Analysis of RNA-seq of human neuroblastomas from mouse-human neural crest chimeric mice model and in other neuroblastoma models

To confirm the neuroblastomas (NB) identity of human neuroblastomas from mouse-human neural crest chimeric mice model (CHNBs) we characterized their gene expression profiles by RNA-Seq (CHNBs MYCN+ALKF1174L; n=8). For a global comparison of gene expression profiles of CHNBs with other NB models, we further collected RNA-seq data from patient derived xenografts of neuroblastoma (PDX NBs ; MYCNamp+ALKwt PDX; n=2, and MYCNamp+ALKF1174L PDX; n=3), neuroblastomas from genetically engineered mouse model (GEMM NBs; Th-MYCN+ALKF1174L; n=3), neuroblastoma established cell lines (n=2; Kelly, MYCNamp+ALKF1174L; SH-SY5Y, MYCNwt+ ALKF1174L), human pluripotent derived human neural crest cells (hNCCs; wt hNCCs; n=2, and MYCN+ALKF1174L hNCCs, with Dox; n=2) and from hNCC xenografts (MYCN+ALKF1174L; n=5). Overall design: RNA samples were collectd from 28 biological samples, including: 8 samples for CHNB (4 with technical replicates), 5 samples of PDX NBs (with technical replicates), 3 samples of mouse GEMM NBs (with technical replicates), 2 samples of NB cell lines, 5 samples of hNCCS xenografts (one with biological replicate and 2 with technical replicates) and 4 samples of hNCCs (2 with oncogenes and Dox, and 2 wt with technical replicates), and one mouse wt adernal gland (control) .