Gene Expression
Nebulas
Gene Expression NebulasSummary: Arsenic and DBPs has been found to be one of the major risk in many regions of the world. However, current understanding of thier combined toxicities are unclear. Here we used single-cell RNA sequencing to provide the transcriptome heterogeneity of 13563 liver cells obtained from zebrafishes exposed to 100μg/L arsenic, 300μg/L dichloroacetanilide (DCAcAm) and co-exposure for 23 days. Five liver cell populations were identified. We found that the hepatocytes and macrophages were the main target of arsenic and DCAcAm exposure. And the hepatocytes of male and female showed a huge difference, when expsoure to arsenic and DCAcAm).
Overall Design: Single-cell RNA sequencing were adopted to learn the transcriptional variation in zebrafish liver exposure to arsenic and DCAcAm.
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| Growth Protocol: | - |
| Treatment Protocol: | - |
| Extract Protocol: | The isolated liver tissue was digested into cell suspension with dispase. Cells were loaded on a GemCode Single Cell Instrument(10x Genomics, USA) to generate single cell Gel bead in Emulsion (GEMs). |
| Library Construction Protocol: | scRNA-seq libraries were prepared using the GemCode Single-Cell 3’ Gel Bead, Chip and Library Kits (10x Genomics, USA) as per the manufacturer’s protocol. Libraries were sequenced on an Illumina Hiseq PE150. |
| Molecule Type: | poly(A)+ RNA |
| Library Source: | |
| Library Layout: | PAIRED |
| Library Strand: | Forward |
| Platform: | ILLUMINA |
| Instrument Model: | Illumina NovaSeq 6000 |
| Strand-Specific: | Specific |
| Data Resource | GEN Sample ID | GEN Dataset ID | Project ID | BioProject ID | Sample ID | Sample Name | BioSample ID | Sample Accession | Experiment Accession | Release Date | Submission Date | Update Date | Species | Race | Ethnicity | Age | Age Unit | Gender | Source Name | Tissue | Cell Type | Cell Subtype | Cell Line | Disease | Disease State | Development Stage | Mutation | Phenotype | Case Detail | Control Detail | Growth Protocol | Treatment Protocol | Extract Protocol | Library Construction Protocol | Molecule Type | Library Layout | Strand-Specific | Library Strand | Spike-In | Strategy | Platform | Instrument Model | Cell Number | Reads Number | Gbases | AvgSpotLen1 | AvgSpotLen2 | Uniq Mapping Rate | Multiple Mapping Rate | Coverage Rate |
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