (244)
biostudies-arrayexpress (165)
pride (31)
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Tissue

Brain (29)
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Disease

Parkinson's disease (3)
Normal (1)
Alzheimer's disease (1)
Cerebrovascular disease (1)
Early infantile epileptic encephalopathy (1)
Fragile X syndrome (1)
Schizophrenia (1)

Technology Type

Mass Spectrometry (31)
Shotgun proteomics (12)
Bottom-up proteomics (10)
Mass spectrometry assay (4)
SWATH MS (4)
Mass spectrometry (3)
Data-dependent acquisition (3)
NMR spectroscopy (1)
Affinity purification coupled with mass spectrometry proteomics (1)
Data-independent acquisition (1)
Top-down proteomics (1)

Instrument Platform

Illumina NovaSeq 6000 (14)
Illumina HiSeq 4000 (7)
Illumina HiSeq 2500 (3)
LTQ Orbitrap Elite (3)
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. (2)
NextSeq 2000 (2)
NextSeq 500 (2)
LTQ Velos (2)
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Orbitrap Fusion Lumos (2)
Liquid Chromatography MS - alternating - hilic (2)
Liquid Chromatography MS - alternating - reverse phase (2)
Chromium Next GEM Chip G (1)
10X v3 (1)
DNA 7500 Bioanalyzer Chips (1)
Illumina NovaSeq X (1)
Ion Torrent PGM (1)
GenePix 4000B (1)
Illumina MiSeq (1)
LTQ Orbitrap (1)
LTQ Orbitrap XL (1)
Orbitrap Exploris 480 (1)
Orbitrap Fusion ETD (1)
Q Exactive HF (1)
Q Exactive Plus (1)
Liquid Chromatography MS - Alternating (LC-MS (Alternating)) (1)
Bruker (1)
MS Imaging - (1)
Liquid Chromatography MS - negative (1)
Liquid Chromatography MS - positive (1)

Publication Date

2026 (62)
2025 (59)
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2021 (25)
2013 (24)
2016 (23)
2015 (21)
2020 (20)
2014 (19)
2012 (17)
2011 (15)
2010 (11)
2019 (10)
2008 (9)
2018 (8)
2009 (5)
2017 (4)
2007 (3)
2006 (3)
2004 (1)

CHEBI ID

CHEBI:64517 (3)
CHEBI:66860 (2)
CHEBI:66855 (2)
CHEBI:64424 (2)
CHEBI:64519 (2)
CHEBI:64525 (2)
CHEBI:64526 (2)
CHEBI:64446 (2)
CHEBI:66859 (2)
CHEBI:64504 (2)
CHEBI:64520 (2)
CHEBI:64523 (2)
CHEBI:64433 (2)
CHEBI:66857 (2)
CHEBI:64423 (2)
CHEBI:64516 (2)
CHEBI:66849 (2)
CHEBI:66850 (2)
CHEBI:65303 (2)
CHEBI:66847 (2)
CHEBI:15891 (2)
CHEBI:18050 (2)
CHEBI:16865 (2)
CHEBI:17553 (2)
CHEBI:17268 (2)
CHEBI:16977 (2)
CHEBI:15428 (2)
CHEBI:16919 (2)
CHEBI:15354 (2)
CHEBI:136254 (1)

Metabolite Name

Taurine (3)
PC 34:1 (2)
Coenzyme A (2)
Homovanillic acid (2)
Corticosterone (2)
Lumichrome (2)
Hydroxyphenyllactic acid (2)
Citrulline (2)
2-Hydroxybutyric acid (2)
3-Aminosalicylic acid (2)
Indolelactic acid (2)
Putrescine (2)
Alpha-Ketoglutaric acid (2)
N4-Acetylcytidine (2)
Dihydrothymine (2)
Xanthosine (2)
N-Acetyl-L-tyrosine (2)
Taurocholic acid (2)
Adrenic acid (2)
Cholic acid (2)
Stearic acid (2)
Arachidonic acid (2)
Niacinamide (2)
Pantothenic acid (2)
Citric acid (2)
Fumaric acid (2)
Adenosine (2)
Spermidine (2)
Indoleacrylic acid (2)
Guanine (2)

First Public Date

2026 (65)
2025 (64)
2024 (46)
2022 (36)
2023 (27)
2021 (22)
2020 (18)
2014 (14)
2018 (12)
2019 (11)
2016 (9)
2017 (7)
2013 (3)
2015 (2)

Modification

4-tetrahydrothiazine-3-carboxylic acid (1)

Study type

Transcription profiling by array (86)
RNA-seq of coding RNA (33)
RNA-seq of coding RNA from single cells (19)
ChIP-seq (12)
RNA-seq of non coding RNA (5)
ChIP-chip by tiling array (2)
Cell line - Single-cell sequencing (1)
Differential (1)
ATAC-seq (1)
Other (1)
ScATAC-seq (1)
Single nucleus RNA sequencing (1)
DNA-seq (1)
Methylation profiling by high throughput sequencing (1)

Release Date

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2024 (481)
2021 (449)
2020 (369)
2019 (289)
2018 (265)
2017 (244)
2016 (233)
2015 (175)
2014 (134)
2026 (105)
2012 (75)
2013 (69)
2011 (45)
2010 (36)
2009 (33)
2008 (29)
2007 (15)
2006 (11)
2005 (8)
2003 (5)
2004 (4)
2001 (2)
2000 (1)
1999 (1)

Lab affiliation

Key Laboratory of Brain Functional Genomics of Shanghai and Ministry of Education, Institute of Brain Functional Genomics, School of Life Science and the Collaborative Innovation Center for Brain Science, East China Normal University, Shanghai, China (3)
Borch Department of Medicinal Chemistry and Molecular Pharmacology, Purdue University, West Lafayette, Indiana 47907, United States Purdue Institute for Integrative Neuroscience, Purdue University, West Lafayette, Indiana 47907, United States (2)
Molecular Physiology of the Synapse Laboratory Institut de Recerca Sant Pau (IR Sant Pau) C/Sant Quintí, 77-79 08041 Barcelona Spain (2)
1. CERVO Brain Research Centre, Quebec Mental Health Institute; Québec, QC, G1E 1T2, Canada. 2. Department of Psychiatry & Neuroscience, Université Laval; Québec, QC, G1V 0A6, Canada. (1)
Biosciences Institute, Newcastle University, Newcastle, UK (1)
Borch Department of Medicinal Chemistry and Molecular Pharmacology, Purdue University, West Lafayette, Indiana 47907, United States Purdue Institute for Integrative Neuroscience, Purdue University, West Lafayette, Indiana 47907, United States (1)
Brain Research Institute, University of Zurich (1)
Buck Institute for Research on Aging (1)
Catholic University of the Sacred Heart (1)
Department of Neurology, Fujian Medical University Union Hospital (1)
Department of Pharmacology, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599, USA (1)
Department of Physiology and Department of Neurobiology. David Geffen School of Medicine, University of California Los Angeles. Los Angeles, CA 90095-1751, USA (1)
Donnelly CCBR, University of Toronto, Toronto ON M5S 3E1, Canada (1)
First Affiliated Hospital of USTC, Division of Life Sciences and Medicine, University of Science and Technology of China (1)
Graduate school of Biomedical and Health Sciences, Hiroshima University (1)
Group Leader, Quattrocolo Lab, Kavli Institute for Systems Neuroscience and Centre for Neural Computation, Norwegian University of Science and Technology (NTNU), Trondheim 7491, Norway (1)
Harvard Medical School Department of Neurobiology (1)
Leibniz Institute on Aging – Fritz Lipmann Institute (FLI), Jena, Germany. Bio@SNS, Scuola Normale Superiore, Pisa, Italy. (1)
Leibniz Institute on Aging – Fritz Lipmann Institute (FLI), Jena, Germany. Scuola Normale Superiore, Pisa, Italy. (1)
Max Planck Institute for Brain Research (1)
Nanobio Measurement Group, Division of Biomedical Metrology, Korea Research Institute of Standards and Science, Daejeon 34113, Republic of Korea (1)
Research Unit Protein Science, Helmholtz Zentrum München (1)
Telethon Institute of Genetics and Medicine, Via Campi Flegrei 34, Pozzuoli, Naples, Italy (1)
Univ. Grenoble Alpes, INSERM, CEA, UMR BioSanté U1292, CNRS, CEA, FR2048 38000, Grenoble, France (1)
University of Warsaw, Warsaw, Poland (1)
University of Washington (1)
University of Washington Department of Genome Sciences (1)

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Metabolic abnormalities of the cortico-striato-thalamo-cortical circuit of rats with tic disorder

Tic disorder (TD) is a developmental neuropsychiatric disorder that primarily occurs during childhood and impacts the quality of life and psychosocial function of patients. The pathogenesis of TD involves the dysregulation of the cortico-striato-thalamo-cortical (CSTC) circuit and metabolic abnor...

2025-03-18 | MTBLS11764 | MetaboLights

Effects of a Compound from the Group of Substituted Thiadiazines with Hypothermia Inducing Properties on Brain Metabolism in Rats, a Study In Vivo and In Vitro

The aim of the present study was to examine how administration of a compound of 1,3,4-thiadiazine class 2-morpholino-5-phenyl-6H-1,3,4-thiadiazine hydrobromide (L-17) with hypothermia inducing properties affects the brain metabolism. The mechanism by which L-17 induces hypothermia is unknown; it may...

2018-07-27 | MTBLS482 | MetaboLights

Disruption of the Brain-Spleen Axis Impairs Monocyte-Microglia Communication and Accelerates Disease Progression in a Mouse Model of Amyloidosis

Alzheimer’s disease (AD) is characterized by a prolonged asymptomatic phase before cognitive decline emerges, yet the mechanisms driving symptom onset remain unclear. Here, we hypothesized that the transition from asymptomatic to symptomatic disease is linked to dysfunction of brain–immune communica...

2026-06-01 | MTBLS14615 | MetaboLights

A body-brain circuit regulating body inflammatory responses

PRJNA1095469 | ENA

CDH11 regulates presynaptic vesicle trafficking and neuronal activity in autism-related brain circuit

The molecular etiology of numerous risk genes for autism spectrum disorder (ASD), including CDH11, remains elusive. We investigated the role of CDH11 in the development of ASD-related behaviors using gene-deficient mice. CDH11 is enriched at synapses in glutamatergic neurons of the anterior cingulat...

ORGANISM(S): Mus musculus (Mouse)

2025-08-08 | PXD055834 | Pride

CDH11 regulates presynaptic vesicle trafficking and neuronal activity in autism-related brain circuit

ORGANISM(S): Mus musculus (Mouse)

2025-08-08 | PXD056411 | Pride

Synaptic adhesion Asd Neuronal activity Proteomics Brain circuit Self-grooming Cdh11 Acc

CDH11 regulates presynaptic vesicle trafficking and neuronal activity in autism-related brain circuit

ORGANISM(S): Mus musculus (Mouse)

2025-08-08 | PXD056074 | Pride

Synaptic adhesion Asd Neuronal activity Proteomics Brain circuit Self-grooming Cdh11 Acc

Mapping Neuroimaging Findings of Creativity and Brain Disease Onto a Common Brain Circuit.

Not available

S-EPMC11826368 | biostudies-literature

Transcriptional regulation of brain gene expression in response to a territorial intrusion

We investigated the transcriptomic response to territorial intrusion in four regions of the brain (telencephalon, diencephalon, cerebellum and brain stem) of a teleost fish, the threespined stickleback (Gasterosteus aculeatus). We tested the hypothesis that gene regulatory networks modulate the tran...

ORGANISM(S): Gasterosteus aculeatus

2012-11-21 | E-GEOD-32961 | biostudies-arrayexpress

A Neural Circuit for Spirituality and Religiosity Derived From Patients With Brain Lesions.

Not available

S-EPMC8714871 | biostudies-literature

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