Výsledky vyhledávání - "Aric B.E. Rininger"

Ultra High-plex Spatial Proteogenomic Investigation of Giant Cell Glioblastoma Multiforme Immune Infiltrates Reveals Distinct Protein and RNA Expression Profiles

Autor: Shilah A. Bonnett, Alyssa B. Rosenbloom, Giang T. Ong, Mark Conner, Aric B.E. Rininger, Daniel Newhouse, Felicia New, Chi Q. Phan, Saskia Ilcisin, Hiromi Sato, John S. Lyssand, Gary Geiss, Joseph M. Beechem

Publikováno v: Cancer Research Communications. 3:763-779

A deeper understanding of complex biological processes, including tumor development and immune response, requires ultra high-plex, spatial interrogation of multiple “omes”. Here we present the development and implementation of a novel spatial pro

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::78575f0b4ed76e36cb72cb2f060aa3dd
https://doi.org/10.1158/2767-9764.crc-22-0396

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FIGURE 3 from Ultra High-plex Spatial Proteogenomic Investigation of Giant Cell Glioblastoma Multiforme Immune Infiltrates Reveals Distinct Protein and RNA Expression Profiles

Autor: Joseph M. Beechem, Gary Geiss, John S. Lyssand, Hiromi Sato, Saskia Ilcisin, Chi Q. Phan, Felicia New, Daniel Newhouse, Aric B.E. Rininger, Mark Conner, Giang T. Ong, Alyssa B. Rosenbloom, Shilah A. Bonnett

Assessment of SPG performance on human tissue. FFPE colorectal cancer sections were stained with the GeoMx NGS Human Protein modules (147-plex), WTA, and antibodies against PanCK (Tumor) and CD45 (Immune). A, Representative image of colorectal cancer

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::66a9b8fed5af37b1a6af783232e1528e
https://doi.org/10.1158/2767-9764.22744306.v1

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FIGURE 7 from Ultra High-plex Spatial Proteogenomic Investigation of Giant Cell Glioblastoma Multiforme Immune Infiltrates Reveals Distinct Protein and RNA Expression Profiles

SPG exploration of gcGBM and GBM. A, Representative images of ROIs segmented into CD45+, GFAP+, or CD45−/GFAP−. Top differentially expressed protein targets (B) and RNA targets (C) from frontal lobe gcGBM as compared with GBM, all grade 4.

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::3244643331736a94fd2d28816e17c518
https://doi.org/10.1158/2767-9764.22744294.v1

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FIGURE 2 from Ultra High-plex Spatial Proteogenomic Investigation of Giant Cell Glioblastoma Multiforme Immune Infiltrates Reveals Distinct Protein and RNA Expression Profiles

Assessment of SPG data quality versus the respective RNA and Protein control data. Assay correlation with respect to the protein analyte comparing 147-plex and 59-plex protein panel (A), protein control and proteogenomic workflows (B), and user-to-us

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::33018253fb287fd1117a7c372aaca73f
https://doi.org/10.1158/2767-9764.22744309.v1

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FIGURE 6 from Ultra High-plex Spatial Proteogenomic Investigation of Giant Cell Glioblastoma Multiforme Immune Infiltrates Reveals Distinct Protein and RNA Expression Profiles

DE analysis between GFAP- and CD45-enriched segments. A, Combined volcano plot resulting from the DE analysis between GFAP- and CD45-enriched segments for RNA (●) and protein (◆) analytes. Targets with significant DE are highlighted either orange

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::999646333a0d30c0d9514aaf76618150
https://doi.org/10.1158/2767-9764.22744297

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Supplementary Tables S1-S6 from Ultra High-plex Spatial Proteogenomic Investigation of Giant Cell Glioblastoma Multiforme Immune Infiltrates Reveals Distinct Protein and RNA Expression Profiles

Supplementary Table S1: A list of materials and reagents that are recommended for the GeoMx DSP assays that are not supplied by NanoString. Supplementary Table S2. A list of NanoString supplied materials and reagents. Supplementary Table S3: A list o

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::336ff1509cbab310eaeeadfe49e5685c
https://doi.org/10.1158/2767-9764.22744276

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FIGURE 5 from Ultra High-plex Spatial Proteogenomic Investigation of Giant Cell Glioblastoma Multiforme Immune Infiltrates Reveals Distinct Protein and RNA Expression Profiles

SPG exploration of GBM grade 4. A, A total of 42 cores across 23 distinct sample sources and multiple GBM types. ROIs were segmented into CD45+, GFAP+, or CD45−/GFAP−. B, Statistics from a single slide and single GeoMx SPG run. UMAP plots for pro

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::759ad3524bec66ab52efad1ff472241d
https://doi.org/10.1158/2767-9764.22744300.v1

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FIGURE 4 from Ultra High-plex Spatial Proteogenomic Investigation of Giant Cell Glioblastoma Multiforme Immune Infiltrates Reveals Distinct Protein and RNA Expression Profiles

Spatial proteogenomics across mouse tissue types. High-plex SPG characterization of mouse tissues with matched circular ROIs. FFPE sections were stained with GeoMx Mouse WTA (RNA control), 15-stacked GeoMx Mouse Protein Modules (137-plex; protein con

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::a6a8bd3814bcb30c76dcdd0806c3d9b6
https://doi.org/10.1158/2767-9764.22744303

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Supplementary Figures S1-S9 from Ultra High-Plex Spatial Proteogenomic Investigation of Giant Cell Glioblastoma Multiforme Immune Infiltrates Reveals Distinct Protein and RNA Expression Profiles

Supplementary Figure S1: Impact of staining order on protein detection. FFPE cell line, A431CA, was stained with GeoMx Protein assays for nCounter readout and mock RNA probe (Buffer R only). (A) Swarm plots showing the distribution of target in relat

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::1a08205c104b9e9502b00ccc40e326e6
https://doi.org/10.1158/2767-9764.22568016

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