General Information
- Experiment ID
- OEX024230
- Experiment Name
- Transcriptomic single cell
- Experiment Type
- Transcriptomic single cell
- Description
- Single-cell RNA sequencing, 10X Genomics
- Protocol
- The renal biopsies were preserved in cold MACS Tissue Storage Solution (Miltenyi Biotec) and were minced into small pieces with a razor blade and incubated at 37°C in freshly prepared dissociation buffer containing enzymes from a Multi Tissue Dissociation Kit (Miltenyi Biotec) with a rotation speed of 200 rpm. Dissociated cells were harvested every 10 minutes by filtering the cell suspension through a 70‐µm cell strainer (FALCON) into 10% FBS buffer on ice. The residual biopsy tissue was dissociated again with 1 ml dissociation buffer for 10 minutes and passed through the cell strainer into the same FBS buffer from the first collection. This dissociation procedure was repeated three times until most of the tissue had been separated into single cells (total dissociation time was 30 minutes). Finally, the cells were collected by centrifugation at 1500 rpm for 5 minutes, resuspended in PBS containing 5% FBS, and strained through a 40‐µm cell strainer (FALCON) to further remove cell clumps and large fragments. Cell viability was approximately 90% for the biopsy used in this study, as assessed by Trypan Blue staining. Library construction was performed using the Chromium Single Cell 3′ Library & Gel Bead Kit v3.1 (10X Genomics) according to the manufacturer’s instructions.
Experiment information
- Attributes
-
library_strategy RNA-Seq library_selection PolyA library_layout Paired platform Illumina NovaSeq 6000 - Project
-
1
Project ID Project name Create Date OEP004186 Single-Cell Nephrology Profiling Primary Membranous Nephropathy 2023-06-12 - Samples
-
18
Sample ID Sample Name Organism Tissue Create Date OES312450 MN1 Homo sapiens kidney 2023-06-12 OES312451 MN2 Homo sapiens kidney 2023-06-12 OES312452 MN3 Homo sapiens kidney 2023-06-12 OES312453 MN4 Homo sapiens kidney 2023-06-12 OES312454 MN5 Homo sapiens kidney 2023-06-12 OES312455 MN6 Homo sapiens kidney 2023-06-12 OES312456 MN7 Homo sapiens kidney 2023-06-12 OES312457 MN8 Homo sapiens kidney 2023-06-12 OES312458 MN9 Homo sapiens kidney 2023-06-12 OES312459 MN10 Homo sapiens kidney 2023-06-12 OES312460 MN11 Homo sapiens kidney 2023-06-12 OES312461 Ctrl1 Homo sapiens kidney 2023-06-12 OES312462 Ctrl2 Homo sapiens kidney 2023-06-12 OES312463 Ctrl3 Homo sapiens kidney 2023-06-12 OES312464 Ctrl4 Homo sapiens kidney 2023-06-12 OES312465 Ctrl5 Homo sapiens kidney 2023-06-12 OES312466 Ctrl6 Homo sapiens kidney 2023-06-12 OES312467 Ctrl7 Homo sapiens kidney 2023-06-12 - Runs
-
18
Run ID Run Name Sample Data Num Create Date OER398684 MN1_rawdata_fastq MN1 2 2023-06-13 OER398685 MN2_rawdata_fastq MN2 2 2023-06-13 OER398686 MN3_rawdata_fastq MN3 2 2023-06-13 OER398687 MN4_rawdata_fastq MN4 2 2023-06-13 OER398688 MN5_rawdata_fastq MN5 2 2023-06-13 OER398689 MN6_rawdata_fastq MN6 2 2023-06-13 OER398690 MN7_rawdata_fastq MN7 2 2023-06-13 OER398691 MN8_rawdata_fastq MN8 3 2023-06-13 OER398692 MN9_rawdata_fastq MN9 2 2023-06-13 OER398693 MN10_rawdata_fastq MN10 2 2023-06-13 OER398694 MN11_rawdata_fastq MN11 2 2023-06-13 OER398695 Ctrl1_rawdata_fastq Ctrl1 3 2023-06-13 OER398696 Ctrl2_rawdata_fastq Ctrl2 3 2023-06-13 OER398697 Ctrl3_rawdata_fastq Ctrl3 2 2023-06-13 OER398698 Ctrl4_rawdata_fastq Ctrl4 2 2023-06-13 OER398699 Ctrl5_rawdata_fastq Ctrl5 2 2023-06-13 OER398700 Ctrl6_rawdata_fastq Ctrl6 2 2023-06-13 OER398701 Ctrl7_rawdata_fastq Ctrl7 2 2023-06-13 - Analysis
- 4
Author Information
- Create Date
- 2023-06-12
- Last Modified
- 2023-06-13
- Submission
- Yiwei Meng
- CEMCS