Gene Expression
Nebulas
Gene Expression NebulasSummary: We report whole blood gene expression of 12 healthy controls and 190 patients with either oligoarticular (n=43), polyarticular (n=46), or systemic JIA (n=26), or Crohn's disease (n=60) and ulcerative colitis (n=15). The subtypes of JIA are characterized by a gradient of differential gene expression ranging from controls to oligoJIA, polyJIA, sJIA, and IBD.
Overall Design: Whole blood samples were obtained from JIA patients age <17 years. Transcriptome profiling was performed with RNA-Seq.
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| Growth Protocol: | - |
| Treatment Protocol: | - |
| Extract Protocol: | Blood was collected via Tempus Tube and RNA was extracted with Tempus Spin RNA isolation kit. |
| Library Construction Protocol: | RNA sequencing (RNA-seq) libraries were prepared using the Illumina TruSeq stranded mRNA library kit and sequenced on the Illumina HiSeq Rapid Run with paired-end 100-bp reads (Illumina, San Diego, CA). |
| Molecule Type: | poly(A)+ RNA |
| Library Source: | |
| Library Layout: | PAIRED |
| Library Strand: | Forward |
| Platform: | ILLUMINA |
| Instrument Model: | Illumina HiSeq 2000 |
| 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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