Browse
Submit Data
Databases
API
Help

Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

14 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Gene expression in cellular compartments of Aplysia sensory neurons

ABSTRACT: Whole genome transcriptional profiling is used to compare ESTs found in cell bodies and processes of Aplysia sensory neurons RNA samples derived from cell bodies or processes of Aplysia single cultured sensory neurons were hybridized to custom Aplysia EST microarrays. Two-condition experiment; four biological replicates for each condition were reciprocally hybridized on each two-color array

ORGANISM(S): Aplysia californica

SUBMITTER: Sergey Kalachikov

PROVIDER: E-GEOD-30388 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Publications

A strategy to capture and characterize the synaptic transcriptome.

Puthanveettil Sathyanarayanan V SV Antonov Igor I Kalachikov Sergey S Rajasethupathy Priyamvada P Choi Yun-Beom YB Kohn Andrea B AB Citarella Mathew M Yu Fahong F Karl Kevin A KA Kinet Maxime M Morozova Irina I Russo James J JJ Ju Jingyue J Moroz Leonid L LL Kandel Eric R ER

Proceedings of the National Academy of Sciences of the United States of America 20130415 18

Here we describe a strategy designed to identify RNAs that are actively transported to synapses during learning. Our approach is based on the characterization of RNA transport complexes carried by molecular motor kinesin. Using this strategy in Aplysia, we have identified 5,657 unique sequences consisting of both coding and noncoding RNAs from the CNS. Several of these RNAs have key roles in the maintenance of synaptic function and growth. One of these RNAs, myosin heavy chain, is critical in pr ...[more]

PMID: 23589870

Similar Datasets

Gene expression in cellular compartments of Aplysia motor neurons

Project description:Whole genome transcriptional profiling is used to compare ESTs found in cell bodies and processes of Aplysia motor neurons RNA samples derived from cell bodies or processes of Aplysia single cultured motor neurons were hybridized to custom Aplysia EST microarrays. Two-condition experiment; four biological replicates for each condition were reciprocally hybridized on each two-color array

2013-04-26 | E-GEOD-30387 | biostudies-arrayexpress

Aplysia kinesin mRNA cargo study

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

2013-04-26 | E-GEOD-30389 | biostudies-arrayexpress

Gene expression in cellular compartments of Aplysia sensory neurons

Project description:Whole genome transcriptional profiling is used to compare ESTs found in cell bodies and processes of Aplysia sensory neurons RNA samples derived from cell bodies or processes of Aplysia single cultured sensory neurons were hybridized to custom Aplysia EST microarrays.

2013-04-26 | GSE30388 | GEO

Whole transcriptome analysis of FACS purified somatosensory neuron subtypes and whole dorsal root ganglia tissue

Project description:The goal of this study was to analyze global gene expression in specific populations of somatosensory neurons in the periphery, including major, non-overlapping populations that include nociceptors, pruriceptors, and prorioceptors. The mammalian somatosensory nervous system encodes the perception of specific environmental stimuli. The dorsal root ganglion (DRG) contains distinct somatosensory neuron subtypes that innervate diverse peripheral tissues, mediating the detection of thermal, mechanical, proprioceptive, pruriceptive, and nociceptive stimuli. We purified discrete subtypes of mouse DRG somatosensory neurons by flow cytometry using fluorescently labeled mouse lines (SNS-Cre/TdTomato, Parv-Cre/TdTomato) in combination with Isolectin B4-FITC surface staining (IB4). This allowed identification of transcriptional differences between these major populations, revealing enrichment of voltage-gated ion channels, TRP channels, G-protein coupled receptors, transcription factors, and other functionally important classes of genes within specific somatosensory neuron subsets. SNS-Cre mice were bred with Rosa26-TdTomato mice to generate SNS-Cre/TdTomato reporter mice. Parv-Cre mice were bred with Rosa26-TdTomato mice to generate Parv-Cre/TdTomato mice. Isolectin B4-FITC was used to stain the surface of SNS-Cre/TdTomato reporter mice. We used these strategies of fluorescent labeling to purify distinct murine sensory neuron subsets from the dorsal root ganglia (DRG) by fluorescence activated cell sorting (FACS). Neurons were sorted directly in Qiazol for total RNA extraction and microarray analysis. Whole DRG tissue was also included for transcriptome analysis to compare with purified neuronal populations.

2014-12-23 | E-GEOD-55114 | biostudies-arrayexpress

Mechanosensitive proteins are sensitized in myelinated afferents following in vivo inflammation

Project description:Here we identified two populations of myelinated sensory neurons that display markedly different phenotypes in terms of their action potential characteristics and responses to mechanical stimuli based on their expression of Calcitonin Gene-Related Peptide (CGRP). Myelinated neurons that did not express CGRP responded to mechanical stimuli with significantly larger currents during whole-cell voltage clamp recordings than their CGRP-positive counterparts, regardless of whether these neurons projected to the dorsal hindpaw skin or the gastrocnemius muscle. Importantly, this discrepancy could not be explained by a differential expression of mechanosensitive or mechanically-gated proteins like Stoml3 or Piezo2. Following inflammation of the skin or muscle, myelinated neurons demonstrated a sensitization to mechanical stimuli characterized by increased current amplitudes. Interestingly, myelinated neurons expressing CGRP are sensitized to mechanical stimuli following cutaneous inflammation of the paw, while myelinated neurons that do not express CGRP are sensitized to mechanical stimuli following inflammation of the gastrocnemius muscle. Microarray data was obtained from these populations by first using Fluorescence-Activated Cell Sorting (FACS) to separate the populations of interest. 15 different samples were analyzed, 3 biological replicates for each group (5 groups: saline paw-injected, CFA paw-injected, saline muscle-injected, acid muscle-injected, and CFA muscle-injected). The saline injected groups (paw and muscle) are considered controls.

2015-11-06 | E-GEOD-65613 | biostudies-arrayexpress

Gene expression in cellular compartments of Aplysia motor neurons

2013-04-26 | GSE30387 | GEO

Herpes Simplex Virus 1 (HSV-1) Infected Cell Protein 0 (ICP0) Targets of Ubiquitination during Productive Infection in Primary Adult Sensory Neurons

Project description:Identify neuron-specific ubiquitin targets of Infected Cell Protein 0 (ICP0) in adult sensory neurons.

2023-03-11 | PXD037767 | Pride

Polycomb-dependent H3K27me1 and H3K27me2 regulate active transcription and enhancer fidelity

Project description:These data include the genome wide location of different histone modifications by ChIP sequencing in mouse ES cells, and RNA Seq data generated from wild type and EED KO mouse ES cells and knocked down for unrelated protein and Setd2 protein. ChIP-Seq: Immuno-precipitation of formaldehyde cross-linked chromatin prepared from wild type mouse E14 ES cells, wild type E36 ES cells, EED KO E36 ES cells, wild type Embryoid bodies (Ebs), EED KO Embryoid bodies (Ebs EED KO) using specific antibody against different histone modifications. RNA-Seq: Total RNA extracted from wild type E36 ES cells, EED KO E36 ES cells, wild type E36 Embryoid bodies (Ebs), EED KO Embryoid bodies (Ebs EED KO), E14 Ctrl KD, E14 Setd2 KD.

2013-12-05 | E-GEOD-51006 | biostudies-arrayexpress

Expression data from wildtype and mec-3 mutant PVD/OLL sensory neurons in C. elegans

Project description:Nociceptive neurons develop a complex dendritic arbor to sense noxious stimuli, which enables animals to react to environmental insults and perform self-protective behaviours. The genetic programs controlling neuronal dendritic morphogenesis are poorly understood. In C. elegans, the PVD sensory neuron generates a complex dendritic arbor that envelops the body of the animal. This nociceptive neuron enables study of dendrite formation in vivo. MEC-3 is a transcription factor expressed in the PVD neuron (Chatzigeorgiou et al., 2010; Li et al., 2011; Way and Chalfie, 1989). mec- 3 mutant PVD neurons fail to elaborate lateral branches and show defective function (Smith et al., 2010; Tsalik et al., 2003) (Husson et al., 2012). We used tiling arrays to identify genes regulated by the mec-3 transcription factor in PVD sensory neurons. We employ the mRNA-tagging method to isolate poly(A) RNA from the PVD and OLL neurons in wildtype and mec-3 mutants (3 replicates each) by expressing a 3X FLAG-tagged poly(A) binding protein PAB-1 in PVD and OLL under control of the ser-2prom3B promoter. The enriched poly(A) RNA is amplified using the NuGEN WT-Pico amplification system and applied to Affymetrix C. elegans tiling microarrays. Whole animal reference samples were obtained by isolating total RNA at the L2/L3 stages in wildtype and mec-3 mutants (2 replicates each) and processed as above.

2013-05-02 | E-GEOD-46530 | biostudies-arrayexpress

RNA-seq of human nociceptor-like sensory neurons at different ages of differentiation

Project description:Induced pluripotent stem cells were differentiated into neural crest progenitors and infected with a lentiviral construct that contains a doxycyclin-inducible Neurogenin 1(Ngn1) cassette. The samples represent RNA-sequencing from initial neural crest stage (day 0) and doxycyclin treatment (days 0 - 10) followed by differentiation without induction of Ngn1 (days 12 till end).

2022-09-30 | E-MTAB-12099 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data