| Id |
Subject |
Object |
Predicate |
Lexical cue |
| T108 |
0-51 |
Sentence |
denotes |
Single cell RNA-seq data preprocessing and analysis |
| T109 |
52-146 |
Sentence |
denotes |
The FASTQ files were analyzed with the Cell Ranger Software Suite (version 3.1; 10× Genomics). |
| T110 |
147-232 |
Sentence |
denotes |
The Seurat (version 3.0) was applied to read the gene-barcode matrix of four tissues. |
| T111 |
233-373 |
Sentence |
denotes |
To control quality, we removed cells with <200 genes and 500 UMI counts, and as well as the cells with mitochondrial content higher than 5%. |
| T112 |
374-432 |
Sentence |
denotes |
Besides, the genes detected in <3 cells were filtered out. |
| T113 |
433-629 |
Sentence |
denotes |
The “sctransform” wrapper in Seurat was applied to normalize the data and remove confounding sources of variation, the “IntegrateData” was used for integrated the Seurat objects from four tissues. |
| T114 |
630-809 |
Sentence |
denotes |
The uniform manifold approximation and projection (UMAP) was used for dimensionality reduction and clustering the cells, cell types were assigned based on their canonical markers. |
| T115 |
810-880 |
Sentence |
denotes |
UMAP plots, heatmap, and violin plots were generated with Seurat in R. |
