Cortical neuron

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Tissue

Brain (58)
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Neuron of cerebral cortex (12)
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Primary neuron (6)
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Cerebral cortex neuron (4)
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CNS neuron (sensu Vertebrata) (2)
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Disease

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Technology Type

Mass Spectrometry (88)
Shotgun proteomics (47)
Affinity purification coupled with mass spectrometry proteomics (20)
Bottom-up proteomics (15)
Data-independent acquisition (8)
Data-dependent acquisition (6)
SWATH MS (5)
Gel-based experiment (3)
Mass spectrometry assay (2)
Mass spectrometry (2)
ILLUMINA, Illumina HiSeq 2500 (1)
HDMSE (1)

Instrument Platform

Illumina NovaSeq 6000 (32)
Illumina HiSeq 2500 (19)
NextSeq 500 (14)
Illumina HiSeq 4000 (11)
Orbitrap Fusion Lumos (8)
Illumina HiSeq 2000 (5)
NextSeq 550 (4)
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)
Illumina NovaSeq X (2)
LTQ Orbitrap Elite (2)
LTQ Orbitrap Velos (2)
Orbitrap Exploris 480 (2)
Q Exactive HF (2)
-- (1)
Chromium Next GEM Chip G (1)
10X v3 (1)
Nanopore sequencing (1)
BD Rhapsody (1)
Qubit 4.0 and TapeStation (1)
Element AVITI (1)
Illumina HiSeq 4000 system (1)
Cutadapt, STAR (1)
TruSeq Stranded mRNA Sample Prep Kit (Illumina) (1)
BD InFlux Cytometer (Becton-Dickinson) (1)
Not applicable (1)
Illumina MiniSeq (1)
NextSeq 2000 (1)
MinION (1)
HiSeq X Ten (1)
Instrument (1)

Publication Date

2026 (82)
2024 (80)
2015 (77)
2025 (65)
2023 (57)
2021 (57)
2016 (49)
2022 (47)
2013 (46)
2012 (41)
2014 (38)
2020 (30)
2018 (24)
2010 (21)
2008 (21)
2019 (20)
2011 (19)
2009 (18)
2007 (15)
2017 (14)
2006 (3)
2004 (2)
2005 (1)

UNIPROT ID/AC

10116.ENSRNOP00000000015 (1)
10116.ENSRNOP00000003558 (1)
10116.ENSRNOP00000004657 (1)
10116.ENSRNOP00000012904 (1)
10116.ENSRNOP00000013100 (1)
10116.ENSRNOP00000018309 (1)
10116.ENSRNOP00000022328 (1)
10116.ENSRNOP00000023502 (1)
10116.ENSRNOP00000038798 (1)
10116.ENSRNOP00000041168 (1)
10116.ENSRNOP00000050143 (1)
10116.ENSRNOP00000050794 (1)
10116.ENSRNOP00000057948 (1)
10116.ENSRNOP00000059474 (1)
10116.ENSRNOP00000061523 (1)
10116.ENSRNOP00000062001 (1)
10116.ENSRNOP00000065069 (1)
10116.ENSRNOP00000066087 (1)
10116.ENSRNOP00000066126 (1)
10116.ENSRNOP00000067294 (1)
10116.ENSRNOP00000067711 (1)
1433B_RAT (1)
1433E_RAT (1)
1433F_RAT (1)
1433G_RAT (1)
1433T_RAT (1)
1433Z_RAT (1)
2AAB_RAT (1)
2ABA_RAT (1)
2ABD_RAT (1)

CHEBI ID

CHEBI:15996 (2)
CHEBI:17552 (2)
CHEBI:15422 (2)
CHEBI:16761 (2)
CHEBI:16908 (2)
CHEBI:136254 (1)
CHEBI:71881 (1)
CHEBI:71871 (1)
CHEBI:167224 (1)
CHEBI:71846 (1)
CHEBI:71844 (1)
CHEBI:71826 (1)
CHEBI:145855 (1)
CHEBI:167277 (1)
CHEBI:167266 (1)
CHEBI:156028 (1)
CHEBI:167229 (1)
CHEBI:167227 (1)
CHEBI:71839 (1)
CHEBI:156015 (1)
CHEBI:71833 (1)
CHEBI:167217 (1)
CHEBI:167219 (1)
CHEBI:194401 (1)
CHEBI:89824 (1)
CHEBI:74930 (1)
CHEBI:194400 (1)
CHEBI:194399 (1)
CHEBI:194398 (1)
CHEBI:64608 (1)

Metabolite Name

Acetyl-CoA (2)
NADPH (2)
Trehalose 6-phosphoric acid (1)
3-phosphoglycerol (1)
Erythose-4-phosphoric acid (1)
Ribulose-1,5-bisphosphate (1)
ADPglucose (1)
Nicotinamide adenine dinucleotide phosphate (NADP+) (1)
Beta-Nicotinamide adenine dinucleotide reduced (NADH) (1)
Beta-Nicotinamide adenine dinucleotide (NAD+) (1)
Adenosine 5'-triphosphate (5'-ATP) (1)
Inosine 5'-monophosphate (5'-IMP) (1)
Ketoleucine (4-Methyl-2-oxopentanoic acid) (1)
S-(5'-Adenosyl)-L-methionine (SAM) (1)
Adenosine 5'-monophosphate (5'-AMP) (1)
L-Glutathione reduced (1)
C-di-AMP (1)
Ribulose 5-phosphate (1)
UDPglucose (1)
L-Glutathione oxidized (1)
Ribose 5-phosphate (1)
Cis-Aconitate (1)
2,3-Diphosphoglyceric acid (1)
Trans-Aconitate (1)
Xylulose 5-phosphate (1)
Glyceraldehyde 3-phosphate (1)
Thiamine pyrophosphate (1)
Tetrahydrofolic acid (1)
Acetoacetic acid (1)
2-phosphoglycerate (1)

First Public Date

2026 (69)
2025 (62)
2024 (62)
2023 (39)
2021 (35)
2020 (31)
2018 (25)
2022 (23)
2014 (22)
2019 (15)
2017 (15)
2016 (10)
2015 (9)
2013 (3)

Modification

2x(15)N labeled L-lysine (1)
4x(15)N labeled L-arginine (1)
N6-dimethyl-L-lysine (1)

Study type

Transcription profiling by array (206)
RNA-seq of coding RNA (110)
ChIP-seq (25)
RNA-seq of coding RNA from single cells (24)
Other (5)
Methylation profiling by high throughput sequencing (5)
RNA-seq of total RNA (5)
ChIP-chip by tiling array (3)
Ribo-seq (3)
Unknown experiment type (2)
Animal - High-throughput sequencing (2)
RNA-seq of non coding RNA (2)
Cell line - Single-cell sequencing (1)
Animal - Single-cell sequencing (1)
Cell line - High-throughput sequencing (1)
Genotyping by array (1)
Capture-C (1)
CLIP-seq (1)
MicroRNA profiling by high throughput sequencing (1)
Spatial transcriptomics by high-throughput sequencing (1)
ATAC-seq (1)
ScATAC-seq (1)
Single nucleus RNA sequencing (1)
DNA-seq (1)
Methylation profiling by array (1)

Release Date

2023 (243)
2024 (242)
2025 (241)
2022 (228)
2021 (220)
2020 (212)
2019 (183)
2015 (183)
2018 (179)
2016 (168)
2017 (147)
2014 (135)
2012 (94)
2013 (93)
2010 (71)
2009 (59)
2011 (57)
2026 (49)
2008 (44)
2007 (28)
2006 (10)
2004 (7)
2005 (7)
2003 (3)
2001 (2)
1999 (2)
1998 (2)
2000 (1)

Lab affiliation

Paris-Saclay Institute of Neuroscience, Team Melki, CNRS, Gif-sur-Yvette, France (4)
DZNE Munich, Neuroproteomics, Feodor-Lynen-Str. 17, 81377 München, Germany (3)
Institute of Neuronal Cell Biology Technical University of Munich Germany (3)
Cell Biology and Physiology, University of North Carolina at Chapel Hill, North Carolina, USA (2)
VIB Center for Brain & Disease Research, Herestraat 49, 3000 Leuven, Belgium. (2)
Biogen (1)
Biomedical Research Institute, Foundation for Research and Technology-Hellas, University Campus, 45110 Ioannina, Greece (1)
Brain Injury Center, Renji Hospital, School of Medicine, Shanghai Jiao Tong University; Shanghai Institute of Head Trauma, Shanghai, China, 200127. (1)
Cell Biology, Faculty of Science, Utrecht University, TheNetherlands (1)
Cellzome (1)
Centre de recherche du Centre Hospitalier Universitaire (CHU) de Quebec-Université Laval, Québec, QC, Canada Centre de recherche sur le cancer de l’Université Laval, Québec, QC, Canada PROTEO-Quebec Network for Research on Protein Function, Engineering, and Applications, Québec, QC, Canada Department of Molecular Biology, Medical Biochemistry and Pathology, Université Laval, Québec, QC, Canada (1)
Clinical Neuroproteomics Group, Navarrabiomed (Spain) (1)
Core Unit Proteomics, BIH at Charite and MDC, Robert Roessle Strasse 10, 13125 Berlin (1)
DZNE: German center for Neurodegenerative Diseases, Munich, https://www.dzne.de/index.php?id=105&L=1 (1)
Dana Farber Cancer Institute, Boston, MA Harvard Medical School, Boston, MA (1)
Department for Cell Biology Biomedical Center (BMC) Medical Faculty, LMU Großhaderner Straße 9, 82152 Planegg-Martinsried, Germany (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 Biochemistry and Molecular Biology The University of Melbourne Australia (lab head) (1)
Department of Biochemistry, University of Otago, New Zealand (1)
Department of Biochemistry, University of Oxford, Oxford, UK (1)
Department of Biological Sciences Rutgers University Newark (1)
Department of Cell Biology, Emory University School of Medicine, Atlanta, GA, USA (1)
Department of Cellular and Molecular Medicine, University of Copenhagen (1)
Department of Chemistry and Biotechnology Tallinn University of Technology Estonia (1)
Department of Health Sciences and Technology (D-HEST) Institute of Molecular Systems Biology (IMSB) ETH Zürich (1)
Department of Life Sciences, University of Bath, UK (1)
Department of Neurological Surgery, Washington University in St. Louis School of Medicine (1)
Department of Neuromuscular Diseases and UCL Queen Square Motor Neuron Disease Centre, University College London, London, United Kingdom (1)
Department of Neuroscience, Washington University School of Medicine, St. Louis, MO 63110, USA (1)
Department of Pathophysiology, Second Faculty of Medicine, Charles University in Prague (1)

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Uncovering the Molecular Logic of Cortical Wiring between Neuronal subtypes Across Development Through Ligand–Receptor Inference

The cerebral cortex comprises diverse excitatory and inhibitory neuron subtypes, each with distinct laminar positions and connectivity patterns. Yet, the molecular logic underlying their precise wiring remains poorly understood. To identify ligand–receptor (LR) interactions involved in cortical circ...

ORGANISM(S): Mus musculus

2026-01-30 | E-MTAB-16260 | biostudies-arrayexpress

Single-nucleus data for Uncovering the Molecular Logic of Cortical Wiring between Neuronal subtypes Across Development Through Ligand–Receptor Inference

ORGANISM(S): Mus musculus

2025-12-14 | E-MTAB-16355 | biostudies-arrayexpress

Single cell transcriptomics analysis of induced pluripotent stem cell-derived cortical neurons reveals frequent dual layer identity

Induced pluripotent stem cell (iPSC)-derived cortical neurons present a powerful new model of neurological disease. Previous work has established that differentiation protocols produce cortical neurons but little has been done to characterise these at cellular resolution. In particular, it is unclea...

ORGANISM(S): Homo sapiens

2016-01-08 | E-GEOD-69790 | biostudies-arrayexpress

Proneurogenic ligands defined by modeling developing cortex growth factor communication networks

The neural stem cell decision to self-renew or differentiate is tightly regulated by its microenvironment. Here, we have asked about this microenvironment, focusing on growth factors in the embryonic cortex at a time when it is largely comprised of neural precursor cells (NPCs) and newborn neurons. ...

ORGANISM(S): Mus musculus

2016-08-23 | E-GEOD-84482 | biostudies-arrayexpress

Expression profiles of primary cortical neurons after knocking down Fus

To clarify the functional properties of FUS, we established the differentially expressed alternative exons in FUS-silenced primary cortical neurons by using exon-sensitive microarray technology. We analyzed total RNA of primary cortical neuron infected with lentivirus expressing shRNA against mouse ...

ORGANISM(S): Mus musculus

2012-07-23 | E-GEOD-36153 | biostudies-arrayexpress

PHF6 knockdown in rat cortical neurons

E18 embryonic rat cortical neurons cultured in vitro are infected with lentivirus expressing control or PHF6shRNA-2, and harvested 5 days after infection pLL3.7 lentivirus expressing control or PHF6shRNA-2 was generated in 293T cells and concentrated using ultracentrifuge. In vitro cultured cortical...

ORGANISM(S): Rattus norvegicus

2013-08-01 | E-GEOD-45953 | biostudies-arrayexpress

The protomap is propagated to cortical plate neurons through an Eomes-dependent intermediate map

The cortical area map is initially patterned by transcription factor (TF) gradients in the neocortical primordium, which define a protomap in the embryonic ventricular zone (VZ). However, mechanisms that propagate regional identity from VZ progenitors to cortical plate (CP) neurons are unknown. Here...

ORGANISM(S): Mus musculus

2013-04-02 | E-GEOD-43387 | biostudies-arrayexpress

Transcription profiling of mouse FACS-purified cortical projection neurons using Affymetrix 430 2.0 microarrays

3 subtypes of cortical projection neurons were purified by fluorescence-activated cell sorting (FACS) at 4 different stages of development from mouse cortex. A detailed description of the data set is described in Arlotta, P et al (2005) and Molyneaux, BJ et al (2009). The hybridization cocktails use...

ORGANISM(S): Mus musculus

2009-10-09 | E-GEOD-17783 | biostudies-arrayexpress

Transcription profiling of mouse FACS purified cortical projection neurons

3 subtypes of cortical projection neurons were purified by fluorescence-activated cell sorting at 4 different stages of development from mouse cortex. A detailed description of the data set is described in Arlotta, P et al (2005)

ORGANISM(S): Mus musculus

2007-11-20 | E-GEOD-2039 | biostudies-arrayexpress

Mutual Regulation between Satb2 and Fezf2 Promotes Subcerebral Projection Neuron Identity in the Developing Cerebral Cortex

This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

ORGANISM(S): Mus musculus

2015-09-08 | E-GEOD-68912 | biostudies-arrayexpress

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