Conclusions: We highlighted transcriptional biases, including warm dissociation and gene-length biases, introduced by the dissociation method for various sarcoma subtypes. This work is the first to characterize how the dissociation methods used for sc/snRNA-seq may affect the interpretation of the ...
Dissociation of fetal tissues Fetal livers and femurs were received in L15 media and processed within 3 h from dissection. Livers were cut in smaller pieces with a scalpel and transferred to a tube containing prewarmed digestion media: RPMI (Gibco) supplemented with 10% FBS (Gibco), penicilli...
with the 19 clusters obtained from the retained cells (Supplementary Data 2), we were able to match the large majority of the clusters, confirming that the cells removed from each cluster corresponded to stressed cells from each specific cluster, due to high levels of dissociation-related genes...
Except for cell types that are either rare or prone to dissociation-induced losses, this scenario is uncommon, as droplet sequencing can readily canvas all major cell types in a given tissue sample. Other methods for spatial spot decomposition, including Seurat14, RCTD18 and cell2location27, ...
Single-cell dissociation To prepare single-cell solutions of the cultured cell lines, the culture medium was removed, and the cells were washed with 1X PBS. Afterwards, the cells were trypsinized (0.05% trypsin-EDTA, Gibco, # 25300054) and pelleted at 200 xgfor 5min. The cells were resus...
The parameters for simulation of cell signaling are roughly classified into four categories: protein concentration, dissociation constant, diffusion coefficient or transport rate, and enzymatic reaction rate parameters. Classically, these parameters have been measured by in vitro biochemical analyses, which ...
To enrich for parenchymal and non-parenchymal liver progenitors, endoderm and associated mesoderm at E7.5 and E8.75 and liver buds at E9.5 and E10.5 were dissected before single-cell dissociation. In addition, the extra-embryonic endoderm- and hepatoblast-specific Afp-GFP mouse line was used to...
China. The clinical information for these samples is provided in Table S6. All samples were processed immediately after being obtained from oral cancer surgery according the standard procedures. According to the manufacturer's instructions, the Human Tumor Dissociation Kit (Miltenyi Biotec; Order no: ...
Single-cell RNA sequencing has been widely adopted to estimate the cellular composition of heterogeneous tissues and obtain transcriptional profiles of individual cells. Multiple approaches for optimal sample dissociation and storage of single cells have
We procure tissue from surgical resections and immediately subject it to mechanical and enzymatic dissociation to produce a single-cell suspension. These cells are rapidly loaded into a microfluidic device where they are captured in arrays of microwells (Additional file 1: Figure S1A), subjected to...