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Table 1 Cellular components and datasets involved in three testing frameworks and variance analysis

From: A benchmark for RNA-seq deconvolution analysis under dynamic testing environments

Analysis Cell types Datasets
Variance analysis CD8 T cells
Whole blood
Simulated mixtures (T, B, and mono)
GSE113590
GSE60424
GSE51984
Sim1_simModel Simulated mixtures (T, B, and mono) GSE60424
GSE51984
GSE64655
Sim1_libSize Simulated mixtures (T, B, and mono)
Sim2 6 gradients of cell types: Comp 5–10 GSE60424
GSE51984
GSE64655
GSE115736
Sim3 6 gradients of cell types: Comp 5–10 and one unknown component HCT116 GSE60424
GSE51984
GSE64655
GSE115736
GSE118490
  1. Six gradients of cell types:
  2. Comp 5—T, B, monocytes, neutrophils, and NK cells
  3. Comp 6—T, B, monocytes, neutrophils, NK cells, and eosinophils
  4. Comp 7—T, B, monocytes, neutrophils, NK cells, eosinophils, and myeloid DC
  5. Comp 8—T, B, monocytes, neutrophils, NK cells, eosinophils, myeloid DC, and CD34+ HSC
  6. Comp 9—CD4 T, CD8 T, B, monocytes, neutrophils, NK cells, eosinophils, myeloid DC, and CD34+ HSC
  7. Comp 10—CD4 T, CD8 T, naive B, memory B, monocytes, neutrophils, NK cells, eosinophils, myeloid DC, and CD34+ HSC