Atlases

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A survey of childhood Ependymoma

scRNA-seq of 26 childhood ependymoma samples
UCSC Cell Browser GEO dataset Manuscript

Single-cell RNA-seq of childhood medulloblastoma

scRNA-seq of 28 childhood medulloblastoma samples
UCSC Cell Browser GEO dataset Publication Preprint Analysis Code

Spatial transcriptomic analysis of the ependymoma tumor microenvironment

Spatial transcriptomics of posterior fossa subgroup A (PFA) Ependymoma
Publication GEO dataset Shiny App Preprint

Single-nuclei RNA-seq of childhood PFA Ependymoma recurrence

snRNA-seq of 7 matched primary and first recurrence childhood EPN PFA samples
UCSC Cell Browser GEO dataset Manuscript

Characterizing the immunobiology of high risk pediatric ependymoma

Multi-Omic approach identifies hypoxic tumor-associated myeloid cells that drive immunobiology of high risk pediatric ependymoma
UCSC Cell Browser

Single-cell RNA-seq of pediatric high-grade glioma

scRNA-seq of 19 pediatric high-grade glioma (PHGG) patient samples
UCSC Cell Browser

Integration of single-nuclei RNA-sequencing and spatial transcriptomics defines the complex microenvironment of NF1-associated plexiform neurofibromas

single nuclei RNA-seq and spatial transcriptomics of plexiform neurofibromas
UCSC Cell Browser

Multi-pronged analysis of pediatric low-grade glioma reveals a unique tumor microenvironment associated with BRAF alterations

scRNA-seq of 23 pediatric low-grade glioma (pLGG) patient samples
UCSC Cell Browser

Publications

Single-Cell RNA Sequencing of Childhood Ependymoma Reveals Neoplastic Cell Subpopulations That Impact Molecular Classification and Etiology

Summary Ependymoma (EPN) is a brain tumor commonly presenting in childhood that remains fatal in most children. Intra-tumoral cellular …
Austin E Gillen, Kent A Riemondy, Vladimir Amani, Andrea M Griesinger, Ahmed Gilani, Sujatha Venkataraman, Krishna Madhavan, Eric Prince, Bridget Sanford, Todd C Hankinson, Michael H Handler, Rajeev Vibhakar, Ken L Jones, Siddhartha Mitra, Jay R Hesselberth, Nicholas K Foreman, Andrew M Donson
PDF DOI

Neoplastic and immune single cell transcriptomics define subgroup-specific intra-tumoral heterogeneity of childhood medulloblastoma

BACKGROUND: Medulloblastoma (MB) is a heterogeneous disease in which neoplastic cells and associated immune cells contribute to disease …
Kent A Riemondy, Sujatha Venkataraman, Nicholas Willard, Anandani Nellan, Bridget Sanford, Andrea M Griesinger, Vladimir Amani, Siddhartha Mitra, Todd C Hankinson, Michael H Handler, Martin Sill, Jennifer Ocasio, Seth J Weir, Daniel S Malawsky, Timothy R Gershon, Alexandra Garancher, Robert J Wechsler-Reya, Jay R Hesselberth, Nicholas K Foreman, Andrew M Donson, Rajeev Vibhakar
PDF DOI

Spatial transcriptomic analysis delineates epithelial and mesenchymal subpopulations and transition stages in childhood ependymoma

BACKGROUND: The diverse cellular constituents of childhood brain tumor ependymoma, recently revealed by single cell RNA-sequencing, may …
Rui Fu, Gregory A Norris, Nicholas Willard, Andrea M Griesinger, Kent A Riemondy, Vladimir Amani, Enrique Grimaldo, Faith Harris, Todd C Hankinson, Siddhartha Mitra, Timothy A Ritzmann, Richard R Grundy, Nicholas K Foreman, Andrew M Donson
DOI URL

Significant increase of high-risk chromosome 1q gain and 6q loss at recurrence in posterior fossa group A ependymoma: a multicenter study

BACKGROUND: Ependymoma (EPN) posterior fossa group A (PFA) has the highest rate of recurrence and the worst prognosis of all EPN …
Andrew M Donson, Kelsey C Bertrand, Kent A Riemondy, Dexiang Gao, Yonghua Zhuang, Bridget Sanford, Gregory A Norris, Rebecca J Chapman, Rui Fu, Nicholas Willard, Andrea M Griesinger, Graziella Ribeiro de Sousa, Vladimir Amani, Enrique Grimaldo, Todd C Hankinson, Ffyona Booker, Martin Sill, Richard G Grundy, Kristian W Pajtler, David W Ellison, Nicholas K Foreman, Timothy A Ritzmann
DOI URL

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