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Series GSE144366 Query DataSets for GSE144366
Status Public on Jan 29, 2020
Title Analysis of RNA-seq of human neuroblastomas from mouse-human neural crest chimeric mice model and in other neuroblastoma models
Organisms Homo sapiens; Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary 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) .
Contributor(s) Jaenisch R, Cohen MA
Citation(s) 32142683
Submission date Jan 28, 2020
Last update date May 11, 2020
Contact name Malkiel Cohen
Organization name Whitehead Institute
Lab Jaenisch
Street address 455 Main St
City Cambridge
State/province MA
ZIP/Postal code 02142
Country USA
Platforms (3)
GPL16791 Illumina HiSeq 2500 (Homo sapiens)
GPL17021 Illumina HiSeq 2500 (Mus musculus)
GPL22245 Illumina HiSeq 2500 (Homo sapiens; Mus musculus)
Samples (29)
GSM4286919 CHNB008
GSM4286920 CHNB009
GSM4286921 CHNB010
BioProject PRJNA603497
SRA SRP245586

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Supplementary file Size Download File type/resource
GSE144366_Cohen_human_gene_counts.txt.gz 1007.0 Kb (ftp)(http) TXT
GSE144366_Cohen_mouse_gene_counts.txt.gz 909.8 Kb (ftp)(http) TXT
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Raw data are available in SRA
Processed data are available on Series record

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