KEY RESOURCES TABLE
| REAGENT or RESOURCE | SOURCE | IDENTIFIER |
|---|---|---|
| Antibodies | ||
| Rabbit monoclonal anti-phospho-Histone H2A.X (Ser139) | Cell Signaling Technology | Cat# 9718; RRID: AB_2118009 |
| Rabbit polyclonal anti-Ki67 | Abcam | Cat# ab15580; RRID: AB_443209 |
| Rabbit monoclonal Cleaved Caspase 3 (Asp175) | Cell Signaling Technology | Cat# 9664; RRID: AB_2070042 |
| PTMScan Phospho-ATM/ATR Substrate Motif (pSQ) Kit | Cell Signaling Technology | Cat# 12267 |
| Bacterial and Virus Strains | ||
| E. coli YG6020 | Nohmi et al. 1996 | N/A |
| Biological Samples | ||
| Chemicals, Peptides, and Recombinant Proteins | ||
| N-nitrosodimethylamine | This paper | CAS: 62-75-9 |
| Sequencing grade Trypsin | Promega | Cat# V5111 |
| 5 μm C18 beads, ODS-AQ | YMC | AQ12S05 |
| TMT10plex reagent | Thermo Scientific | Cat# 90406 |
| Critical Commercial Assays | ||
| Prototype In Vivo MicroFlow® BASIC ML Kit | Litron Laboratories | N/A |
| Prototype In Vivo MicroFlow® PLUS ML Kit | Litron Laboratories | N/A |
| RecoverEase DNA Isolation Kit | Agilent Technologies | Cat# 72023 |
| High-Select Fe-NTA Phosphopeptide Enrichment Kit | Thermo Scientific | Cat# A32992 |
| Deposited Data | ||
| Mass spectrometry proteomics data | This paper | ProteomeXchange Consortium PXD021142 |
| Experimental Models: Cell Lines | ||
| Experimental Models: Organisms/Strains | ||
| Mouse: B6.129S4(Cg)-Gt(ROSA)26Sortm1(CAG-EGFP*)Bpeng/J;gptg/g | This paper | N/A |
| Mouse: B6.129S4(Cg)-Gt(ROSA)26Sortm1(CAG-EGFP*)Bpeng/J;gptg/g;Aag−/− | This paper | N/A |
| Mouse: B6.129S4(Cg)-Gt(ROSA)26Sortm1(CAG-EGFP*)Bpeng/J;gptg/g;AagTg | This paper | N/A |
| Oligonucleotides | ||
| Recombinant DNA | ||
| Software and Algorithms | ||
| Proteome Discoverer 2.2 | ThermoFisher | https://www.thermofisher.com/us/en/home/industrial/mass-spectrometry/liquid-chromatography-mass-spectrometry-lc-ms/lc-ms-software/multi-omics-data-analysis/proteome-discoverer-software.html |
| Mascot version 2.4 | Matrix Science | http://www.matrixscience.com/ |
| Prism 8 | GraphPad Software, LLC | https://www.graphpad.com/scientific-software/prism/ |
| ImageJ | National Institutes of Health | https://imagej.nih.gov/ij/ |
| KNIME 4.0.1 | KNIME AG, Zurich, Switzerland | https://www.knime.com/downloads |
| Ilastik 1.3.2 | Berg et al., 2019 | https://www.ilastik.org/ |
| QuPath 0.2.1 | Bankhead et al., 2017 | https://qupath.github.io/ |
| Matlab R2016a | MathWorks | https://www.mathworks.com/products/new_products/release2016a.html |
| Python 3.6.0 | Python | https://www.python.org/downloads/release/python-360/ |
| FACSDiva™ v6.1.3 | BD Biosciences | https://www.bdbiosciences.com/ca/instruments/clinical/software/flow-cytometry-acquisition/bd-facsdiva-software/bd-facsdiva-software-v-613/p/643629 |
| RaDR foci counting algorithm | This paper | https://github.com/dushanw/RPN_RCN_roiExtractor |
| Other | ||