Antibodies |
|
Synaptophysin, clone YE269 |
Abcam |
Cat# ab32127; RRID: AB_2286949
|
E-Cadherin, clone 24E10 |
Cell Signaling Technology |
Cat# 3195; RRID: AB_2291471
|
NFIB |
Thermo Fisher Scientific |
Cat# PA5-28299; RRID: AB_2545775
|
Calcitonin Gene Related Peptide (CGRP) |
Sigma-Aldrich |
Cat# C8198; RRID: AB_259091
|
Ki67 |
Abcam |
Cat# ab15580; RRID: AB_443209
|
Anti-Cytokeratin, wide-spectrum/KWS |
Agilent |
Cat# Z0622; RRID: AB_2650434
|
Anti-phospho-Histone H3 (Thr3), clone JY325 |
Merck Millipore |
Cat# 04-746; RRID: AB_1163442
|
Podoplanin |
Abcam |
Cat# ab11936; RRID: AB_298718
|
MASH1/ASCL1 |
BD Biosciences |
Cat# 556604; RRID: AB_396479
|
ALDH1A1 |
Abcam |
Cat# ab23375; RRID: AB_2224009
|
NEUROD1 |
Proteintech |
Cat# 12081-1-AP |
Phospho-Akt (Ser473) |
Cell Signaling Technology |
Cat# 4060; RRID: AB_2315049
|
Anti-4E-BP1, phospho (Thr37 / Thr46) |
Cell Signaling Technology |
Cat# 2855; RRID: AB_560835
|
|
Bacterial and Virus Strains |
|
Ad5-CMV-Cre |
Viral Vector Core Facility, University of IOWA Health Care |
N/A |
|
Chemicals, Peptides, and Recombinant Proteins |
|
Cyclosporin A |
Sigma-Aldrich |
Cat# 30024 |
Cisplatin |
Accord Healthcare Ltd |
Dutch drug database ZI# 15683354 |
Neo-clear® |
Merck Millipore |
Cat# 109843 |
Sequencing Grade Modified Trypsin |
Promega |
Cat# V5111 |
|
Deposited Data |
|
Mass spectrometry proteomics data |
This study |
ProteomeXchange: PXD010680
|
RNA-seq data |
This study |
European Nucleotide Archive: PRJEB28270 |
|
Experimental Models: Organisms/Strains |
|
Mouse: Rb1flox/flox;Trp53flox/flox
|
Meuwissen et al., 2003 |
N/A |
Mouse: Rb1flox/flox;Trp53flox/flox;CAG < Lox66Mycl-LucLox71 > |
Huijbers et al., 2014 |
N/A |
Mouse: Rb1flox/flox;Trp53flox/flox;CAG < Lox66Nfib-LucLox71 > |
Semenova et al., 2016 |
N/A |
|
Software and Algorithms |
|
Living Image acquisition and analysis software |
PerkinElmer |
N/A |
AxioVision 4 software |
Carl Zeiss Vision |
N/A |
MaxQuant version 1.5.4.1 |
Cox and Mann, 2008 |
http://www.coxdocs.org |
TopHat, version 2.1.0 |
Kim et al., 2013 |
https://ccb.jhu.edu/software/tophat/index.shtml |
GraphPad Prism, versions 6 and 7.04 |
GraphPad Software |
www.graphpad.com |
Perseus software (version 1.6.1.3) |
Tyanova et al., 2016 |
http://www.coxdocs.org |
GSEA 3.0 |
Mootha et al., 2003, Subramanian et al., 2005
|
www.broadinstitute.org/gsea |
STRING tool (version 10.5) |
Szklarczyk et al., 2017 |
www.string-db.org |
Cytoscape (version 3.4.0) |
Shannon et al., 2003 |
www.cytoscape.org |
DAVID tool (version 6.8) |
Huang et al., 2009 |
david.ncifcrf.gov |
|
Other |
|
IVIS Spectrum In Vivo Imaging System |
PerkinElmer |
N/A |
Zeiss Axioskop2 Plus microscope |
Carl Zeiss Microscopy |
N/A |
Zeiss AxioCam HRc digital camera |
Carl Zeiss Vision |
N/A |
Q Exactive Hybrid Quadrupole-Orbitrap Mass Spectrometer |
Thermo Fisher Scientific |
N/A |
Ultimate 3000 nanoLC |
Thermo Fisher Scientific |
N/A |
HiSeq 2000 Sequencing System |
Illumina |
N/A |