Neuronal development

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Unknown (14992)
Transcriptomics (3409)
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Mus musculus (2217)
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Campylobacter jejuni subsp. jejuni NCTC 11168 = ATCC 700819 (4)
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Glycine max (3)
cellular organisms (2)

Organisms

Mus musculus (1237)
Homo sapiens (630)
Drosophila melanogaster (82)
Rattus norvegicus (82)
Danio rerio (39)
Caenorhabditis elegans (32)
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Nematostella vectensis (2)
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Apis mellifera (2)
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synthetic construct (2)
Trichechus manatus latirostris (1)
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Leucoraja erinaceus (1)
Hemicentrotus pulcherrimus (1)
Mustela putorius furo (1)
Aplysia californica (1)
Schistocerca gregaria (1)
Branchiostoma lanceolatum (1)

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geo (2117)
pride (238)
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Cerebral cortex (2)
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Blood plasma (2)
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Blood cell (2)
Blood (2)
Brain (1)
Motoneuron (1)

Disease

Normal (11)
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Not Available (2)
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Porphyria NOS (1)
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Infected (1)
Bladder cancer (1)
Diabetes, diabetic peripheral neuropathy (1)
IBDV infected (1)
Benign adenoma (1)
Astrocytoma III (1)
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Colorectal Neoplasms (1)

Technology Type

Mass Spectrometry (238)
Shotgun proteomics (125)
Bottom-up proteomics (46)
Affinity purification coupled with mass spectrometry proteomics (39)
Data-dependent acquisition (29)
Mass spectrometry (28)
Data-independent acquisition (16)
Gel-based experiment (15)
Mass spectrometry assay (13)
SWATH MS (13)
Top-down proteomics (5)
ILLUMINA, Illumina HiSeq 2500 (2)
HDMSE (2)
SRM/MRM (2)
Chemical cross-linking coupled with mass spectrometry proteomics (2)
Illumina HiSeq 2500, ILLUMINA, Illumina HiSeq 2000 (1)
ILLUMINA, Illumina HiSeq 2000 (1)
AB SOLiD 4 System (1)
Illumina HiSeq 2000 (1)
Illumina MiSeq (1)
Illumina HiSeq 2000, ILLUMINA (1)
NMR spectroscopy assay (1)
NMR spectroscopy (1)
PAcIFIC (1)
Mass spectrometry imaging (1)
Affinity proteomics (1)
All-ion fragmentation (1)
DiaPASEF (1)

Instrument Platform

Illumina NovaSeq 6000 (73)
Illumina HiSeq 2500 (43)
Illumina HiSeq 2000 (37)
Illumina HiSeq 4000 (31)
NextSeq 500 (26)
NextSeq 550 (10)
Illumina NovaSeq X (6)
Illumina HiSeq 1500 (6)
Illumina Genome Analyzer IIx (5)
Single cells were captured using the 10x Genomics Chromium Controller. (4)
Sony SH800 (4)
418 [Affymetrix] (3)
GenePix 4000B [Axon Instruments] (3)
Illumina MiSeq (3)
Illumina HiSeq 3000 (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)
Element AVITI (2)
Chromium 10x (2)
Illumina BeadArray reader (2)
Agilent G2505B scanner (2)
NextSeq 2000 (2)
HiSeq X Ten (2)
Gentle MACS; BD FACS Aria III (1)
ICELL8 MultiSample NanoDispenser (1)
Illumina NOVAseq 6000 (1)
In-house Perl scripts (1)
BD FACS Aria II (1)
Eppendorf EpMotion 5073m pipetting robot (1)
-- (1)
Python (1)

Publication Date

2013 (431)
2025 (383)
2026 (340)
2023 (321)
2010 (297)
2015 (296)
2024 (296)
2011 (289)
2020 (285)
2014 (259)
2012 (245)
2021 (229)
2016 (212)
2022 (201)
2008 (147)
2019 (125)
2018 (125)
2017 (105)
2009 (102)
2007 (56)
2006 (23)
2005 (19)
2004 (8)
2003 (2)

UNIPROT ID/AC

O43526 (1)
O88944 (1)
P13473 (1)
P37840 (1)
P29992 (1)
P47736 (1)
Q62636 (1)
P10113 (1)
Q9QYV3 (1)
P47196 (1)
P47197 (1)
P63086 (1)
P21708 (1)
P36506 (1)
Q01986 (1)
Q99MC6 (1)
P11345 (1)
P50904 (1)
Q9Z1I2 (1)
Q63531 (1)
Q9Z1I1 (1)
P35739 (1)
P25427 (1)
Q63484 (1)
Q9QX70 (1)
P07522 (1)
A0A1S4C5Z3_TOBAC (1)
A1XEL4_TOBAC (1)
SAHH_TOBAC (1)
A0A1S4BAB4_TOBAC (1)

ENSEMBL ID

ENSRNOP00000009359 (1)
ENSG00000229353 (1)
ENSG00000147251 (1)
ENSG00000170477 (1)

CHEBI ID

CHEBI:25094 (13)
CHEBI:18237 (13)
CHEBI:25017 (13)
CHEBI:15428 (13)
CHEBI:22660 (12)
CHEBI:28300 (12)
CHEBI:24898 (12)
CHEBI:15741 (12)
CHEBI:16449 (12)
CHEBI:18012 (12)
CHEBI:17822 (11)
CHEBI:18186 (11)
CHEBI:26986 (11)
CHEBI:18257 (11)
CHEBI:28044 (11)
CHEBI:18243 (6)
CHEBI:43000 (1)
CHEBI:30111 (1)
CHEBI:38322 (1)
CHEBI:38309 (1)
CHEBI:5235 (1)
CHEBI:25107 (1)
CHEBI:18420 (1)
CHEBI:16595 (1)
CHEBI:18348 (1)
CHEBI:17526 (1)
CHEBI:16749 (1)
CHEBI:15996 (1)
CHEBI:17552 (1)
CHEBI:15422 (1)

Metabolite Name

Creatine (9)
Inosine (9)
Leucine (8)
Pantothenic acid (8)
Choline (8)
Lysine (8)
Proline (8)
Adenine (8)
L-Arginine (7)
Succinic acid (7)
Methionine (7)
Isoleucine (7)
Glutamine (7)
Uric acid (7)
Xanthine (7)
Sucrose (7)
Creatinine (7)
Pyruvic acid (6)
Beta-Alanine (6)
Glycine (6)
Uracil (6)
Valine (6)
Pyroglutamic acid (6)
Niacinamide (6)
ADP (6)
Allantoin (6)
Fumaric acid (6)
Taurine (6)
Citric acid (6)
Tyrosine (6)

First Public Date

2025 (370)
2023 (299)
2026 (296)
2024 (284)
2020 (259)
2014 (219)
2021 (151)
2022 (147)
2019 (106)
2017 (91)
2018 (82)
2016 (63)
2015 (54)
2013 (31)
2011 (1)

Modelling Approach

Ordinary differential equation model (4)

Study status

Recruiting (1)

Lab affiliation

Leibniz Institute on Aging - Fritz Lipmann Institute (FLI) Beutenbergstraße 11 07745 Jena, Germany (3)
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)
Department of Systems Pharmacology and Translational Therapeutics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA (2)
Cologne Excellence Cluster for Cellular Stress Responses in Aging-Associated Diseases (CECAD), University of Cologne, Joseph Stelzmann Strasse 26, 50931 Cologne, Germany. (2)
Department of Pharmaceutical Sciences, Leslie Dan Faculty of Pharmacy, University of Toronto (2)
Department of Physiology, Development and Neuroscience, University of Cambridge, Downing Street, Cambridge CB2 3DY, UK. (2)
Biomolecular Mass Spectrometry and Proteomics, Bijvoet Center for Biomolecular Research and Utrecht Institute for Pharmaceutical Sciences, University of Utrecht, Padualaan 8, 3584 CH Utrecht, the Netherlands. (2)
Max-Planck-Institute of Biochemistry (2)
Kinases and Brain Development Lab, The Francis Crick Institute (UK) (2)
Medizinisches Proteom-Center, Medical Faculty, Ruhr-University Bochum, 44801 Bochum, Germany (2)
Max-Delbrueck-Centre for Molecular Medicine (MDC), Berlin, Germany. (2)
St. Jude Children's Research Hospital (2)
Proteomics Unit, Department of Biochemistry, Chemistry Institute, Federal University of Rio de Janeiro (UFRJ). Av. Athos da Silveira Ramos, 149 - bloco A 5° andar - Cidade Universitária da Universidade Federal do Rio de Janeiro, Rio de Janeiro - RJ, 21941-909, Brazil. (1)
State Key Laboratory for Infectious Disease Prevention and Control, Prion disease department, National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Beijing, People’s Republic of China (1)
Max-Planck of Biochemistry, Experimental Systems Immunology Germany (1)
1Target Discovery Institute, Nuffield Department of Medicine, University of Oxford, Roosevelt Drive, Oxford, OX3 7FZ, UK (1)
Institut du Fer a Moulin, Inserm-Sorbonne Université UMR-S 1270, Paris, France (1)
Biomedical Proteomics Platform, Department of Health Sciences and Technology, ETH Zurich, 8093 Zurich, Switzerland Institute of Molecular Systems Biology at the Department of Biology, ETH Zurich, Zurich 8093, Switzerland (1)
Laboratory of Neuronal Cell Biology, National Institute for Basic Biology, Okazaki, Aichi (1)
associate professor of neurology Institute for cell engineering Johns hopkins university school of medicine (1)
Center for Diagbostik, Institute of Neuropathology, University Medical Center Hamburg Eppendorf, Germany (1)
Biomedical Research Institute, Foundation for Research and Technology-Hellas, Ioannina, Greece. (1)
Core Facility Proteomics - ZBSA - Freiburg University (1)
Department of Clinical Research, University of Bern (1)
Istituto Italiano di Tecnologia Via Morego 30, 16163 Genova Italy (1)
Department of Neurology, Emory School of Medicine (1)
Institute of Cellular Neurosciences II University of Bonn, Germany (1)
Centre for Genomic Regulation, Barcelona Institute of Science and Technology (BIST), Barcelona 08003, Spain (1)
Max-Planck-Institute for Biology of Ageing Department of Mitochondrial Proteostasis Joseph-Stelzmann-Str. 9b 50931 Cologne Email: tlanger@age.mpg.de (1)
Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, MA 02139 (1)

IsPrivate

False (4)

Study type

Transcription profiling by array (1142)
ChIP-seq (338)
RNA-seq of coding RNA (326)
ChIP-chip by tiling array (148)
RNA-seq of coding RNA from single cells (49)
Methylation profiling by high throughput sequencing (45)
RNA-seq of non coding RNA (33)
Other (29)
Methylation profiling by array (26)
Unknown experiment type (20)
RNA-seq of total RNA (14)
Cell line - High-throughput sequencing (13)
ChIP-chip by array (13)
Comparative genomic hybridization by array (13)
Transcription profiling by tiling array (9)
ATAC-seq (8)
ScATAC-seq (7)
MicroRNA profiling by array (5)
Transcription profiling by SAGE (3)
Cell line - Single-cell sequencing (3)
High-throughput sequencing (3)
Transcription profiling by RT-PCR (3)
DNA-seq (3)
Differential (2)
Human - Single-cell sequencing (2)
Human - High-throughput sequencing (2)
Cell line - One-color microarray (2)
Animal - High-throughput sequencing (2)
RNAi profiling by array (2)
Genotyping by array (2)

Release Date

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2020 (1203)
2019 (962)
2018 (942)
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2012 (577)
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2009 (286)
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2026 (213)
2007 (145)
2006 (96)
2005 (72)
2004 (61)
2003 (39)
2001 (30)
2002 (29)
2000 (7)
1999 (7)
1998 (7)
1997 (7)

Location

Italy (1)

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Large neutral amino acid levels tune perinatal neuronal excitability and survival

Surprisingly little is known about the critical metabolic changes that neural cells have to undergo during development and how even mild, temporary shifts in this program can influence brain circuitries and behavior. Inspired by the discovery that mutations in SLC7A5, a transporter of metabolically-...

2023-03-28 | MTBLS6578 | MetaboLights

Maternal lipid mobilization is essential for embryonic development in a key malaria vector

Lipid metabolism is an essential component in reproductive physiology. While lipid mobilization has been implicated in the growth of Plasmodium falciparum malaria parasites in their Anopheles vectors, the role of this process in the reproductive biology of these mosquitoes remains elusive. Here, we ...

2024-11-05 | MTBLS9881 | MetaboLights

Gut microbiota-derived butyric acid protected against secondary brain injury after SAH by inhibiting neuronal pyroptosis and regulating gut microbiota composition (Human assays)

BACKGROUND: Subarachnoid hemorrhage (SAH) is a devastating cerebrovascular disease with a poor prognosis. Accumulating studies have reported that gut microbiota contributes to the pathophysiology of several central nervous system diseases. However, whether SAH can change gut micr...

2024-07-09 | MTBLS9087 | MetaboLights

Gut microbiota-derived butyric acid protected against secondary brain injury after SAH by inhibiting neuronal pyroptosis and regulating gut microbiota composition (Murine assays)

2024-07-09 | MTBLS9100 | MetaboLights

PP2Acα regulates cerebellar development via phosphorylation-dependent neuronal programs

The proteomics and phosphorylation proteomics of PP2Acα regulates cerebellar development via phosphorylation-dependent neuronal programs.

ORGANISM(S): Mus Musculus

2025-11-28 | PXD071414 |

Polystyrene nanoparticles promote endometrial cancer development through the ACSS2-mediated reprogramming of arachidonic acid metabolism

Microplastics and nanoplastics are commonly found in our everyday environments. So far, microplastics and nanoplastics have been detected in various tissues and bodily fluids, including hair, sputum, digestive tissue, lungs, blood, and placental tissue. Although some studies indicate that micropl...

2026-02-05 | MTBLS13850 | MetaboLights

Transcriptional networks identify synaptotagmin-like 3 as a regulator of cortical neuronal migration during early neurodevelopment

Human brain development is a complex process involving neural proliferation, differentiation, and migration which are directed by many essential cellular factors and drivers. Here, using the NetBID2 algorithm and developing human brain RNA sequencing(RNA-Seq) dataset, we identified synaptotagmin-lik...

ORGANISM(S): Homo sapiens

2021-02-07 | E-MTAB-10058 | biostudies-arrayexpress

Identification of a neuronal gene expression signature: Role of cell-cycle arrest in murine neuronal differentiation in vitro

Stem cells are a potential key strategy for treating neurodegenerative diseases in which the generation of new neurons is critical. A better understanding of the characteristics and molecular properties of neural stem cells (NSC) and differentiated neurons can help in assessing neuronal maturity and...

ORGANISM(S): Mus musculus

2011-11-28 | E-GEOD-24116 | biostudies-arrayexpress

Long non-coding RNAs and microRNAs involved in integrated co-regulation of neuronal maturation [mRNA and lncRNA expression]

Neurogenesis is a pro-survival process that comprises of dendritic and axonal growth, synaptogenesis, synaptic and neuronal pruning. These complex processes are determined by temporal gene expression during development, which is in turn tightly regulated by long non-coding RNAs and microRNAs. In thi...

ORGANISM(S): Mus musculus

2014-10-24 | E-GEOD-44833 | biostudies-arrayexpress

Sex specific pertubations of neuronal development caused by mutations in the autism risk gene DDX3X

DDX3X is an X-linked RNA helicase that escapes X chromosome inactivation and is expressed at higher levels in female brains. Mutations in DDX3X are associated with intellectual disability (ID) and autism spectrum disorder (ASD) and are predominantly identified in females. Using cellular and mouse mo...

ORGANISM(S): Mus musculus (Mouse)

2025-05-26 | PXD060033 | Pride

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