KEY RESOURCES TABLE
| REAGENT or RESOURCE | SOURCE | IDENTIFIER |
|---|---|---|
| Antibodies | ||
| Rabbit anti N-MYC | Cell Signaling Technology | Cat#51705; RRID:AB_2799400 |
| Rabbit anti N-MYC | Cell Signaling Technology | Cat#84406; RRID:AB_2800038 |
| Rabbit anti ALK | Cell Signaling Technology | Cat#3333; RRID:AB_836862 |
| Rabbit anti ALK | Cell Signaling Technology | Cat#3633; RRID:AB_11127207 |
| Rabbit anti Phospho-ALK (Y1507) | Abcam | Cat#ab73996; RRID:AB_2226754 |
| Rabbit anti Phospho-ALK (Y1604) | Cell Signaling Technology | Cat#3341; RRID:AB_331047 |
| Rabbit anti AKT | Cell Signaling Technology | Cat#4691; RRID:AB_915783 |
| Rabbit anti Phospho-AKT (T308) | Cell Signaling Technology | Cat#9275; RRID:AB_329828 |
| Rabbit anti Phospho-AKT (S473) | Cell Signaling Technology | Cat#9271; RRID:AB_329825 |
| Rabbit anti ERK1/2 (p44/42 MAPK) | Cell Signaling Technology | Cat#4695; RRID:AB_390779 |
| Mouse anti Phospho-ERK1/2 (p44/42 MAPK; T202/Y204) | Cell Signaling Technology | Cat#4370; RRID:AB_2315112 |
| Mouse anti Phospho-ERK1/2 (p44/42 MAPK; T202/Y204) | Cell Signaling Technology | Cat#9106; RRID:AB_331768 |
| Rabbit anti Phospho-p70 S6 Kinase (T389) | Cell Signaling Technology | Cat#9205; RRID:AB_330944 |
| Rabbit anti GAPDH | Cell Signaling Technology | Cat#2118; RRID:AB_561053 |
| Rabbit anti CD3 | Thermo Fischer/ Lab Vision | Cat#RM-9107-S0; RRID:AB_149923 |
| Armenian hamster anti CD3e | BioLegend | Cat#100302; RRID:AB_312667 |
| Mouse anti rat IFN-γ | BioLegend | Cat#507801; RRID:AB_315492 |
| Armenian hamster anti CD3e | BioLegend | Cat#100302; RRID:AB_312667 |
| Armenian hamster anti CD28 | BioLegend | Cat#102102; RRID:AB_312867 |
| Rat anti-mouse CD4, APC | BioLegend | Cat#100412; RRID:AB_312697 |
| Rat anti-mouse CD8a, PerCP/Cyanine5.5 | BioLegend | Cat#100733; RRID:AB_2075239 |
| Rabbit anti CD8 | Cell Signaling Technology | Cat#98941; RRID:AB_2756376 |
| Rabbit anti FoxP3 | R&D Systems | Cat#MAB8214 |
| Mouse anti IL2 Receptor alpha | Novus | Cat#NB600-564; RRID:AB_10002565 |
| Rabbit anti Tim3 | Cell Signaling Technology | Cat#83882; RRID:AB_2800033 |
| Rabbit anti PD-L1 | Cell Signaling Technology | Cat#13684; RRID:AB_2687655 |
| Sheep anti Human Cd47 | R&D Systems | Cat#AF4670; RRID:AB_1026196 |
| Rat anti Mouse F4 / 80 | Thermo Fischer/ Innovative Research | Cat#MF48000; RRID:AB_1500089 |
| Rabbit anti gamma H2A.X (phospho S139) | Abcam | Cat#ab2893; RRID:AB_303388 |
| Rabbit anti Human Ki67 | Thermo Fischer | Cat#PA5-16785; RRID:AB_11000602 |
| Rabbit anti Chromogranin A | Novus | Cat#NB120-15160; RRID:AB_789299 |
| Rabbit anti Synaptophysin | Cell Signaling Technology | Cat#36406; RRID:AB_2799098 |
| Rabbit anti Nestin | Abcam | Cat#ab176571 |
| Rabbit anti Tyrosine Hydroxylase (TH) | Pel-Freez Biologicals | Cat#P40101; RRID:AB_2313713 |
| Rabbit anti Peripherin | Abcam | Cat#ab4666; RRID:AB_449340 |
| Rabbit anti 160 kD Neurofilament | Abcam | Cat#ab92539; RRID:AB_10562619 |
| Mouse anti HNK-1 (CD57) | Millipore-Sigma | Cat#C6680; RRID:AB_1078474 |
| Rabbit anti p75 | Promega | Cat#G3231; RRID:AB_430853 |
| Mouse anti human HLA-A,B,C | BioLegend | Cat# 311402; RRID:AB_314871 |
| Chicken anti Green Fluorescent Protein (GFP) | Aves Labs/Antibodies Incorporated | Cat#GFP-1020; RRID:AB_10000240 |
| Rabbit anti Green Fluorescent Protein (GFP) | Abcam | Cat#ab290; RRID:AB_303395 |
| Alpaca anti Green Fluorescent Protein (GFP), Alexa Fluor 647 | H. Ploegh lab/WIBR | N/A |
| Anti mouse IgG, HRP | Cell Signaling Technology | Cat#7076; RRID:AB_330924 |
| Anti rabbit IgG, HRP | Santa Cruz Biotechnology | Cat#sc-2357; RRID:AB_628497 |
| Anti rabbit IgG, HRP | Millipore-Sigma | Cat#401393-2ML; RRID:AB_437797 |
| Anti rabbit IgG, Biotinylated | Vector Laboratories | Cat#BA-1000; RRID:AB_2313606 |
| Anti mouse IgG, Alexa Fluor 647 | Thermo Fischer/ Molecular Probes | Cat#A-31571; RRID:AB_162542 |
| Anti mouse IgG, Alexa Fluor 647 | Thermo Fischer/ Molecular Probes | Cat#A-21235; RRID:AB_141693 |
| Anti mouse IgG, Alexa Fluor 488 | Thermo Fischer/ Molecular Probes | Cat#A-21202; RRID:AB_141607 |
| Anti mouse IgG, Alexa Fluor 488 | Thermo Fischer/ Molecular Probes | Cat#A-11001; RRID:AB_2534069 |
| Anti rabbit IgG, Alexa Fluor 647 | Thermo Fischer/ Molecular Probes | Cat# A-31573; RRID:AB_2536183 |
| Anti rabbit IgG, Alexa Fluor 647 | Thermo Fischer/ Molecular Probes | Cat#A-21244; RRID:AB_141663 |
| Anti rabbit IgG, Alexa Fluor 488 | Thermo Fischer/ Molecular Probes | Cat#A-21206; RRID:AB_141708 |
| Anti rabbit IgG, Alexa Fluor 488 | Thermo Fischer/ Molecular Probes | Cat#A-11008; RRID:AB_143165 |
| Anti sheep IgG, Alexa Fluor 488 | Thermo Fischer/ Molecular Probes | Cat#A-11015; RRID:AB_141362 |
| Anti rat IgG, Alexa Fluor 488 | Thermo Fischer/ Molecular Probes | Cat#A-21209; RRID:AB_2535795 |
| Anti chicken IgY, Alexa Fluor 488 | Jackson ImmunoResearch Labs | Cat#703-545-155; RRID:AB_2340375 |
| Anti mouse IgG+IgM, Alexa Fluor 594 | Jackson ImmunoResearch Labs | Cat#115-585-044; RRID:AB_2338875 |
| Biological Samples | ||
| hNCCs Xenografts (MYCN+ALK F1174L) | This paper | N/A |
| Human NBs from Chimeric mice CHNB (MYCN+ALK F1174L) | This paper | N/A |
| Human NB PDX (MYCN amp, ALK WT) | St. Jude Children’s Research Hospital | Cat#SJNBL046148 |
| Human NB PDX (MYCN amp, ALK WT) | St. Jude Children’s Research Hospital | Cat#SJNBL013763 |
| Human NB PDX (MYCN amp, ALK F1174L) | Children’s Oncology Group | Cat#COG-N-415X |
| Human NB PDX (MYCN amp, ALK F1174L) | Children’s Oncology Group | Cat#COG-N-453X |
| Mouse NBs from GEMM (Th:MYCN+ALK F1174L) | Berry et al., 2012 | N/A |
| Human NBs tissue microarray | US Biomax | Cat#NB642 |
| Chemicals, Peptides, and Recombinant Proteins | ||
| Doxycycline hyclate ≥98% | Sigma Moilipore | Cat#D9891 |
| CFSE | Life Technologies | Cat#65-0850-84 |
| D-luciferin | Perkin Elmer | Cat#122799 |
| SB431542 | Stemgent | Cat#04-0010-10 |
| CHIR99021 | Stemgent | Cat#04-0004-10 |
| LDN193189 | Stemgent | Cat#04-0074-10 |
| bFGF | Peprotech | Cat#100-18B |
| Recombinant human HGF | Peprotech | Cat#AF-100-15 |
| Laminin | Millipore-Sigma | Cat#L2020 |
| Fibronectin | ThermoFischer | Cat#FC0105MG |
| Critical Commercial Assays | ||
| RNeasy Mini Kit | QIAGEN | Cat#74104 |
| mirVana™ miRNA Isolation Kit | ThermoFischer | Cat#AM1560 |
| KAPA mRNA HyperPrep Kit | Roche | Cat#08098115702 |
| SuperScript III First-Strand Synthesis SuperMix | ThermoFischer | Cat#18080400 |
| Fast SYBR Green Master Mix | ThermoFischer | Cat#4385618 |
| Pan T cells mouse kit isolation kit II | Miltenyi Biotec | Cat#130-095-130 |
| CD8a+ isolation kit, mouse | Miltenyi Biotec | Cat#130-104-075 |
| Rabbit-on-Rodent HRP-Polymer | Biocare Medical | Cat#RMR622 |
| Mouse-on-Mouse HRP-Polymer | Biocare Medical | Cat#MM620 |
| Deposited Data | ||
| Raw and processed data | This paper | GEO: GSE144366 |
| Experimental Models: Cell Lines | ||
| hESCs WIBR#3 AAVS1-Sa-Puro CAGGs::eGFP | Hockemeyer et al., 2009 | RRID: CVCL_9767 |
| hiPSC AA#1 AAVS1-Sa-Puro CAGGs::eGFP | Cohen et al., 2016 | N/A |
| hESCs WIBR#3 AAVS1-Sa-Puro CAGGs::Luc-T2A-Lac | This paper | N/A |
| hESCs WIBR#3 AAVS1-Sa-Puro CAGGs::Luc-T2A-Lac Teto MYCN+ALKF1174L | This paper | N/A |
| hiPSC AA#1 AAVS1-Sa-Puro CAGGs::eGFP Teto MYCN+ALKF1174L | This paper | N/A |
| Kelly | ECACC | Cat#92110411; RRID: CVCL_2092 |
| SH-SY5Y | ATCC | Cat#CRL-2266; RRID: CVCL_0019 |
| IMR-32 | ATCC | Cat#CCL-127; RRID: CVCL_0346 |
| MCF-7 | ATCC | Cat#HTB-22; RRID: CVCL_0031 |
| Colo-829 | ATCC | Cat#CRL-1974; RRID: CVCL_1137 |
| Human dermal fibroblasts | ATCC | Cat#PCS-201-12 |
| Experimental Models: Organisms/Strains | ||
| Mouse: NSG (NOD.Cg-PrkdcscidIl2rgtm1Wjl/SzJ) | Jackson Laboratory | Cat#5557; RRID:IMSR_JAX:005557 |
| Mouse: C57BL/6 | Jackson Laboratory | Cat#664; RRID:IMSR_JAX:000664 |
| Mouse: Kit W-sh (B6.Cg-KitW-sh/HNihrJaeBsmGlliJ) | Jackson Laboratory | Cat#12861; RRID:IMSR_JAX:012861 |
| Mouse: NU/NU (Crl:NU-Foxn1nu) | Charles River | Cat#88; RRID:IMSR_CRL:088 |
| Mouse: NOD SCID (NOD.CB17-Prkdcscid/NCrCrl) | Charles River | Cat#394; RRID:IMSR_CRL:394 |
| Mouse: CD-1-IGS (Crl:CD1(ICR)) | Charles River | Cat#22; RRID:IMSR_CRL:022 |
| Mouse: Kit W-sh; Rag2−/− ; Il2rγ−/− | Bakthavatchalu et al., 2018 | N/A |
| Oligonucleotides | ||
| Primers for qPCR and sequencing, See Table S3 | This paper | N/A |
| Recombinant DNA | ||
| FUW-TetO-ALKF1174L-t2A-tdTomato | This paper | N/A |
| FUW-TetO-MYCN-3×2A-NeoR | This paper | N/A |
| AAVS1 CAGGS-Luciferase-T2A-LacZ | This paper | N/A |
| Software and Algorithms | ||
| Fiji | fiji.sc | N/A |
| FlowJo | BD Biosciences | N/A |
| BDFacs DIVA | BD Biosciences | N/A |
| DESeq2 | 10.18129/B9.bioc.DESeq2 | N/A |
| STAR | https://github.com/alexdobin/STAR | N/A |
| ComBat | http://www.bu.edu/jlab/wp-assets/ComBat | N/A |
| featureCounts | http://subread.sourceforge.net | N/A |
| CellProfiler | https://cellprofiler.org | N/A |
| Prism 8 | https://www.graphpad.com | N/A |
| BioRender | https://biorender.com | N/A |