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Chromium - BioProject

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Last Updated: 17 March 2022

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Single cell 5’ transcript, TCRαβ enriched, and Cell hashing/CITE-seq library preparation on the 10x chromium, and sequencing

Single cells from human colorectal cancer and normal adjacent colon of 16 patients were used for single-cell RNA-seq, TCR-seq, CITE-seq, and Cell hashing. Single cells were incubated for 3h with or without PMA/Ionomycin, and then treated with Cell hashing and CITE-seq antibodies to distinguish samples, stimulation/non-stimulation, and cell surface proteins in brief, in this case. Sorted viable CD3+TCR+ single cells were loaded into a 10x genomics ChromiumTM controller to produce nanoliter-scale droplets filled with uniquely barcoded 5' gel beads called GEMs, a unique breed of sorted gel beads. According to the manufacturer's instructions, cDNAs derived from cellular mRNA were pooled for downstream processing and library preparation following GEM-RT and the following cDNA amplification steps. Cellranger and vdranger by 10xgenomics can be processed by RNA-seq and TCR-seq'seq's file processing, using cellranger and vdranger by 10xgenomics. In Masuda et al. , bioRxiv, 2020 The morphological and phenotypic diversity of single T-cell infiltrates in human colorectal cancer is highly correlated with clinical outcome.

Source link: https://www.ncbi.nlm.nih.gov/bioproject/811869


The stressful effects of microplastics associated with chromium (VI) on the microbiota of Daphnia Magna.

Industrial effluents, according to evidence, could be one of the key point sources of microplastics and other contaminants, and their interaction can cause organismic stress and affect host and environmental microbial populations. We investigated the individual and combined effects of microplastics and other pollutants on host survival and host-associated bacterial diversity. The ribosomal Bacterial 16S were isolated from both the water and the Daphnia, and chromium in full, with treatments of 2 and 5 ppm for 72 hours. Particularly, Daphnia had low mortality in treatments microplastics and 2ppm chromium VI. After 30 hours of exposure, the incidence of 5 ppm chromium mortality in the treatments increased to 100 percent. Disbiosis of freshwater environmental microbiota, entire host microbiota, and host survival can be caused by microplastics and toxic metals.

Source link: https://www.ncbi.nlm.nih.gov/bioproject/773356


Single-cell RNA-seq (10x Chromium V3) of heterogeneous spheres consisting of melanoma cell line and two types of human primary dermal fibroblasts

Human primary dermal fibroblasts from photo-damaged adult skin and juvenile sun-protected skin were isolated and expanded, according to Dvorankova et al. The organoids were then stored for another two days in non-adhesive culture wells in a complete DMEM culture medium. Single-cell RNA sequencing was used to determine model cell populations under various conditions, with emphasis on the features of dermal fibroblasts exposed to malignant melanoma.

Source link: https://www.ncbi.nlm.nih.gov/bioproject/706260

* Please keep in mind that all text is summarized by machine, we do not bear any responsibility, and you should always check original source before taking any actions

* Please keep in mind that all text is summarized by machine, we do not bear any responsibility, and you should always check original source before taking any actions