Table 2 Key resources table

 Mouse monoclonal anti-Human Nuclei

Merck - Millipore

Cat# MAB1281; RRID: AB_94090

 Rabbit polyclonal anti Laminin

Merck – Millipore (Sigma Aldrich)

Cat# L9393; RRID: AB_477163

 Goat polyclonal anti EphA2

R&D System

Cat# AF3035; RRID: AB_2277943

 Anti-Ki-67 antibody

Millipore

Cat# AB9260; RRID: AB_2142366

 Rabbit polyclonal anti Wnt5a

LS Biosciences

Cat# LS-C160634; RRID: AB_2736865

 Mouse monoclonal anti BMPR 1b

R&D System

Cat# MAB5051; RRID: AB_2064101

 Rabbit polyclonal Glial Fibrillary Acidic Protein (GFAP)

Agilent

Cat# Z0334; RRID: AB_10013382

 Mouse Anti-Galactocerebroside C (GalC)

Millipore

Cat# MAB342; RRID: AB_94857

 Purified anti-Tubulin beta 3 (TUBB3)

Biolegend

Cat# 801201; RRID: AB_2313773

 Goat anti mouse AlexaFluor488

Thermo Fisher

Cat#; RRID:AB_2534069

 Goat anti mouse AlexaFluor546

Thermo Fisher

Cat# A11003; RRID:AB_141370

 Goat anti rabbit AlexaFluor488

Thermo Fisher

Cat# A11008; RRID:AB_143165

 Donkey anti goat AlexaFluor488

Thermo Fisher

Cat# A11055; RRID:AB_2534102

 Goat anti rabbit AlexaFluor546

Thermo Fisher

Cat# A11010; RRID:AB_2534077

 Scid-Beige Mouse: CB17.Cg-Prkdc^scidLyst^bg-J/Crl Mus musculus

Charles River

Cat# CRL:250; RRID:IMSR_ CRL:250

 AxioVision Imaging System

Zeiss

RRID:SCR_002677

 NIS-Elements

Nikon

RRID:SCR_014329

 GraphPad Prism

http://www.graphpad.com/

RRID:SCR_002798

 Integrative genomic viewer (IGV)

http://software.broadinstitute.org/software/igv/

RRID:SCR_011793

 R Project for Statistical Computing

https://www.r-project.org/

RRID:SCR_001905

 PARTEK GENOMICS SUITE

https://www.partek.com/

RRID:SCR_011860

 ARRAYEXPRESS REPOSITORY

https://www.bioconductor.org/packages/release/bioc/html/ArrayExpress.html

RRID:SCR_000120

 VARSCAN

http://tvap.genome.wustl.edu/tools/varscan/

RRID:SCR_006849

 ANNOVAR

http://www.openbioinformatics.org/annovar/

RRID:SCR_012821

 GATK

https://software.broadinstitute.org/gatk/

RRID:SCR_001876

 MutationTaster

http://www.mutationtaster.org/

RRID:SCR_010777

 PolyPhen: Polymorphism Phenotyping

http://genetics.bwh.harvard.edu/pph2/

RRID:SCR_013189

PROVEAN

http://provean.jcvi.org/

RRID:SCR_002182

 SIFT

https://sift.bii.a-star.edu.sg/

RRID:SCR_012813

 Circos

http://circos.ca/

RRID:SCR_011798

 Ingenuity Pathway Analysis

http://www.ingenuity.com/products/pathways_analysis.html/

RRID:SCR_008653

 GISTIC

http://www.mmnt.net/db/0/0/ftp-genome.wi.mit.edu/distribution/GISTIC2.0/

RRID:SCR_000151

 SAMTOOLS

http://www.htslib.org/

RRID:SCR_002105

 CustomCDF

http://brainarray.mbni.med.umich.edu/Brainarray/Database/CustomCDF/genomic_curated_CDF.asp/

RRID:SCR_018527

 Entrez Gene

http://www.ncbi.nlm.nih.gov/gene/

RRID:SCR_002473

 BaseSpace

https://basespace.illumina.com/home/sequence/

RRID:SCR_011881

 CHROMAS

https://technelysium.com.au/wp/chromas/

RRID:SCR_000598

 QIAXCEL

QIAGEN

RRID:SCR_018624