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Table 1 Downloaded datasets with Accession ID, Pubmed-ID and annotations, aprotected access

From: HLA and proteasome expression body map

Dataset-Identifier Study summary Reference # Samples # Entities Type Comments
SRP012682a Common Fund (CF) Genotype-Tissue Expression Project (GTEx); Protected access via dbGap (phs000424) [16] 3926 30 tissues non cancer
ERP003613, ERP006650 HPA RNA-seq normal tissues [17] 204 30 tissues non cancer
SRP017583 Transcriptome landscape of the human placenta [18] 6 1 tissues placenta
SRP051688 A cell-based systems biology assessment of human blood to monitor immune responses after influenza vaccination [19] 55 7 cell types immune cells
SRP056159 Disease-Associated SNPs from non-Coding Regions in Juvenile Idiopathic Arthritis Are Located Within or Adjacent to Functional Genomic Elements of Human Neutrophils and CD4+ T Cells [20] 3 1 cell types neutrophils
ERP003815 Next generation sequencing analysis of human platelet PolyA+ mRNAs and rRNA-depleted total RNA. [22] 3 1 cell types platelets
SRP010483 The human pancreatic islet transcriptome: expression of candidate genes for type 1 diabetes and the impact of pro-inflammatory cytokines [21] 5 1 cell tyes pancreatic islets
SRP034875 Comprehensive analysis of gene expression in human retina and supporting tissues [58] 16 1 tissue retina
SRP015336 Transcriptome analyses of the human retina identify unprecedented transcript diversity and 3.5 Mb of novel transcribed sequence via significant alternative splicing and novel genes. [59] 4 1 tissue retina
SRP058719 Long non-coding RNA profiling of human lymphoid progenitor cells reveals transcriptional divergence of B cell and T cell lineages. [24] 18 5 cell types hematopoietic stem cells
EGAD00001000745a Transcriptional diversity during lineage commitment of human blood progenitors [23] 83 8 cell types hematopoietic stem cells