Single cell sequencing confirms that chemistry version sensitivity is not key factor in detection of artificial signature or identification of signature specifc genes.
Ontology highlight
ABSTRACT: Single Cell Sequencing of FACS purified microglia/myeloid cells isolated with cold mechanical dounce homogenization. Following cell dissociation, the cells from each mouse were split in half and assigned to V3.0 and V3.1 prior to FACS and cell capture.
Project description:Single cell sequencing confirms that chemistry version sensitivity is not key factor in detection of artificial signature or identification of signature specifc genes.
| PRJNA778787 | ENA
Project description:PIPseq T20 v3.0 versus 10x Genomics Chromium Next GEM Single Cell 3' Kit v3.1 Dual Index
Project description:We performed Smart-seq2 scRNAseq on 156 pancreatic tuft cells . We also profiled FACS sorted EpCAM+;CD45+ immune cells and EpCAM-;CD45- non-immune stroma cells from from 3 caerulein-treated KC and 2 caerulein-treated KPouC pancreata by using the 10X Genomics 3' scRNAseq v3.1 kit.
Project description:We report transcriptomes of pre-sorted skin wound dermal cells. Post-wounding day (PWD) 12, 15 and 21 Zombie-neg;tdTomatoHi cells were FACS sorted from Sm22-Cre;TdTomato mice.
Project description:Brachionus rotundiformis were obtained by filtration of a non-axenic culture to remove feeder algae. Rotifers were flash frozen, ground in liquid nitrogen, and lysed by resuspension in buffer containing 0.2% NP40 with dounce homogenization. Native protein lysate was fractionated on an HPLC SEC and all fractions reduced/alkylated and digested with trypsin for LC-MS/MS. Data collection was with a 75 minute top speed DDA method on an Orbitrap fusion using HCD. Data processing was with MSBlender.
Project description:The central nervous system is functionally organized as a dynamic network of interacting neural circuits that underlies observable behaviors. At higher resolution, these behaviors, or phenotypes, are defined by the activity of a specific set of biomolecules within those circuits. Identification of molecules that govern psychiatric phenotypes is a major challenge. The only organic molecular entities objectively associated with psychiatric phenotypes in humans are drugs that induce psychiatric phenotypes and drugs used for treatment of specific psychiatric conditions. Here, we identified candidate biomolecules contributing to the organic basis for psychosis by deriving an in vivo biomolecule-tissue signature for the atypical pharmacologic action of the antipsychotic drug clozapine. Our novel in silico approach identifies the ensemble of potential drug targets based on the drug's chemical structure and the region-specific gene expression profile of each target in the central nervous system. We subtracted the signature of the action of clozapine from that of a typical antipsychotic, chlorpromazine. Our results implicate dopamine D4 receptors in the pineal gland and muscarinic acetylcholine M1 (CHRM1) and M3 (CHRM3) receptors in the prefrontal cortex (PFC) as significant and unique to clozapine, whereas serotonin receptors 5-HT2A in the PFC and 5-HT2C in the caudate nucleus were common significant sites of action for both drugs. Our results suggest that D4 and CHRM1 receptor activity in specific tissues may represent underappreciated drug targets to advance the pharmacologic treatment of schizophrenia. These findings may enhance our understanding of the organic basis of psychiatric disorders and help developing effective therapies.