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Expression data from DD neurons isolated from early L1 stage C. elegans larvae.

ABSTRACT: Six DD class GABAergic neurons are generated in the embryo to synapse with ventral muscles and receive input from cholinergic neurons in the dorsal nerve cord. After hatching and toward the end of the first larval (L1) stage, DD neurons reverse polarity (i.e., synapse with dorsal muscles, receive ventral cholinergic inputs). Expression profiles were generated from DD neurons in the early L1 stage before the initiation of the remodeling program. We used microarray analysis to detect transcripts with potential roles in DD remodeling.

ORGANISM(S): Caenorhabditis elegans

PROVIDER: GSE71618 | GEO | 2015/08/01

SECONDARY ACCESSION(S): PRJNA291625

REPOSITORIES: GEO

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Expression data from DD neurons isolated from early L1 stage C. elegans larvae.

Project description:Six DD class GABAergic neurons are generated in the embryo to synapse with ventral muscles and receive input from cholinergic neurons in the dorsal nerve cord. After hatching and toward the end of the first larval (L1) stage, DD neurons reverse polarity (i.e., synapse with dorsal muscles, receive ventral cholinergic inputs). Expression profiles were generated from DD neurons in the early L1 stage before the initiation of the remodeling program. We used microarray analysis to detect transcripts with potential roles in DD remodeling. We used FACS to isolate ttr-39::mCherry labeled DD GABAergic motor neurons from a synchronized population of L1 larvae and amplified and labeled total RNA to generate Affymetrix Genome Array data. The DD data sets were compared to an expression profile obtained from all cells in a matched population of synchronized L1 larvae. See Spencer et al. PLOS One 9, e112102 (2014).

2015-08-01 | E-GEOD-71618 | biostudies-arrayexpress

Astrocyte-encoded positional cues maintain sensorimotor circuit integrity

Project description:Astrocytes, the most abundant cells in the central nervous system, promote synapse formation and help refine neural connectivity. Although they are allocated to spatially distinct regional domains during development, it is unknown whether region-restricted astrocytes are functionally heterogeneous. Here we show that postnatal spinal cord astrocytes express several region-specific genes, and that ventral astrocyte-encoded Semaphorin3a (Sema3a) is required for proper motor neuron and sensory neuron circuit organization. Loss of astrocyte-encoded Sema3a led to dysregulated α−motor neuron axon initial segment orientation, markedly abnormal synaptic inputs, and selective death of α−but not of adjacent γ−motor neurons. Additionally, a subset of TrkA+ sensory afferents projected to ectopic ventral positions. These findings demonstrate that stable maintenance of a positional cue by developing astrocytes influences multiple aspects of sensorimotor circuit formation. More generally, they suggest that regional astrocyte heterogeneity may help to coordinate postnatal neural circuit refinement. 12 total samples consisting of three biological replicates each of flow sorted postnatal day 7 dorsal spinal cord astrocytes, ventral spinal cord astrocytes, dorsal SC non astrocytes, and ventral SC non astrocytes

2014-05-02 | E-GEOD-55054 | biostudies-arrayexpress

Single cell RNA sequencing of NK cells from MHC class I knockout (Dd-/-), and H-2Dd transgenic (Dd+/- or Dd+/+) mice

Project description:To identify possible transcriptional changes induced by NK cell education in this reductionistic model, we performed single cell RNA sequencing (scRNA-seq) on single positive Ly49A (NKG2A-Ly49G2-Ly49I-Ly49C-, denoted as sp-Ly49A, NK cells from Dd-/-, Dd+/- and Dd+/+ mice. To ensure minimum batch-effects, sorted sp-Ly49A cells from Dd-/-, Dd+/-, and Dd+/+ mice were hash-tagged with oligo-labelled CD45 antibodies, pooled and sequenced together.

2023-04-04 | E-MTAB-11481 | biostudies-arrayexpress

Floc'hlay2020 - SeaUrchin_model_ginsim

Project description:Multilevel logical model encompassing the Nodal and BMP pathways together with key transcription factors setting the dorsal-ventral axis in the sea urchin P. lividus embryo. This model accounts for the specification of wild-type ventral ectoderm, ciliary band and dorsal ectoderm, and further recapitulates sophisticated mutant phenotypes.

2021-01-06 | MODEL2002190001 | BioModels

Distinct transcriptomic, proteomic and epigenetic stress-responses in dorsal and ventral hippocampus

Project description:The hippocampus - one of the most studied brain regions – is a key target of the stress response and vulnerable to the detrimental effects of stress. Although its intrinsic organization is highly conserved throughout its long dorsal-ventral axis, the dorsal hippocampus is linked to spatial navigation and memory formation, whereas the ventral hippocampus is linked to emotional regulation. Here, we provide the first combined transcriptomic and proteomic profiling that reveals striking differences between dorsal and ventral hippocampus. Using various acute stress challenges we demonstrate that both regions display very distinct molecular responses, and that the ventral hippocampus is particularly responsive to the effects of stress. We demonstrate that separately analyzing dorsal and ventral hippocampus greatly increases the ability to detect region-specific stress effects, and we identify an epigenetic network, which is specifically sensitive to acute stress in the ventral hippocampus.

2019-10-03 | PXD006781 | Pride

Post dose-dense (dd) MVAC tumors

Project description:post dd MVAC tumors were used for the validation of bladder cancer subsets

2014-02-10 | GSE52329 | GEO

Proteomic profile of hippocampus regions from the pilocarpine medial temporal lobe epilepsy model

Project description:Label-free Proteomic profile of the dentate gyrus (dorsal and ventral) and CA3 (dorsal and ventral) microdissected from the hippocampus of the pilocarpine model of Mesial Temporal Lobe Epilepsy.

2024-03-25 | MSV000094401 | MassIVE

Post dose-dense (dd) MVAC tumors

Project description:post dd MVAC tumors were used for the validation of bladder cancer subsets dd MVAC cohort consisted of 20 post-treatment tumors were used to validate the bladder cancer subsets Please note that the GEO accession number for the corresponding pretreatment sample (with matching TURBT Information) is provided in the sample description field.

2014-02-10 | E-GEOD-52329 | biostudies-arrayexpress

Drosophila Cholinergic Neurons

Project description:Drosophila Cholinergic Neurons

| PRJNA87141 | ENA

Effect of interleukin-1 and PDGF-DD on SMCs

Project description:This experiment tests the hypothesis that interleukin-1 promotes SMC phenotypic modulation to a distinct inflammatory state relative to the growth factor PDGF-DD.

2012-05-03 | GSE31080 | GEO

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