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. 2019 Sep 5;25(3):329–341.e6. doi: 10.1016/j.stem.2019.06.011
REAGENT or RESOURCE SOURCE IDENTIFIER
Antibodies

Caspase 3 Abcam Cat# ab2302; RRID: AB_302962
Histone H2A.X (phospho Ser139) Millipore Cat# 05-636; RRID:AB_309864
53BP1 Novusbio Cat# NB100-304; RRID:AB_10003037
GFP/YFP Thermo Fisher Scientific Cat# A10262; RRID:AB_2534023
Cytokeratin 4 Abcam Cat# ab9004; RRID:AB_306932
alpha-Tubulin Cell signaling Cat# 2125; RRID:AB_2619646
Ki67 Abcam Cat# ab15580; RRID:AB_443209
Histone H3 (phospho Ser10) Abcam Cat# ab14955; RRID:AB_443110
Nrf2 (phospho Ser40) Abcam Cat# ab76026; RRID:AB_1524049
Chk1 Santa Cruz Cat# sc-8408; RRID:AB_627257
Chk1 (phosphor Ser345) Cell Signaling Cat# 2348; RRID:AB_331212
Chk2 Cell Signaling Cat# 2662; RRID:AB_2080793
Chk2 (phospho Thr68) Cell Signaling Cat# 2661; RRID:AB_331479
p53 Vector Laboratories Cat# VP-P956; RRID: AB_2335917
p53 (phospho Ser15) Cell signaling Cat# 9284; RRID: AB_331464
p38 MAPK Cell signaling Cat# 9212; RRID:AB_330713
p38 MAPK (phosphor Thr180/Tyr182) Cell signaling Cat# 9215; RRID:AB_331762
Alexa Fluor 647 Wheat Germ Agglutinin Invitrogen Cat# W32466
Alexa Fluor 647 anti-human/mouse CD49f BioLegend Cat# 313610; RRID:AB_493637
Alexa Fluor 488 Donkey Anti-Chicken Jackson ImmunoResearch Cat# 703-545-155; RRID:AB_2340375
Alexa Fluor 555 Donkey Anti-Mouse Thermo Fisher Scientific Cat# A-31570; RRID:AB_2536180
Alexa Fluor 555 Donkey Anti-Rabitt Thermo Fisher Scientific Cat# A-31572; RRID:AB_162543
Alexa Fluor 647 Donkey Anti-Rabitt Thermo Fisher Scientific Cat# A-31573; RRID:AB_2536183
Alexa Fluor 488 Donkey Anti-Mouse Thermo Fisher Scientific Cat# A-21202; RRID:AB_141607

Bacterial and Virus Strains

Adeno-CMV-iCre Vector Laboratories Cat# 1045

Chemicals, Peptides, and Recombinant Proteins

β-Napthoflavone MP Biomedicals Cat# 156738
Tamoxifen Sigma Aldrich Cat# N3633
Fish Skin gelatin Sigma Aldrich Cat# G7765
Bovine Serum Albumin Merk Millipore Cat# 126575
Donkey serum Sigma Aldrich Cat# D9633
N-Ethylmaleimide Sigma Aldrich Cat# 04259-5G
Sodium Hidroxide VWR Cat# 191373M
N-Acetyl L-Cysteine LKT Labs Cat# A0918
Hydrogen Peroxide 30% Merk Millipore Cat# 107298
DMEM Thermo Fisher Scientific Cat# 11971025
DMEM/F-12 Thermo Fisher Scientific Cat# 31330
HBSS GIBCO Cat#14175-053
Insulin Sigma Aldrich Cat# I5500
Adenine Sigma Aldrich Cat# A3159
Hydrocortisone Calbiochem Cat# 386698
Cholera toxin Sigma-Aldrich Cat# C8052
Epidermal growth factor PeproTech Cat# 100-15
Apo-Transferrine Sigma-Aldrich Cat# T2036
Fetal calf serum PAA Laboratories Cat# A15-041
Penicillin-Streptomycin Sigma Aldrich Cat# P0781
Amphotericin B Sigma Aldrich Cat# A2942
Protease and Phosphatase inhibitor Thermo Fisher Scientific Cat# 78415
40, 6-diamidino-2-phenylindole (DAPI) Sigma Aldrich Cat# D9542
Polybrene Sigma Aldrich Cat# H9268
Trypsin/EDTA Sigma Aldrich Cat# T4174
RIPA buffer Thermo Fisher Scientific Cat# 89900
Pierce BCA Protein Assay Kit Thermo Fisher Scientific Cat# 23227

Critical Commercial Assays

Click-iT EdU imaging Life technologies Cat# C10086
RNeasy Mini kit QIAGEN Cat# 74106
Lipofectamine 2000 Thermo Fisher Cat# 11668-019
QuickSTART Bradford Dye reagents BioRAD Cat# 500-0202
Maxi Prep Endotoxin free kit QIAGEN Cat# 12362
Wes Simple ProteinSimple Cat# P/N 031-108
QIAamp DNA Micro Kit QIAGEN Cat# 56304

Deposited Data

RNaseq data: p53wt/wt This paper Wt_Ctrl_1A; ENA: ERS1432686
RNaseq data: p53wt/wt This paper Wt_Ctrl_1B; ENA: ERS1432689
RNaseq data: p53wt/wt This paper Wt_Ctrl_1C; ENA: ERS1432688
RNaseq data: p53wt/wt This paper Wt_Ctrl_24A; ENA: ERS1432703
RNaseq data: p53wt/wt This paper Wt_Ctrl_24B; ENA: ERS1432704
RNaseq data: p53wt/wt This paper Wt_Ctrl_24C; ENA: ERS1432705
RNaseq data: p53wt/wt This paper Wt_50mGy_1A; ENA: ERS1432693
RNaseq data: p53wt/wt This paper Wt_50mGy_1B; ENA: ERS1432694
RNaseq data: p53wt/wt This paper Wt_50mGy_1C; ENA: ERS1432690
RNaseq data: p53wt/wt This paper Wt_50mGy_24A; ENA: ERS1432691
RNaseq data: p53wt/wt This paper Wt_50mGy_24B; ENA: ERS1432692
RNaseq data: p53wt/wt This paper Wt_50mGy_24C; ENA: ERS1432695
RNaseq data: p53∗/wt This paper p53_mut_Ctrl_1A; ENA: ERS1432636
RNaseq data: p53∗/wt This paper p53_mut_Ctrl_1B; ENA: ERS1432637
RNaseq data: p53∗/wt This paper p53_mut_Ctrl_1C; ENA: ERS1432634
RNaseq data: p53∗/wt This paper p53_mut_Ctrl_24A; ENA: ERS1432638
RNaseq data: p53∗/wt This paper p53_mut_Ctrl_24B; ENA: ERS1432635
RNaseq data: p53∗/wt This paper p53_mut_Ctrl_24C; ENA: ERS1432639
RNaseq data: p53∗/wt This paper p53_mut_50mGy_1A; ENA: ERS1432640
RNaseq data: p53∗/wt This paper p53_mut_50mGy_1B; ENA: ERS1432641
RNaseq data: p53∗/wt This paper p53_mut_50mGy_1C; ENA: ERS1432642
RNaseq data: p53∗/wt This paper p53_mut_50mGy_24A; ENA: ERS1432643
RNaseq data: p53∗/wt This paper p53_mut_50mGy_24B; ENA: ERS1432647
RNaseq data: p53∗/wt This paper p53_mut_50mGy_24C; ENA: ERS1432644
RNaseq data: Nrf2−/− This paper NRF2KO_Ctrl_1A; ENA: ERS1432706
RNaseq data: Nrf2−/− This paper NRF2KO_Ctrl_1B; ENA: ERS1432707
RNaseq data: Nrf2−/− This paper NRF2KO_Ctrl_1C; ENA: ERS1432708
RNaseq data: Nrf2−/− This paper NRF2KO_Ctrl_24A; ENA: ERS1432709
RNaseq data: Nrf2−/− This paper NRF2KO_Ctrl_24B; ENA: ERS1432710
RNaseq data: Nrf2−/− This paper NRF2KO_Ctrl_24C; ENA: ERS1432711
RNaseq data: Nrf2−/− This paper NRF2KO_50mGy_1A; ENA: ERS1432712
RNaseq data: Nrf2−/− This paper NRF2KO_50mGy_1B; ENA: ERS1432713
RNaseq data: Nrf2−/− This paper NRF2KO_50mGy_1C; ENA: ERS1432714
RNaseq data: Nrf2−/− This paper NRF2KO_50mGy_24A; ENA: ERS1432715
RNaseq data: Nrf2−/− This paper NRF2KO_50mGy_24B; ENA: ERS1432716
RNaseq data: Nrf2−/− This paper NRF2KO_50mGy_24C; ENA: ERS1432717

Experimental Models: Cell Lines

Human derived amphotrophic phoenix cell ATCC ATCC CRL-3213

Experimental Models: Organisms/Strains

Mouse: C57BL/6J The Jackson Laboratory JAX: 000664
Mouse: Nfe2l2−/− Chan et al., 1996 JAX: 017009
Mouse: AhcreERTTrp53flR245W/wt Murai et al., 2018 N/A
Mouse: AhcreERTRosa26flYFP/wt Clayton et al., 2007 N/A

Recombinant DNA

pLPCX/mito-roGFP2-Grx1 Addgene #64977

Software and Algorithms

LAS X Leica N/A
Volocity 6 and 6.3 Perkin Elmer N/A
Imaris Bitplane N/A
GraphPad Prism 6 N/A
STAR 2.5.3a Dobin et al., 2013 N/A
HTSeq framework version 0.6.1p1 Anders et al., 2015 N/A
R package: DESeq2 Love et al., 2014 https://bioconductor.org/packages/release/bioc/html/DESeq2.html
R package: pheatmap https://cran.r-project.org/web/packages/pheatmap/index.html
R package: RColorBrewer https://cran.r-project.org/web/packages/RColorBrewer/index.html
R package: clusterProfiler Yu et al., 2012 https://bioconductor.org/packages/release/bioc/html/clusterProfiler.html
R package: org.Mm.eg.db https://bioconductor.org/packages/release/data/annotation/html/org.Mm.eg.db.html
MATLAB R2016b MathWorks N/A
Jupyter & Spyder 3.1 (Python 3) Python Software Foundation N/A

Other

Leica TCS SP8 Leica N/A
RS225 X-Ray irradiator Xstrahl RS225
Caesium source irradiator Gamma-Service medical GmbH GSR D1
UNIDOS E universal dosimeter PTW N/A
UV-irradiator CL-508M Uvitec N/A