Gene Expression
Nebulas
Gene Expression NebulasSummary: Head and neck cancer arise through either exposure to environmental carcinogens, or through malignant transformation following infection with high-risk human papillomavirus. The goal of this project was to use single-cell RNAseq to assess similarities and differences in immune populations between these two types of head and neck cancer.
Overall Design:
| Strategy: |
|
| Species: |
|
| Tissue: |
|
| Healthy Condition: |
|
| Growth Protocol: | - |
| Treatment Protocol: | - |
| Extract Protocol: | Single-cell suspensions were generated fromtumor or tonsil tissue by either mechanical disruption or mechanical disruption followed by enzymatic digestion with 50 mg/mL ofLiberase DL (Roche) in 5 mL of serum-free RPMI for 15 minutes at 37 degree centigrade |
| Library Construction Protocol: | Single-cell libraries were generated from sorted live CD45+cells using the Chromium Single Cell 30Reagent (V2 Chemistry) as pre-viously described |
| Molecule Type: | poly(A)+ RNA |
| Library Source: | |
| Library Layout: | PAIRED |
| Library Strand: | Forward |
| Platform: | ILLUMINA |
| Instrument Model: | Illumina NextSeq 500 |
| 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 |
|---|