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| Status |
Public on Nov 07, 2022 |
| Title |
Transcriptional programs dictating Schwann cell transformation in MPNST [10X scRNA-seq] |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
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| 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.
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| 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.
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| Contributor(s) |
Wu LM, Lu QR |
| Citation(s) |
36322658 |
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| Submission date |
Jun 28, 2021 |
| Last update date |
Nov 08, 2022 |
| Contact name |
Lai Man (Natalie) Wu |
| E-mail(s) |
laiman.wu@cchmc.org
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| Organization name |
CCHMC
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| Street address |
3333 Burnet Avenue, MLC7013,Lu lab, T6.525
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| City |
CINCINNATI |
| State/province |
OH |
| ZIP/Postal code |
45229 |
| Country |
USA |
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| Platforms (1) |
| GPL24676 |
Illumina NovaSeq 6000 (Homo sapiens) |
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| Samples (14)
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| This SubSeries is part of SuperSeries: |
| GSE179043 |
Transcriptional programs dictating Schwann cell transformation in MPNST |
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| Relations |
| BioProject |
PRJNA741993 |
| SRA |
SRP325851 |
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