MACS-enriched brain myeloid cells were subjected to single-cell library preparation. For each sample approximately 12,000 cells were washed and resuspended in PBS containing 3% FBS and immediately processed as follows. Single-cell capture, barcoding and library preparation were performed using the 10X Chromium platform (10X Genomics), using version 3 chemistry according to the manufacturer’s protocol (10X Genomics #CG00052). The resulting cDNA and indexed libraries were checked for quality on an Agilent 4200 TapeStation, quantified by KAPA qPCR, and pooled for sequencing on 16.67% of lane of an Illumina NovaSeq 6000 S2 flow cell, targeting 6,000 barcoded cells with an average sequencing depth of 50,000 reads per cell. Illumina base call (bcl) files for the samples were converted to FASTQ files using CellRanger bcl2fastq (version 2.20.0.422, Illumina).
Cellranger bcl2fastq
Manufactured by Illumina
CellRanger bcl2fastq is a software tool that converts Illumina BCL files, which contain raw sequencing data, into FASTQ files, which are a common format for downstream analysis. The tool is designed to efficiently process large volumes of single-cell RNA sequencing data generated by Illumina instruments.
Automatically generated - may contain errors
3 protocols using cellranger bcl2fastq
1
Single-cell RNA-seq of MACS-enriched brain myeloid cells
2
Single-cell RNA-seq of MACS-enriched brain myeloid cells
3
Single-cell RNA-seq of MACS-enriched brain myeloid cells
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MACS-enriched brain myeloid cells were subjected to single-cell library preparation. For each sample approximately 12,000 cells were washed and resuspended in PBS containing 3% FBS and immediately processed as follows. Single-cell capture, barcoding and library preparation were performed using the 10X Chromium platform (10X Genomics), using version 3 chemistry according to the manufacturer's protocol (10X Genomics #CG00052). The resulting cDNA and indexed libraries were checked for quality on an Agilent 4200 TapeStation, quantified by KAPA qPCR, and pooled for sequencing on 16.67% of lane of an Illumina NovaSeq 6000 S2 flow cell, targeting 6,000 barcoded cells with an average sequencing depth of 50,000 reads per cell.
Illumina base call (bcl) files for the samples were converted to FASTQ files using CellRanger bcl2fastq (version 2.20.0.422, Illumina).
Illumina base call (bcl) files for the samples were converted to FASTQ files using CellRanger bcl2fastq (version 2.20.0.422, Illumina).
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