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Single Cell Sequencing Reveals Artifactual Gene Expression in Microglia in Response to Experimental Variability

ABSTRACT: Single Cell Sequencing of FACS purified microglia/myeloid cells isolated with cold mechanical dounce homogenization (24 hrs post tail vein PBS injection)

ORGANISM(S): Mus musculus

PROVIDER: GSE152210 | GEO | 2020/12/01

REPOSITORIES: GEO

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Single cell sequencing confirms that chemistry version sensitivity is not key factor in detection of artificial signature or identification of signature specifc genes.

Project description: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.

2021-11-15 | GSE188441 | GEO

RNA sequencing of CD11b+ mouse bone marrow cells in mice treated with exosomes with or without HDL mimicking nanoparticles

Project description:We report the sequencing of total RNA from CD11b+ mouse bone marrow cells in three groups of C57BL/6 mice: 1) Mice treated with three systemic (tail vein) injections (Days 1, 3, and 5) of phosphate buffered saline (PBS) (pH = 7.4), 2) Mice treated with three tail vein injections (Days 1, 3, and 5) of exosomes derived from enzalutamide resistant CWR-R1 prostate cancer cells (EnzR exosomes), and 3) Mice treated with three tail vein injections of EnzR exosomes (Days 1, 3, and 5) and high-density lipoprotein mimetic nanoparticles (HDL NPs) (Days 0, 2, and 4). Mice were sacrificed on Day 6, when mouse bone marrow was harvested and RNA from CD11b+ cells was obtained. We find that mice treated with EnzR exosome exhibit alteration in the expression of the matricellular protein, thrombospondin-1. Moreover, we find that HDL NP pre-treatment prevented thrombospondin-1 downregulation in mice treated with EnzR exosomes. This is consistent with our published findings that HDL NPs inhibit the uptake of EnzR exosomes by CD11b+ mouse bone marrow cells.

2021-01-06 | GSE158012 | GEO

RNA-seq of liver tissue from mice treated with PBS or extracellular vesicles (EV) from MCF10A or MDA-MB-231 cells

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2021-02-01 | GSE152391 | GEO

Homogenization of tissues via picosecond-infrared laser (PIRL) ablation: Giving a closer view on the in-vivo composition of protein species as compared to mechanical homogenization

Project description:Tissue samples from human tonsils and rat pancreas were subjected to a novel laser-based homogenization method, the PIRL-DIVE homogenization, and to a conventional mechanical tissue homogenization procedure (bead mill and a cryo-grinder). The protein species composition of the protein extracts were compared by differential proteome analysis using two-dimensional gel electrophoresis followed by LC-MS/MS analysis and one-dimensional gel electrophoresis (SDS-PAGE) followed by quantitative LC-MS/MS analysis.

2016-01-25 | PXD003434 | Pride

Discovery and validation of circulating microRNAs as biomarkers for epileptogenesis after experimental traumatic brain injury – the EPITARGET cohort

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Expression data from experimental murine asthma

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Gene Expression in mice liver after knockdown of Rab5

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2015-05-03 | E-GEOD-67227 | biostudies-arrayexpress

Mechanical Strain Induces Transcriptomic Reprogramming of Saphenous Vein Progenitors

Project description:Mechanical Strain Induces Transcriptomic Reprogramming of Saphenous Vein Progenitors

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lung metastasis 100% vs 0%

Project description:Lung metastatic potential of the 29 HNSCC was examined with tail vein metastatic assay as described previously. 1 ×10E6 HNSCC cells in a volume of 200 µL were injected into the lateral tail vein using a 30 gauge needle. Eight to 10 mice were prepared for each cell line. Mice were euthanized using carbon dioxide asphyxiation when they lost more than 15% of their pre-injection body weight or at 90 days after cell injection. Necropsy was performed, and lung was harvested. The lungs were then evaluated for the presence of lung metastases and also weighed.

2017-02-09 | GSE67275 | GEO

Single-cell transcriptomics reveal the dynamic of cancer stem-like cells during cholangiocarcinoma progression

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