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Series GSE178989 Query DataSets for GSE178989
Status Public on Nov 07, 2022
Title Transcriptional programs dictating Schwann cell transformation in MPNST [bulk RNA-seq]
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary We used single-cell RNAseq to profile early and advanced mouse MPNST tumors, as well as human neurofibroma and MPNST. Our work defines the stage-specific kinetics of transcriptomics, cellular heterogeneity, and tumor cell fate decisions in murine and human MPNSTs.
 
Overall design Single-cell mRNA profiles of 10 neurofibromas and 4 MPNSTs were generated on the 10X Genomics platform and sequenced by NovaSeq 6000 (Illumina). Single-cell mRNA profiles of Three pooled early (1.5 mo) and two advanced (4 mo) mouse Lats1/2-def sciatic nerve tumors were generated by Dropseq platform. Two mouse early and two advanced paraspinal tumors; two early and two advanced dermal tumors; one NF1-mutant and two NPE (Nf1 fl/fl; P53 fl/fl; Eed fl/fl; Dhh-Cre) sciatic nerves were generated on the Dropseq platform, and sequenced on NextSeq 500 (Illumina). The datasets also include 1 scATACseq each of an advanced mouse MPNST paraspinal tumor and human NF and MPNST. Droplet based scATAC-seq on peripheral nerve tumors from 16-week-old mouse MPNST, human benign NF and MPNST. Tumor cells were profiled for chromatin accessibility changes. Bulk RNA-seq of 8 NF and 9 MPNSTs were included.
 
Contributor(s) Wu LM, Lu QR
Citation(s) 36322658
Submission date Jun 27, 2021
Last update date Nov 07, 2022
Contact name Lai Man (Natalie) Wu
E-mail(s) laiman.wu@cchmc.org
Organization name CCHMC
Street address 3333 Burnet Avenue, MLC7013,Lu lab, T6.525
City CINCINNATI
State/province OH
ZIP/Postal code 45229
Country USA
 
Platforms (1)
GPL23227 BGISEQ-500 (Homo sapiens)
Samples (17)
GSM5402773 NF1-6
GSM5402774 NF1-8
GSM5402775 NF1-10
This SubSeries is part of SuperSeries:
GSE179043 Transcriptional programs dictating Schwann cell transformation in MPNST
Relations
BioProject PRJNA741801
SRA SRP325786

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Supplementary file Size Download File type/resource
GSE178989_Human_NF_MPNST_17samples_count.txt.gz 933.8 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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