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Ivy Glioblastoma Atlas project

This is the online help for the Ivy Glioblastoma Atlas Project web application.

The Ivy Glioblastoma Atlas Project is a foundational resource for exploring the anatomic and genetic basis of glioblastoma at the cellular and molecular levels.

KEY FEATURES:

ISH: Image data at cellular resolution of in situ hybridization (ISH) tissue sections and adjacent hematoxylin and eosin (H&E)-stained sections annotated for anatomic structures
Anatomic Structures ISH Survey: Initial screen of 8 tumors with 341 probes to glioblastoma-enriched genes.
Anatomic Structures ISH for Enriched Genes: Final screen of 29 tumors with 50 probes to genes enriched in particular anatomic structures as identified in Anatomic Structures RNA-Seq study.
Cancer Stem Cells ISH Survey: Initial screen of 16 tumors with 63 probes to putative cancer stem cell-enriched genes to identify a 20 probe reference set, which was then used in an extensive screen of 41 tumors.
Cancer Stem Cells ISH for Enriched Genes: Final screen of 37 tumors with 79 probes to genes enriched in putative cancer stem cell clusters as identified in Cancer Stem Cells RNA-Seq study.

RNA-Seq: RNA sequencing data for anatomic structures and putative cancer stem cell clusters isolated by laser microdissection
Anatomic Structures RNA-Seq: Screen of 5 structures (Leading Edge, Infiltrating Tumor, Cellular Tumor, Microvascular Proliferation, and Pseudopalisading Cells Around Necrosis) identified by H&E staining in 9 tumors for a total of 124 RNA samples.
Cancer Stem Cells RNA-Seq: Screen of 75 putative cancer stem cell clusters identified by ISH with 20 probe reference set in 34 tumors for a total of 160 RNA samples.

Specimens: De-identified clinical data for each patient and tumor, and search portal for each tumor block’s ISH and annotated H&E image data. For detailed clinical and sequence data requiring user registration to gain access, see Ivy GAP Clinical and Genomic Database

Related Resources
Ivy GAP Clinical and Genomic Database: Partner database with additional clinical, genomic, and transcriptomic data for Ivy GAP.
The Cancer Genome Atlas (TCGA): NIH-funded initiative for genomic mapping of cancers, including glioblastoma.

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