While gene expression is more accurately measured by RNA sequencing (RNA-seq), ATAC-seq can explain the mechanism behind how gene expression is regulated or why it might be different between two cell types or conditions. 看完了原理,再来看处理细节: 10x - Cell Ranger ATAC Algorithms Overview pea...
For the sample labeled as ‘10x_complex’ we used a modified protocol from the Nuclei Isolation from Complex Tissues for Single-Cell Multiome ATAC + Gene Expression Sequencing Protocol (CG000375) from 10x Genomics. Briefly, a ~1-cm3 frozen piece of mouse cortex tissue was transferred to 0....
Single Cell Multiome ATAC + Gene Expression assay generates two single cell library types, ATAC (assay for transposase chromatin accessibility) library and 3' Gene Expression library, from the same GEM well.Sample: A nuclei suspension extracted from a single biological source (blood, tissue, etc)...
Chromium Next GEM Single Cell Multiome Reagent Kit A, 16 rxns PN-1000282 Library Construction Kit, 16 rxns PN-1000190 Chromium Next GEM Single Cell Multiome ATAC + Gene Expression Reagent Bundle, 4 rxns PN-1000285, includes: Chromium Next ...
Prior to single cell multiome ATAC and gene expression sequencing, nuclei isolation was performed by resuspending PBMCs in 100 µL of cold lysis buffer containing 10 mM Tris-HCl (pH 7.4), 10 mM NaCl, 3 mM MgCl2, 0.1% Tween-20, 0.1% Nonidet P40, 0.01% digitonin, 1% BSA, ...
measurement of multiple molecular modalities at single-cell resolution, including single-cell gene expression (GEX) profiling (single-cell RNA-sequencing (scRNA-seq)) [1, 2] and single-cell chromatin accessibility (Assay for Transposase-Accessible Chromatin; ATAC) profiling (scATAC-seq) [3, 4]. ...
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We present a gene-level regulatory model, single-cell ATAC+RNA linking (SCARlink), which predicts single-cell gene expression and links enhancers to target genes using multi-ome (scRNA-seq and scATAC–seq co-assay) sequencing data. The approach uses regularized Poisson regression on tile-level ...
Cell Ranger ARC'spipelines analyze sequencing data produced from Chromium Single Cell Multiome ATAC + Gene Expression. The Cell Ranger ARC pipeline can only analyze Gene Expression and ATAC data together. It must not be used to analyze Gene Expression or ATAC alone. ...
single cell gene expression data has been modified at the dispersion estimation step to make it compatible with both gene expression and ATAC data. Instead of the method of moments estimation of the dispersion in the original DANB method, we computed the maximum likelihood estimator for...