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column based mirneasy kit  (Qiagen)


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    Qiagen column based mirneasy kit
    Column Based Mirneasy Kit, supplied by Qiagen, used in various techniques. Bioz Stars score: 99/100, based on 3411 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/column+based+kit/miRNeasy+Micro+Kit/pmc13142990-129-31-37
    Average 99 stars, based on 3411 article reviews
    column based mirneasy kit - by Bioz Stars, 2026-11
    99/100 stars

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    Related Articles

    Isolation:

    Article Title: Swimming Exercise Ameliorates Neuropathic Pain and Is Associated with Hippocampal H19, miR-22, and Wnt/β-Catenin Signaling.
    Article Snippet: 1 Department of Sport Rehabilitation, Shanghai University of Sport, Shanghai 200034, China 2 Department of Rehabilitation, Punan Branch of Renji Hospital, Shanghai Jiaotong University School of Medicine, Shanghai, China 3 Naval Medical Center, Shanghai, China 4 Department of Rehabilitation, Children’s Hospital of Fudan University, Shanghai, China 5 Department of Rehabilitation Medicine, Shanghai Shangti Orthopaedic Hospital, Shanghai, China Abstract Physical activity is known to ameliorate neuropathic pain (NP); however, the underlying mechanisms, particularly those involving long non-coding RNAs (lncRNAs) in the hippocampus, remain poorly understood.. In this study, we assessed the impact of swimming training on NP in a mouse model of sciatic nerve injury (SNI), with a focus on the lncRNA H19 and its associated signaling pathway.. A male C57BL/6 mouse model of SNI was established and randomly divided into five groups: naïve, sham, sham + swim, SNI, and SNI + swim.

    Article Title: Modeling patient variants of Cnot1 and Cdc42bpb results in distinct forms of congenital diaphragmatic hernia in mice.
    Article Snippet: Distal buds were then counted using Fiji (ImageJ), then genotypes were compared statistically using one-way ANOVA with multiple comparisons using GraphPad Prism version 10.0.0 for Windows, GraphPad Software, Boston, Massachusetts USA, www.graphpad.com. .. Embryos were collected from Cnot1 +/R623W x Cnot1 +/R623W timed matings and diaphragms were micro-dissected as previously described [ 58], snap frozen in liquid nitrogen and stored at − 80 ◦ C. Total RNA was isolated from tissue using the Qiagen miRNeasy micro RNA Isolation Kit (Qiagen). .. Tissues were homogenized in TRIzol (ThermoFisher) using a Pellet Pestle Motor (Kimbal).

    Article Title: Mustn1b is required for cardiomyocyte dedifferentiation and heart regeneration in zebrafish.
    Article Snippet: 25 Unlike the adult mammalian heart, the adult zebrafish heart can robustly regenerate via 26 processes that include cardiomyocyte (CM) dedifferentiation, proliferation, and repopulation 27 of the damaged tissue.. Although CM dedifferentiation is considered indispensable for 28 cardiac regeneration, the factors driving it remain elusive.. Here, we examine the role of 29 Mustn1b in CM dedifferentiation during zebrafish cardiac regeneration.

    Tissue:

    Article Title: Modeling patient variants of Cnot1 and Cdc42bpb results in distinct forms of congenital diaphragmatic hernia in mice.
    Article Snippet: Distal buds were then counted using Fiji (ImageJ), then genotypes were compared statistically using one-way ANOVA with multiple comparisons using GraphPad Prism version 10.0.0 for Windows, GraphPad Software, Boston, Massachusetts USA, www.graphpad.com. .. Embryos were collected from Cnot1 +/R623W x Cnot1 +/R623W timed matings and diaphragms were micro-dissected as previously described [ 58], snap frozen in liquid nitrogen and stored at − 80 ◦ C. Total RNA was isolated from tissue using the Qiagen miRNeasy micro RNA Isolation Kit (Qiagen). .. Tissues were homogenized in TRIzol (ThermoFisher) using a Pellet Pestle Motor (Kimbal).

    Purification:

    Article Title: M2 Macrophage-Derived Small Extracellular Vesicle miR-106a-Loaded QCG Hydrogel Targets the RNF128-LXR Pathway to Reprogram Chondrocyte Cholesterol Metabolism for Osteoarthritis Therapy.
    Article Snippet: .. RNA was extracted and purified using the miRNeasy Micro Kit (217084, Qiagen, Germany). .. RNA integrity was assessed on an Agilent 2100 Bioanalyzer (Agilent Technologies, USA).

    Mutagenesis:

    Article Title: Mustn1b is required for cardiomyocyte dedifferentiation and heart regeneration in zebrafish.
    Article Snippet: 25 Unlike the adult mammalian heart, the adult zebrafish heart can robustly regenerate via 26 processes that include cardiomyocyte (CM) dedifferentiation, proliferation, and repopulation 27 of the damaged tissue.. Although CM dedifferentiation is considered indispensable for 28 cardiac regeneration, the factors driving it remain elusive.. Here, we examine the role of 29 Mustn1b in CM dedifferentiation during zebrafish cardiac regeneration.

    Analysis:

    Article Title: Downregulation of GJA1-Derived circ_753 and circ_755 Differentially Modulates miR-182-5p Expression and Breast Cancer-Associated Phenotypes.
    Article Snippet: We used SDS-PAGE to analyze equal amounts of EV-associated proteins and corresponding cell-lysate controls, followed by immunoblotting for the EV-associated markers CD9 and TSG101 and the negative cellular marker Calnexin (ABCAM). .. The miRNeasy Micro Kit (Qiagen) was used https://doi.org/10.3390/ijms27198849 to extract total exosomal RNA for RNA analysis, following the manufacturer’s instructions. .. We used RT-qPCR to determine the levels of circ_755, circ_753, circ_8932, circ_8533, and miR-182, as explained above (see RT-qPCR and primer design).

    Drug discovery:

    Article Title: Pharmacologically targeting CDK12 induces BRCAness and synergizes with merestinib to exacerbate DNA damage in high-risk neuroblastoma.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies 53BP1 Novus Biologicals Cat# NB100-304; RRID: AB_10003037 4EBP1 Cell Signaling technology Cat# 9644S; RRID:AB_2097841 p-4EBP1 (Thr37/46) Cell Signaling technology Cat# 9459; RRID:AB_330985 β-actin Sigma-Aldrich Cat# A5441; RRID:AB_47674 γH2A.X (S139) Abcam Cat# ab11174; RRID:AB_297813 γH2A.X (S139) Abcam Cat# ab26350; RRID:AB_470861 BRCA1 Cell Signaling technology Cat# 9010S; RRID:AB_2228244 BRCA1 Cell Signaling technology Cat# sc-6954; RRID:AB_626761 CDK12 Cell Signaling technology Cat# 119735; RRID: AB_2715688 CHK1 Santa Cruz Biotechnology Cat# sc-8408; RRID:AB_627257 Cleaved PARP (Asp214) Cell Signaling technology Cat# 9546S; RRID:AB_2160593 Cyclin K Cell Signaling technology Cat# A301-939A; RRID:AB_1547934 MYCN Santa Cruz Biotechnology Cat# sc-53993; RRID: AB_831602 RPB1 CTD (4H8) Cell Signaling technology Cat# 4650; RRID:AB_10559207 pSER2 Abcam Cat# ab5095; RRID: AB_10094137 RAD51 Santa Cruz Biotechnology Cat# sc-8349; RRID:AB_2253533 RS6K Cell Signaling technology Cat# 5G10; RRID:AB_331355 p-RS6K Cell Signaling technology Cat# D68F8; RRID: AB_10694233 Vinculin Sigma-Aldrich Cat# V19131; RRID:AB_477629 Goat anti-Mouse Alexa FluorTM 488 Thermo fisher Cat# A11001; RRID: AB_2534069 Goat anti-rabbit Alexa FluorTM 647 Thermo fisher Cat# A21245; RRID: AB_2535813 Donkey anti-rabbit Alexa fluorTM 555 Thermo fisher Cat# A31572; RRID AB_162543 Goat anti-rabbit Alexa FluorTM 488 Thermo fisher Cat# A11034; RRID AB_2576217 Anti-PHOX2B antibody [EPR14423] - C-terminal Abcam Cat #ab183741; RRID: AB_2857845 Biological samples Neuroblastoma organoids: MaxNB182, MaxNB067 AMC691B, AMC691T and AMC772T Laboratory of Jan Molenaar, Prinses Máxima Center for Pediatric Oncology, Utrecht, Netherlands N/A Neuroblastoma PDX (MSK) Memorial Sloan Kettering (MSK) New York, USA N/A Neuroblastoma PDX (EPO) Experimental Pharmacology & Oncology (EPO) Berlin-Buc, Germany ID #12196 TH-MYCN neuroblastoma murine model Laboratory of Lou Chesler Cat# 5009550; RRID: MGI:5009550 Chemicals, peptides, and recombinant proteins dCEMM2/3/4 Laboratory of Georg Winter, Research Institute for Biomedical Artificial Intelligence of the Austrian Academy of Sciences, Vienna, Austria N/A BSJ-4-116 MedChemExpress Cat# HY-103618 SR-4835 MedChemExpress Cat# HY-130250 THZ531 MedChemExpress Cat# HY-139039 Abemaciclib MedChemExpress Cat# HY-16297A Alisertib MedChemExpress Cat# HY-10971 Fenretinide MedChemExpress Cat# HY-15373 (Continued on next page) Cell Reports 45, 117997, October 27, 2026 25 .. REAGENT or RESOURCE SOURCE IDENTIFIER Merestinib MedChemExpress Cat# HY-15514 Navitoclax MedChemExpress Cat# HY-10087 Olaparib MedChemExpress Cat# HY-10162 Prexasertib MedChemExpress Cat# HY-18174 Siremadlin MedChemExpress Cat# HY-18658 Sorafenib MedChemExpress Cat# HY-10201 Talazoparib tosylate MedChemExpress Cat# HY-108413 Tivantinib MedChemExpress Cat# HY-50686 Topotecan hydrochloride MedChemExpress Cat# HY-13768A Cisplatin-AQ Prinses Máxima Center Pharmacy, Utrecht, The Netherlands CHEBI:27899 ko 143 MedChemExpress Cat# HY-10010 MK571 MedChemExpress HY-19989 Tariquadar MedChemExpress HY-10550 OKI-1546 OnKure Therapeutics, Boulder, Colorado, USA N/A Propidium Iodide Thermo Fisher Scientific Cat# R1253 Máxima compound library Prinses Máxima Center, Utrecht, The Netherlands N/A Critical commercial assays PowerPlex 16 System Promega Cat# DC6531 MycoAlert Mycoplasma Detection Kit Lonza Cat# LT07-318 MTT Assay SERVA Cat# 20395.03 CellTiter-Glo 3D Cell Viability Assay Promega Cat# G9681 Caspase-Glo 3/7 Assay reagent Promega Cat# G8090 miRNeasy Mini kit Qiagen Cat# 217084 Illumina Stranded mRNA prep Illumina Cat# 0040534 NextSeq 2000 P2 Reagents 100 Cycles single-end kit Illumina Cat# 20100987 Click-iT EdU Cell Proliferation Kit for Imaging, Alexa FluorTM 647 Thermo Fisher Scientific Cat# C10340 KAPA Hyper0Exome V2 capture system Roche Cat# 09062602001 Deposited data All RNA sequencing data Gene Expression Omnibus (GEO) repository GSE287496 Whole-exome sequencing data Gene Expression Omnibus (GEO) repository GSE317312 Experimental models: Cell lines Neuroblastoma cell line N206 Laboratory of Rogier Versteeg, Amsterdam UMC, The Netherlands RRID: CVCL_C885 Neuroblastoma cell line SH-SY5Y Laboratory of Johannes Schulte, Charité - Universitätsmedizin Berlin, Germany RRID: CVCL_0019 Neuroblastoma cell lines: CLB-GA, IMR-32, Kelly, SKNMM, GIMEN, LAN5, KPNYN, NGP, SHEP2, SKNBE, SJNB1, SJNB6, SJNB10, CHLA90. .. ATCC RRID: CVCL_9529, RRID: CVCL_0346, RRID: CVCL_2092, RRID: CVCL_C8G1, RRID: CVCL_1232, RRID: CVCL_0389, RRID: CVCL_1341, RRID: CVCL_2141, RRID: CVCL_HF70, RRID: CVCL_0528, RRID: CVCL_8812, RRID: CVCL_8823, RRID: CVCL_1441, RRID: CVCL_6610 (Continued on next page) 26 Cell Reports 45, 117997, October 27, 2026

    MTT Assay:

    Article Title: Pharmacologically targeting CDK12 induces BRCAness and synergizes with merestinib to exacerbate DNA damage in high-risk neuroblastoma.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies 53BP1 Novus Biologicals Cat# NB100-304; RRID: AB_10003037 4EBP1 Cell Signaling technology Cat# 9644S; RRID:AB_2097841 p-4EBP1 (Thr37/46) Cell Signaling technology Cat# 9459; RRID:AB_330985 β-actin Sigma-Aldrich Cat# A5441; RRID:AB_47674 γH2A.X (S139) Abcam Cat# ab11174; RRID:AB_297813 γH2A.X (S139) Abcam Cat# ab26350; RRID:AB_470861 BRCA1 Cell Signaling technology Cat# 9010S; RRID:AB_2228244 BRCA1 Cell Signaling technology Cat# sc-6954; RRID:AB_626761 CDK12 Cell Signaling technology Cat# 119735; RRID: AB_2715688 CHK1 Santa Cruz Biotechnology Cat# sc-8408; RRID:AB_627257 Cleaved PARP (Asp214) Cell Signaling technology Cat# 9546S; RRID:AB_2160593 Cyclin K Cell Signaling technology Cat# A301-939A; RRID:AB_1547934 MYCN Santa Cruz Biotechnology Cat# sc-53993; RRID: AB_831602 RPB1 CTD (4H8) Cell Signaling technology Cat# 4650; RRID:AB_10559207 pSER2 Abcam Cat# ab5095; RRID: AB_10094137 RAD51 Santa Cruz Biotechnology Cat# sc-8349; RRID:AB_2253533 RS6K Cell Signaling technology Cat# 5G10; RRID:AB_331355 p-RS6K Cell Signaling technology Cat# D68F8; RRID: AB_10694233 Vinculin Sigma-Aldrich Cat# V19131; RRID:AB_477629 Goat anti-Mouse Alexa FluorTM 488 Thermo fisher Cat# A11001; RRID: AB_2534069 Goat anti-rabbit Alexa FluorTM 647 Thermo fisher Cat# A21245; RRID: AB_2535813 Donkey anti-rabbit Alexa fluorTM 555 Thermo fisher Cat# A31572; RRID AB_162543 Goat anti-rabbit Alexa FluorTM 488 Thermo fisher Cat# A11034; RRID AB_2576217 Anti-PHOX2B antibody [EPR14423] - C-terminal Abcam Cat #ab183741; RRID: AB_2857845 Biological samples Neuroblastoma organoids: MaxNB182, MaxNB067 AMC691B, AMC691T and AMC772T Laboratory of Jan Molenaar, Prinses Máxima Center for Pediatric Oncology, Utrecht, Netherlands N/A Neuroblastoma PDX (MSK) Memorial Sloan Kettering (MSK) New York, USA N/A Neuroblastoma PDX (EPO) Experimental Pharmacology & Oncology (EPO) Berlin-Buc, Germany ID #12196 TH-MYCN neuroblastoma murine model Laboratory of Lou Chesler Cat# 5009550; RRID: MGI:5009550 Chemicals, peptides, and recombinant proteins dCEMM2/3/4 Laboratory of Georg Winter, Research Institute for Biomedical Artificial Intelligence of the Austrian Academy of Sciences, Vienna, Austria N/A BSJ-4-116 MedChemExpress Cat# HY-103618 SR-4835 MedChemExpress Cat# HY-130250 THZ531 MedChemExpress Cat# HY-139039 Abemaciclib MedChemExpress Cat# HY-16297A Alisertib MedChemExpress Cat# HY-10971 Fenretinide MedChemExpress Cat# HY-15373 (Continued on next page) Cell Reports 45, 117997, October 27, 2026 25 .. REAGENT or RESOURCE SOURCE IDENTIFIER Merestinib MedChemExpress Cat# HY-15514 Navitoclax MedChemExpress Cat# HY-10087 Olaparib MedChemExpress Cat# HY-10162 Prexasertib MedChemExpress Cat# HY-18174 Siremadlin MedChemExpress Cat# HY-18658 Sorafenib MedChemExpress Cat# HY-10201 Talazoparib tosylate MedChemExpress Cat# HY-108413 Tivantinib MedChemExpress Cat# HY-50686 Topotecan hydrochloride MedChemExpress Cat# HY-13768A Cisplatin-AQ Prinses Máxima Center Pharmacy, Utrecht, The Netherlands CHEBI:27899 ko 143 MedChemExpress Cat# HY-10010 MK571 MedChemExpress HY-19989 Tariquadar MedChemExpress HY-10550 OKI-1546 OnKure Therapeutics, Boulder, Colorado, USA N/A Propidium Iodide Thermo Fisher Scientific Cat# R1253 Máxima compound library Prinses Máxima Center, Utrecht, The Netherlands N/A Critical commercial assays PowerPlex 16 System Promega Cat# DC6531 MycoAlert Mycoplasma Detection Kit Lonza Cat# LT07-318 MTT Assay SERVA Cat# 20395.03 CellTiter-Glo 3D Cell Viability Assay Promega Cat# G9681 Caspase-Glo 3/7 Assay reagent Promega Cat# G8090 miRNeasy Mini kit Qiagen Cat# 217084 Illumina Stranded mRNA prep Illumina Cat# 0040534 NextSeq 2000 P2 Reagents 100 Cycles single-end kit Illumina Cat# 20100987 Click-iT EdU Cell Proliferation Kit for Imaging, Alexa FluorTM 647 Thermo Fisher Scientific Cat# C10340 KAPA Hyper0Exome V2 capture system Roche Cat# 09062602001 Deposited data All RNA sequencing data Gene Expression Omnibus (GEO) repository GSE287496 Whole-exome sequencing data Gene Expression Omnibus (GEO) repository GSE317312 Experimental models: Cell lines Neuroblastoma cell line N206 Laboratory of Rogier Versteeg, Amsterdam UMC, The Netherlands RRID: CVCL_C885 Neuroblastoma cell line SH-SY5Y Laboratory of Johannes Schulte, Charité - Universitätsmedizin Berlin, Germany RRID: CVCL_0019 Neuroblastoma cell lines: CLB-GA, IMR-32, Kelly, SKNMM, GIMEN, LAN5, KPNYN, NGP, SHEP2, SKNBE, SJNB1, SJNB6, SJNB10, CHLA90. .. ATCC RRID: CVCL_9529, RRID: CVCL_0346, RRID: CVCL_2092, RRID: CVCL_C8G1, RRID: CVCL_1232, RRID: CVCL_0389, RRID: CVCL_1341, RRID: CVCL_2141, RRID: CVCL_HF70, RRID: CVCL_0528, RRID: CVCL_8812, RRID: CVCL_8823, RRID: CVCL_1441, RRID: CVCL_6610 (Continued on next page) 26 Cell Reports 45, 117997, October 27, 2026

    Cell Viability Assay:

    Article Title: Pharmacologically targeting CDK12 induces BRCAness and synergizes with merestinib to exacerbate DNA damage in high-risk neuroblastoma.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies 53BP1 Novus Biologicals Cat# NB100-304; RRID: AB_10003037 4EBP1 Cell Signaling technology Cat# 9644S; RRID:AB_2097841 p-4EBP1 (Thr37/46) Cell Signaling technology Cat# 9459; RRID:AB_330985 β-actin Sigma-Aldrich Cat# A5441; RRID:AB_47674 γH2A.X (S139) Abcam Cat# ab11174; RRID:AB_297813 γH2A.X (S139) Abcam Cat# ab26350; RRID:AB_470861 BRCA1 Cell Signaling technology Cat# 9010S; RRID:AB_2228244 BRCA1 Cell Signaling technology Cat# sc-6954; RRID:AB_626761 CDK12 Cell Signaling technology Cat# 119735; RRID: AB_2715688 CHK1 Santa Cruz Biotechnology Cat# sc-8408; RRID:AB_627257 Cleaved PARP (Asp214) Cell Signaling technology Cat# 9546S; RRID:AB_2160593 Cyclin K Cell Signaling technology Cat# A301-939A; RRID:AB_1547934 MYCN Santa Cruz Biotechnology Cat# sc-53993; RRID: AB_831602 RPB1 CTD (4H8) Cell Signaling technology Cat# 4650; RRID:AB_10559207 pSER2 Abcam Cat# ab5095; RRID: AB_10094137 RAD51 Santa Cruz Biotechnology Cat# sc-8349; RRID:AB_2253533 RS6K Cell Signaling technology Cat# 5G10; RRID:AB_331355 p-RS6K Cell Signaling technology Cat# D68F8; RRID: AB_10694233 Vinculin Sigma-Aldrich Cat# V19131; RRID:AB_477629 Goat anti-Mouse Alexa FluorTM 488 Thermo fisher Cat# A11001; RRID: AB_2534069 Goat anti-rabbit Alexa FluorTM 647 Thermo fisher Cat# A21245; RRID: AB_2535813 Donkey anti-rabbit Alexa fluorTM 555 Thermo fisher Cat# A31572; RRID AB_162543 Goat anti-rabbit Alexa FluorTM 488 Thermo fisher Cat# A11034; RRID AB_2576217 Anti-PHOX2B antibody [EPR14423] - C-terminal Abcam Cat #ab183741; RRID: AB_2857845 Biological samples Neuroblastoma organoids: MaxNB182, MaxNB067 AMC691B, AMC691T and AMC772T Laboratory of Jan Molenaar, Prinses Máxima Center for Pediatric Oncology, Utrecht, Netherlands N/A Neuroblastoma PDX (MSK) Memorial Sloan Kettering (MSK) New York, USA N/A Neuroblastoma PDX (EPO) Experimental Pharmacology & Oncology (EPO) Berlin-Buc, Germany ID #12196 TH-MYCN neuroblastoma murine model Laboratory of Lou Chesler Cat# 5009550; RRID: MGI:5009550 Chemicals, peptides, and recombinant proteins dCEMM2/3/4 Laboratory of Georg Winter, Research Institute for Biomedical Artificial Intelligence of the Austrian Academy of Sciences, Vienna, Austria N/A BSJ-4-116 MedChemExpress Cat# HY-103618 SR-4835 MedChemExpress Cat# HY-130250 THZ531 MedChemExpress Cat# HY-139039 Abemaciclib MedChemExpress Cat# HY-16297A Alisertib MedChemExpress Cat# HY-10971 Fenretinide MedChemExpress Cat# HY-15373 (Continued on next page) Cell Reports 45, 117997, October 27, 2026 25 .. REAGENT or RESOURCE SOURCE IDENTIFIER Merestinib MedChemExpress Cat# HY-15514 Navitoclax MedChemExpress Cat# HY-10087 Olaparib MedChemExpress Cat# HY-10162 Prexasertib MedChemExpress Cat# HY-18174 Siremadlin MedChemExpress Cat# HY-18658 Sorafenib MedChemExpress Cat# HY-10201 Talazoparib tosylate MedChemExpress Cat# HY-108413 Tivantinib MedChemExpress Cat# HY-50686 Topotecan hydrochloride MedChemExpress Cat# HY-13768A Cisplatin-AQ Prinses Máxima Center Pharmacy, Utrecht, The Netherlands CHEBI:27899 ko 143 MedChemExpress Cat# HY-10010 MK571 MedChemExpress HY-19989 Tariquadar MedChemExpress HY-10550 OKI-1546 OnKure Therapeutics, Boulder, Colorado, USA N/A Propidium Iodide Thermo Fisher Scientific Cat# R1253 Máxima compound library Prinses Máxima Center, Utrecht, The Netherlands N/A Critical commercial assays PowerPlex 16 System Promega Cat# DC6531 MycoAlert Mycoplasma Detection Kit Lonza Cat# LT07-318 MTT Assay SERVA Cat# 20395.03 CellTiter-Glo 3D Cell Viability Assay Promega Cat# G9681 Caspase-Glo 3/7 Assay reagent Promega Cat# G8090 miRNeasy Mini kit Qiagen Cat# 217084 Illumina Stranded mRNA prep Illumina Cat# 0040534 NextSeq 2000 P2 Reagents 100 Cycles single-end kit Illumina Cat# 20100987 Click-iT EdU Cell Proliferation Kit for Imaging, Alexa FluorTM 647 Thermo Fisher Scientific Cat# C10340 KAPA Hyper0Exome V2 capture system Roche Cat# 09062602001 Deposited data All RNA sequencing data Gene Expression Omnibus (GEO) repository GSE287496 Whole-exome sequencing data Gene Expression Omnibus (GEO) repository GSE317312 Experimental models: Cell lines Neuroblastoma cell line N206 Laboratory of Rogier Versteeg, Amsterdam UMC, The Netherlands RRID: CVCL_C885 Neuroblastoma cell line SH-SY5Y Laboratory of Johannes Schulte, Charité - Universitätsmedizin Berlin, Germany RRID: CVCL_0019 Neuroblastoma cell lines: CLB-GA, IMR-32, Kelly, SKNMM, GIMEN, LAN5, KPNYN, NGP, SHEP2, SKNBE, SJNB1, SJNB6, SJNB10, CHLA90. .. ATCC RRID: CVCL_9529, RRID: CVCL_0346, RRID: CVCL_2092, RRID: CVCL_C8G1, RRID: CVCL_1232, RRID: CVCL_0389, RRID: CVCL_1341, RRID: CVCL_2141, RRID: CVCL_HF70, RRID: CVCL_0528, RRID: CVCL_8812, RRID: CVCL_8823, RRID: CVCL_1441, RRID: CVCL_6610 (Continued on next page) 26 Cell Reports 45, 117997, October 27, 2026

    Caspase-Glo Assay:

    Article Title: Pharmacologically targeting CDK12 induces BRCAness and synergizes with merestinib to exacerbate DNA damage in high-risk neuroblastoma.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies 53BP1 Novus Biologicals Cat# NB100-304; RRID: AB_10003037 4EBP1 Cell Signaling technology Cat# 9644S; RRID:AB_2097841 p-4EBP1 (Thr37/46) Cell Signaling technology Cat# 9459; RRID:AB_330985 β-actin Sigma-Aldrich Cat# A5441; RRID:AB_47674 γH2A.X (S139) Abcam Cat# ab11174; RRID:AB_297813 γH2A.X (S139) Abcam Cat# ab26350; RRID:AB_470861 BRCA1 Cell Signaling technology Cat# 9010S; RRID:AB_2228244 BRCA1 Cell Signaling technology Cat# sc-6954; RRID:AB_626761 CDK12 Cell Signaling technology Cat# 119735; RRID: AB_2715688 CHK1 Santa Cruz Biotechnology Cat# sc-8408; RRID:AB_627257 Cleaved PARP (Asp214) Cell Signaling technology Cat# 9546S; RRID:AB_2160593 Cyclin K Cell Signaling technology Cat# A301-939A; RRID:AB_1547934 MYCN Santa Cruz Biotechnology Cat# sc-53993; RRID: AB_831602 RPB1 CTD (4H8) Cell Signaling technology Cat# 4650; RRID:AB_10559207 pSER2 Abcam Cat# ab5095; RRID: AB_10094137 RAD51 Santa Cruz Biotechnology Cat# sc-8349; RRID:AB_2253533 RS6K Cell Signaling technology Cat# 5G10; RRID:AB_331355 p-RS6K Cell Signaling technology Cat# D68F8; RRID: AB_10694233 Vinculin Sigma-Aldrich Cat# V19131; RRID:AB_477629 Goat anti-Mouse Alexa FluorTM 488 Thermo fisher Cat# A11001; RRID: AB_2534069 Goat anti-rabbit Alexa FluorTM 647 Thermo fisher Cat# A21245; RRID: AB_2535813 Donkey anti-rabbit Alexa fluorTM 555 Thermo fisher Cat# A31572; RRID AB_162543 Goat anti-rabbit Alexa FluorTM 488 Thermo fisher Cat# A11034; RRID AB_2576217 Anti-PHOX2B antibody [EPR14423] - C-terminal Abcam Cat #ab183741; RRID: AB_2857845 Biological samples Neuroblastoma organoids: MaxNB182, MaxNB067 AMC691B, AMC691T and AMC772T Laboratory of Jan Molenaar, Prinses Máxima Center for Pediatric Oncology, Utrecht, Netherlands N/A Neuroblastoma PDX (MSK) Memorial Sloan Kettering (MSK) New York, USA N/A Neuroblastoma PDX (EPO) Experimental Pharmacology & Oncology (EPO) Berlin-Buc, Germany ID #12196 TH-MYCN neuroblastoma murine model Laboratory of Lou Chesler Cat# 5009550; RRID: MGI:5009550 Chemicals, peptides, and recombinant proteins dCEMM2/3/4 Laboratory of Georg Winter, Research Institute for Biomedical Artificial Intelligence of the Austrian Academy of Sciences, Vienna, Austria N/A BSJ-4-116 MedChemExpress Cat# HY-103618 SR-4835 MedChemExpress Cat# HY-130250 THZ531 MedChemExpress Cat# HY-139039 Abemaciclib MedChemExpress Cat# HY-16297A Alisertib MedChemExpress Cat# HY-10971 Fenretinide MedChemExpress Cat# HY-15373 (Continued on next page) Cell Reports 45, 117997, October 27, 2026 25 .. REAGENT or RESOURCE SOURCE IDENTIFIER Merestinib MedChemExpress Cat# HY-15514 Navitoclax MedChemExpress Cat# HY-10087 Olaparib MedChemExpress Cat# HY-10162 Prexasertib MedChemExpress Cat# HY-18174 Siremadlin MedChemExpress Cat# HY-18658 Sorafenib MedChemExpress Cat# HY-10201 Talazoparib tosylate MedChemExpress Cat# HY-108413 Tivantinib MedChemExpress Cat# HY-50686 Topotecan hydrochloride MedChemExpress Cat# HY-13768A Cisplatin-AQ Prinses Máxima Center Pharmacy, Utrecht, The Netherlands CHEBI:27899 ko 143 MedChemExpress Cat# HY-10010 MK571 MedChemExpress HY-19989 Tariquadar MedChemExpress HY-10550 OKI-1546 OnKure Therapeutics, Boulder, Colorado, USA N/A Propidium Iodide Thermo Fisher Scientific Cat# R1253 Máxima compound library Prinses Máxima Center, Utrecht, The Netherlands N/A Critical commercial assays PowerPlex 16 System Promega Cat# DC6531 MycoAlert Mycoplasma Detection Kit Lonza Cat# LT07-318 MTT Assay SERVA Cat# 20395.03 CellTiter-Glo 3D Cell Viability Assay Promega Cat# G9681 Caspase-Glo 3/7 Assay reagent Promega Cat# G8090 miRNeasy Mini kit Qiagen Cat# 217084 Illumina Stranded mRNA prep Illumina Cat# 0040534 NextSeq 2000 P2 Reagents 100 Cycles single-end kit Illumina Cat# 20100987 Click-iT EdU Cell Proliferation Kit for Imaging, Alexa FluorTM 647 Thermo Fisher Scientific Cat# C10340 KAPA Hyper0Exome V2 capture system Roche Cat# 09062602001 Deposited data All RNA sequencing data Gene Expression Omnibus (GEO) repository GSE287496 Whole-exome sequencing data Gene Expression Omnibus (GEO) repository GSE317312 Experimental models: Cell lines Neuroblastoma cell line N206 Laboratory of Rogier Versteeg, Amsterdam UMC, The Netherlands RRID: CVCL_C885 Neuroblastoma cell line SH-SY5Y Laboratory of Johannes Schulte, Charité - Universitätsmedizin Berlin, Germany RRID: CVCL_0019 Neuroblastoma cell lines: CLB-GA, IMR-32, Kelly, SKNMM, GIMEN, LAN5, KPNYN, NGP, SHEP2, SKNBE, SJNB1, SJNB6, SJNB10, CHLA90. .. ATCC RRID: CVCL_9529, RRID: CVCL_0346, RRID: CVCL_2092, RRID: CVCL_C8G1, RRID: CVCL_1232, RRID: CVCL_0389, RRID: CVCL_1341, RRID: CVCL_2141, RRID: CVCL_HF70, RRID: CVCL_0528, RRID: CVCL_8812, RRID: CVCL_8823, RRID: CVCL_1441, RRID: CVCL_6610 (Continued on next page) 26 Cell Reports 45, 117997, October 27, 2026

    Imaging:

    Article Title: Pharmacologically targeting CDK12 induces BRCAness and synergizes with merestinib to exacerbate DNA damage in high-risk neuroblastoma.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies 53BP1 Novus Biologicals Cat# NB100-304; RRID: AB_10003037 4EBP1 Cell Signaling technology Cat# 9644S; RRID:AB_2097841 p-4EBP1 (Thr37/46) Cell Signaling technology Cat# 9459; RRID:AB_330985 β-actin Sigma-Aldrich Cat# A5441; RRID:AB_47674 γH2A.X (S139) Abcam Cat# ab11174; RRID:AB_297813 γH2A.X (S139) Abcam Cat# ab26350; RRID:AB_470861 BRCA1 Cell Signaling technology Cat# 9010S; RRID:AB_2228244 BRCA1 Cell Signaling technology Cat# sc-6954; RRID:AB_626761 CDK12 Cell Signaling technology Cat# 119735; RRID: AB_2715688 CHK1 Santa Cruz Biotechnology Cat# sc-8408; RRID:AB_627257 Cleaved PARP (Asp214) Cell Signaling technology Cat# 9546S; RRID:AB_2160593 Cyclin K Cell Signaling technology Cat# A301-939A; RRID:AB_1547934 MYCN Santa Cruz Biotechnology Cat# sc-53993; RRID: AB_831602 RPB1 CTD (4H8) Cell Signaling technology Cat# 4650; RRID:AB_10559207 pSER2 Abcam Cat# ab5095; RRID: AB_10094137 RAD51 Santa Cruz Biotechnology Cat# sc-8349; RRID:AB_2253533 RS6K Cell Signaling technology Cat# 5G10; RRID:AB_331355 p-RS6K Cell Signaling technology Cat# D68F8; RRID: AB_10694233 Vinculin Sigma-Aldrich Cat# V19131; RRID:AB_477629 Goat anti-Mouse Alexa FluorTM 488 Thermo fisher Cat# A11001; RRID: AB_2534069 Goat anti-rabbit Alexa FluorTM 647 Thermo fisher Cat# A21245; RRID: AB_2535813 Donkey anti-rabbit Alexa fluorTM 555 Thermo fisher Cat# A31572; RRID AB_162543 Goat anti-rabbit Alexa FluorTM 488 Thermo fisher Cat# A11034; RRID AB_2576217 Anti-PHOX2B antibody [EPR14423] - C-terminal Abcam Cat #ab183741; RRID: AB_2857845 Biological samples Neuroblastoma organoids: MaxNB182, MaxNB067 AMC691B, AMC691T and AMC772T Laboratory of Jan Molenaar, Prinses Máxima Center for Pediatric Oncology, Utrecht, Netherlands N/A Neuroblastoma PDX (MSK) Memorial Sloan Kettering (MSK) New York, USA N/A Neuroblastoma PDX (EPO) Experimental Pharmacology & Oncology (EPO) Berlin-Buc, Germany ID #12196 TH-MYCN neuroblastoma murine model Laboratory of Lou Chesler Cat# 5009550; RRID: MGI:5009550 Chemicals, peptides, and recombinant proteins dCEMM2/3/4 Laboratory of Georg Winter, Research Institute for Biomedical Artificial Intelligence of the Austrian Academy of Sciences, Vienna, Austria N/A BSJ-4-116 MedChemExpress Cat# HY-103618 SR-4835 MedChemExpress Cat# HY-130250 THZ531 MedChemExpress Cat# HY-139039 Abemaciclib MedChemExpress Cat# HY-16297A Alisertib MedChemExpress Cat# HY-10971 Fenretinide MedChemExpress Cat# HY-15373 (Continued on next page) Cell Reports 45, 117997, October 27, 2026 25 .. REAGENT or RESOURCE SOURCE IDENTIFIER Merestinib MedChemExpress Cat# HY-15514 Navitoclax MedChemExpress Cat# HY-10087 Olaparib MedChemExpress Cat# HY-10162 Prexasertib MedChemExpress Cat# HY-18174 Siremadlin MedChemExpress Cat# HY-18658 Sorafenib MedChemExpress Cat# HY-10201 Talazoparib tosylate MedChemExpress Cat# HY-108413 Tivantinib MedChemExpress Cat# HY-50686 Topotecan hydrochloride MedChemExpress Cat# HY-13768A Cisplatin-AQ Prinses Máxima Center Pharmacy, Utrecht, The Netherlands CHEBI:27899 ko 143 MedChemExpress Cat# HY-10010 MK571 MedChemExpress HY-19989 Tariquadar MedChemExpress HY-10550 OKI-1546 OnKure Therapeutics, Boulder, Colorado, USA N/A Propidium Iodide Thermo Fisher Scientific Cat# R1253 Máxima compound library Prinses Máxima Center, Utrecht, The Netherlands N/A Critical commercial assays PowerPlex 16 System Promega Cat# DC6531 MycoAlert Mycoplasma Detection Kit Lonza Cat# LT07-318 MTT Assay SERVA Cat# 20395.03 CellTiter-Glo 3D Cell Viability Assay Promega Cat# G9681 Caspase-Glo 3/7 Assay reagent Promega Cat# G8090 miRNeasy Mini kit Qiagen Cat# 217084 Illumina Stranded mRNA prep Illumina Cat# 0040534 NextSeq 2000 P2 Reagents 100 Cycles single-end kit Illumina Cat# 20100987 Click-iT EdU Cell Proliferation Kit for Imaging, Alexa FluorTM 647 Thermo Fisher Scientific Cat# C10340 KAPA Hyper0Exome V2 capture system Roche Cat# 09062602001 Deposited data All RNA sequencing data Gene Expression Omnibus (GEO) repository GSE287496 Whole-exome sequencing data Gene Expression Omnibus (GEO) repository GSE317312 Experimental models: Cell lines Neuroblastoma cell line N206 Laboratory of Rogier Versteeg, Amsterdam UMC, The Netherlands RRID: CVCL_C885 Neuroblastoma cell line SH-SY5Y Laboratory of Johannes Schulte, Charité - Universitätsmedizin Berlin, Germany RRID: CVCL_0019 Neuroblastoma cell lines: CLB-GA, IMR-32, Kelly, SKNMM, GIMEN, LAN5, KPNYN, NGP, SHEP2, SKNBE, SJNB1, SJNB6, SJNB10, CHLA90. .. ATCC RRID: CVCL_9529, RRID: CVCL_0346, RRID: CVCL_2092, RRID: CVCL_C8G1, RRID: CVCL_1232, RRID: CVCL_0389, RRID: CVCL_1341, RRID: CVCL_2141, RRID: CVCL_HF70, RRID: CVCL_0528, RRID: CVCL_8812, RRID: CVCL_8823, RRID: CVCL_1441, RRID: CVCL_6610 (Continued on next page) 26 Cell Reports 45, 117997, October 27, 2026

    RNA Sequencing:

    Article Title: Pharmacologically targeting CDK12 induces BRCAness and synergizes with merestinib to exacerbate DNA damage in high-risk neuroblastoma.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies 53BP1 Novus Biologicals Cat# NB100-304; RRID: AB_10003037 4EBP1 Cell Signaling technology Cat# 9644S; RRID:AB_2097841 p-4EBP1 (Thr37/46) Cell Signaling technology Cat# 9459; RRID:AB_330985 β-actin Sigma-Aldrich Cat# A5441; RRID:AB_47674 γH2A.X (S139) Abcam Cat# ab11174; RRID:AB_297813 γH2A.X (S139) Abcam Cat# ab26350; RRID:AB_470861 BRCA1 Cell Signaling technology Cat# 9010S; RRID:AB_2228244 BRCA1 Cell Signaling technology Cat# sc-6954; RRID:AB_626761 CDK12 Cell Signaling technology Cat# 119735; RRID: AB_2715688 CHK1 Santa Cruz Biotechnology Cat# sc-8408; RRID:AB_627257 Cleaved PARP (Asp214) Cell Signaling technology Cat# 9546S; RRID:AB_2160593 Cyclin K Cell Signaling technology Cat# A301-939A; RRID:AB_1547934 MYCN Santa Cruz Biotechnology Cat# sc-53993; RRID: AB_831602 RPB1 CTD (4H8) Cell Signaling technology Cat# 4650; RRID:AB_10559207 pSER2 Abcam Cat# ab5095; RRID: AB_10094137 RAD51 Santa Cruz Biotechnology Cat# sc-8349; RRID:AB_2253533 RS6K Cell Signaling technology Cat# 5G10; RRID:AB_331355 p-RS6K Cell Signaling technology Cat# D68F8; RRID: AB_10694233 Vinculin Sigma-Aldrich Cat# V19131; RRID:AB_477629 Goat anti-Mouse Alexa FluorTM 488 Thermo fisher Cat# A11001; RRID: AB_2534069 Goat anti-rabbit Alexa FluorTM 647 Thermo fisher Cat# A21245; RRID: AB_2535813 Donkey anti-rabbit Alexa fluorTM 555 Thermo fisher Cat# A31572; RRID AB_162543 Goat anti-rabbit Alexa FluorTM 488 Thermo fisher Cat# A11034; RRID AB_2576217 Anti-PHOX2B antibody [EPR14423] - C-terminal Abcam Cat #ab183741; RRID: AB_2857845 Biological samples Neuroblastoma organoids: MaxNB182, MaxNB067 AMC691B, AMC691T and AMC772T Laboratory of Jan Molenaar, Prinses Máxima Center for Pediatric Oncology, Utrecht, Netherlands N/A Neuroblastoma PDX (MSK) Memorial Sloan Kettering (MSK) New York, USA N/A Neuroblastoma PDX (EPO) Experimental Pharmacology & Oncology (EPO) Berlin-Buc, Germany ID #12196 TH-MYCN neuroblastoma murine model Laboratory of Lou Chesler Cat# 5009550; RRID: MGI:5009550 Chemicals, peptides, and recombinant proteins dCEMM2/3/4 Laboratory of Georg Winter, Research Institute for Biomedical Artificial Intelligence of the Austrian Academy of Sciences, Vienna, Austria N/A BSJ-4-116 MedChemExpress Cat# HY-103618 SR-4835 MedChemExpress Cat# HY-130250 THZ531 MedChemExpress Cat# HY-139039 Abemaciclib MedChemExpress Cat# HY-16297A Alisertib MedChemExpress Cat# HY-10971 Fenretinide MedChemExpress Cat# HY-15373 (Continued on next page) Cell Reports 45, 117997, October 27, 2026 25 .. REAGENT or RESOURCE SOURCE IDENTIFIER Merestinib MedChemExpress Cat# HY-15514 Navitoclax MedChemExpress Cat# HY-10087 Olaparib MedChemExpress Cat# HY-10162 Prexasertib MedChemExpress Cat# HY-18174 Siremadlin MedChemExpress Cat# HY-18658 Sorafenib MedChemExpress Cat# HY-10201 Talazoparib tosylate MedChemExpress Cat# HY-108413 Tivantinib MedChemExpress Cat# HY-50686 Topotecan hydrochloride MedChemExpress Cat# HY-13768A Cisplatin-AQ Prinses Máxima Center Pharmacy, Utrecht, The Netherlands CHEBI:27899 ko 143 MedChemExpress Cat# HY-10010 MK571 MedChemExpress HY-19989 Tariquadar MedChemExpress HY-10550 OKI-1546 OnKure Therapeutics, Boulder, Colorado, USA N/A Propidium Iodide Thermo Fisher Scientific Cat# R1253 Máxima compound library Prinses Máxima Center, Utrecht, The Netherlands N/A Critical commercial assays PowerPlex 16 System Promega Cat# DC6531 MycoAlert Mycoplasma Detection Kit Lonza Cat# LT07-318 MTT Assay SERVA Cat# 20395.03 CellTiter-Glo 3D Cell Viability Assay Promega Cat# G9681 Caspase-Glo 3/7 Assay reagent Promega Cat# G8090 miRNeasy Mini kit Qiagen Cat# 217084 Illumina Stranded mRNA prep Illumina Cat# 0040534 NextSeq 2000 P2 Reagents 100 Cycles single-end kit Illumina Cat# 20100987 Click-iT EdU Cell Proliferation Kit for Imaging, Alexa FluorTM 647 Thermo Fisher Scientific Cat# C10340 KAPA Hyper0Exome V2 capture system Roche Cat# 09062602001 Deposited data All RNA sequencing data Gene Expression Omnibus (GEO) repository GSE287496 Whole-exome sequencing data Gene Expression Omnibus (GEO) repository GSE317312 Experimental models: Cell lines Neuroblastoma cell line N206 Laboratory of Rogier Versteeg, Amsterdam UMC, The Netherlands RRID: CVCL_C885 Neuroblastoma cell line SH-SY5Y Laboratory of Johannes Schulte, Charité - Universitätsmedizin Berlin, Germany RRID: CVCL_0019 Neuroblastoma cell lines: CLB-GA, IMR-32, Kelly, SKNMM, GIMEN, LAN5, KPNYN, NGP, SHEP2, SKNBE, SJNB1, SJNB6, SJNB10, CHLA90. .. ATCC RRID: CVCL_9529, RRID: CVCL_0346, RRID: CVCL_2092, RRID: CVCL_C8G1, RRID: CVCL_1232, RRID: CVCL_0389, RRID: CVCL_1341, RRID: CVCL_2141, RRID: CVCL_HF70, RRID: CVCL_0528, RRID: CVCL_8812, RRID: CVCL_8823, RRID: CVCL_1441, RRID: CVCL_6610 (Continued on next page) 26 Cell Reports 45, 117997, October 27, 2026

    Gene Expression:

    Article Title: Pharmacologically targeting CDK12 induces BRCAness and synergizes with merestinib to exacerbate DNA damage in high-risk neuroblastoma.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies 53BP1 Novus Biologicals Cat# NB100-304; RRID: AB_10003037 4EBP1 Cell Signaling technology Cat# 9644S; RRID:AB_2097841 p-4EBP1 (Thr37/46) Cell Signaling technology Cat# 9459; RRID:AB_330985 β-actin Sigma-Aldrich Cat# A5441; RRID:AB_47674 γH2A.X (S139) Abcam Cat# ab11174; RRID:AB_297813 γH2A.X (S139) Abcam Cat# ab26350; RRID:AB_470861 BRCA1 Cell Signaling technology Cat# 9010S; RRID:AB_2228244 BRCA1 Cell Signaling technology Cat# sc-6954; RRID:AB_626761 CDK12 Cell Signaling technology Cat# 119735; RRID: AB_2715688 CHK1 Santa Cruz Biotechnology Cat# sc-8408; RRID:AB_627257 Cleaved PARP (Asp214) Cell Signaling technology Cat# 9546S; RRID:AB_2160593 Cyclin K Cell Signaling technology Cat# A301-939A; RRID:AB_1547934 MYCN Santa Cruz Biotechnology Cat# sc-53993; RRID: AB_831602 RPB1 CTD (4H8) Cell Signaling technology Cat# 4650; RRID:AB_10559207 pSER2 Abcam Cat# ab5095; RRID: AB_10094137 RAD51 Santa Cruz Biotechnology Cat# sc-8349; RRID:AB_2253533 RS6K Cell Signaling technology Cat# 5G10; RRID:AB_331355 p-RS6K Cell Signaling technology Cat# D68F8; RRID: AB_10694233 Vinculin Sigma-Aldrich Cat# V19131; RRID:AB_477629 Goat anti-Mouse Alexa FluorTM 488 Thermo fisher Cat# A11001; RRID: AB_2534069 Goat anti-rabbit Alexa FluorTM 647 Thermo fisher Cat# A21245; RRID: AB_2535813 Donkey anti-rabbit Alexa fluorTM 555 Thermo fisher Cat# A31572; RRID AB_162543 Goat anti-rabbit Alexa FluorTM 488 Thermo fisher Cat# A11034; RRID AB_2576217 Anti-PHOX2B antibody [EPR14423] - C-terminal Abcam Cat #ab183741; RRID: AB_2857845 Biological samples Neuroblastoma organoids: MaxNB182, MaxNB067 AMC691B, AMC691T and AMC772T Laboratory of Jan Molenaar, Prinses Máxima Center for Pediatric Oncology, Utrecht, Netherlands N/A Neuroblastoma PDX (MSK) Memorial Sloan Kettering (MSK) New York, USA N/A Neuroblastoma PDX (EPO) Experimental Pharmacology & Oncology (EPO) Berlin-Buc, Germany ID #12196 TH-MYCN neuroblastoma murine model Laboratory of Lou Chesler Cat# 5009550; RRID: MGI:5009550 Chemicals, peptides, and recombinant proteins dCEMM2/3/4 Laboratory of Georg Winter, Research Institute for Biomedical Artificial Intelligence of the Austrian Academy of Sciences, Vienna, Austria N/A BSJ-4-116 MedChemExpress Cat# HY-103618 SR-4835 MedChemExpress Cat# HY-130250 THZ531 MedChemExpress Cat# HY-139039 Abemaciclib MedChemExpress Cat# HY-16297A Alisertib MedChemExpress Cat# HY-10971 Fenretinide MedChemExpress Cat# HY-15373 (Continued on next page) Cell Reports 45, 117997, October 27, 2026 25 .. REAGENT or RESOURCE SOURCE IDENTIFIER Merestinib MedChemExpress Cat# HY-15514 Navitoclax MedChemExpress Cat# HY-10087 Olaparib MedChemExpress Cat# HY-10162 Prexasertib MedChemExpress Cat# HY-18174 Siremadlin MedChemExpress Cat# HY-18658 Sorafenib MedChemExpress Cat# HY-10201 Talazoparib tosylate MedChemExpress Cat# HY-108413 Tivantinib MedChemExpress Cat# HY-50686 Topotecan hydrochloride MedChemExpress Cat# HY-13768A Cisplatin-AQ Prinses Máxima Center Pharmacy, Utrecht, The Netherlands CHEBI:27899 ko 143 MedChemExpress Cat# HY-10010 MK571 MedChemExpress HY-19989 Tariquadar MedChemExpress HY-10550 OKI-1546 OnKure Therapeutics, Boulder, Colorado, USA N/A Propidium Iodide Thermo Fisher Scientific Cat# R1253 Máxima compound library Prinses Máxima Center, Utrecht, The Netherlands N/A Critical commercial assays PowerPlex 16 System Promega Cat# DC6531 MycoAlert Mycoplasma Detection Kit Lonza Cat# LT07-318 MTT Assay SERVA Cat# 20395.03 CellTiter-Glo 3D Cell Viability Assay Promega Cat# G9681 Caspase-Glo 3/7 Assay reagent Promega Cat# G8090 miRNeasy Mini kit Qiagen Cat# 217084 Illumina Stranded mRNA prep Illumina Cat# 0040534 NextSeq 2000 P2 Reagents 100 Cycles single-end kit Illumina Cat# 20100987 Click-iT EdU Cell Proliferation Kit for Imaging, Alexa FluorTM 647 Thermo Fisher Scientific Cat# C10340 KAPA Hyper0Exome V2 capture system Roche Cat# 09062602001 Deposited data All RNA sequencing data Gene Expression Omnibus (GEO) repository GSE287496 Whole-exome sequencing data Gene Expression Omnibus (GEO) repository GSE317312 Experimental models: Cell lines Neuroblastoma cell line N206 Laboratory of Rogier Versteeg, Amsterdam UMC, The Netherlands RRID: CVCL_C885 Neuroblastoma cell line SH-SY5Y Laboratory of Johannes Schulte, Charité - Universitätsmedizin Berlin, Germany RRID: CVCL_0019 Neuroblastoma cell lines: CLB-GA, IMR-32, Kelly, SKNMM, GIMEN, LAN5, KPNYN, NGP, SHEP2, SKNBE, SJNB1, SJNB6, SJNB10, CHLA90. .. ATCC RRID: CVCL_9529, RRID: CVCL_0346, RRID: CVCL_2092, RRID: CVCL_C8G1, RRID: CVCL_1232, RRID: CVCL_0389, RRID: CVCL_1341, RRID: CVCL_2141, RRID: CVCL_HF70, RRID: CVCL_0528, RRID: CVCL_8812, RRID: CVCL_8823, RRID: CVCL_1441, RRID: CVCL_6610 (Continued on next page) 26 Cell Reports 45, 117997, October 27, 2026

    Whole-Exome Sequencing:

    Article Title: Pharmacologically targeting CDK12 induces BRCAness and synergizes with merestinib to exacerbate DNA damage in high-risk neuroblastoma.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies 53BP1 Novus Biologicals Cat# NB100-304; RRID: AB_10003037 4EBP1 Cell Signaling technology Cat# 9644S; RRID:AB_2097841 p-4EBP1 (Thr37/46) Cell Signaling technology Cat# 9459; RRID:AB_330985 β-actin Sigma-Aldrich Cat# A5441; RRID:AB_47674 γH2A.X (S139) Abcam Cat# ab11174; RRID:AB_297813 γH2A.X (S139) Abcam Cat# ab26350; RRID:AB_470861 BRCA1 Cell Signaling technology Cat# 9010S; RRID:AB_2228244 BRCA1 Cell Signaling technology Cat# sc-6954; RRID:AB_626761 CDK12 Cell Signaling technology Cat# 119735; RRID: AB_2715688 CHK1 Santa Cruz Biotechnology Cat# sc-8408; RRID:AB_627257 Cleaved PARP (Asp214) Cell Signaling technology Cat# 9546S; RRID:AB_2160593 Cyclin K Cell Signaling technology Cat# A301-939A; RRID:AB_1547934 MYCN Santa Cruz Biotechnology Cat# sc-53993; RRID: AB_831602 RPB1 CTD (4H8) Cell Signaling technology Cat# 4650; RRID:AB_10559207 pSER2 Abcam Cat# ab5095; RRID: AB_10094137 RAD51 Santa Cruz Biotechnology Cat# sc-8349; RRID:AB_2253533 RS6K Cell Signaling technology Cat# 5G10; RRID:AB_331355 p-RS6K Cell Signaling technology Cat# D68F8; RRID: AB_10694233 Vinculin Sigma-Aldrich Cat# V19131; RRID:AB_477629 Goat anti-Mouse Alexa FluorTM 488 Thermo fisher Cat# A11001; RRID: AB_2534069 Goat anti-rabbit Alexa FluorTM 647 Thermo fisher Cat# A21245; RRID: AB_2535813 Donkey anti-rabbit Alexa fluorTM 555 Thermo fisher Cat# A31572; RRID AB_162543 Goat anti-rabbit Alexa FluorTM 488 Thermo fisher Cat# A11034; RRID AB_2576217 Anti-PHOX2B antibody [EPR14423] - C-terminal Abcam Cat #ab183741; RRID: AB_2857845 Biological samples Neuroblastoma organoids: MaxNB182, MaxNB067 AMC691B, AMC691T and AMC772T Laboratory of Jan Molenaar, Prinses Máxima Center for Pediatric Oncology, Utrecht, Netherlands N/A Neuroblastoma PDX (MSK) Memorial Sloan Kettering (MSK) New York, USA N/A Neuroblastoma PDX (EPO) Experimental Pharmacology & Oncology (EPO) Berlin-Buc, Germany ID #12196 TH-MYCN neuroblastoma murine model Laboratory of Lou Chesler Cat# 5009550; RRID: MGI:5009550 Chemicals, peptides, and recombinant proteins dCEMM2/3/4 Laboratory of Georg Winter, Research Institute for Biomedical Artificial Intelligence of the Austrian Academy of Sciences, Vienna, Austria N/A BSJ-4-116 MedChemExpress Cat# HY-103618 SR-4835 MedChemExpress Cat# HY-130250 THZ531 MedChemExpress Cat# HY-139039 Abemaciclib MedChemExpress Cat# HY-16297A Alisertib MedChemExpress Cat# HY-10971 Fenretinide MedChemExpress Cat# HY-15373 (Continued on next page) Cell Reports 45, 117997, October 27, 2026 25 .. REAGENT or RESOURCE SOURCE IDENTIFIER Merestinib MedChemExpress Cat# HY-15514 Navitoclax MedChemExpress Cat# HY-10087 Olaparib MedChemExpress Cat# HY-10162 Prexasertib MedChemExpress Cat# HY-18174 Siremadlin MedChemExpress Cat# HY-18658 Sorafenib MedChemExpress Cat# HY-10201 Talazoparib tosylate MedChemExpress Cat# HY-108413 Tivantinib MedChemExpress Cat# HY-50686 Topotecan hydrochloride MedChemExpress Cat# HY-13768A Cisplatin-AQ Prinses Máxima Center Pharmacy, Utrecht, The Netherlands CHEBI:27899 ko 143 MedChemExpress Cat# HY-10010 MK571 MedChemExpress HY-19989 Tariquadar MedChemExpress HY-10550 OKI-1546 OnKure Therapeutics, Boulder, Colorado, USA N/A Propidium Iodide Thermo Fisher Scientific Cat# R1253 Máxima compound library Prinses Máxima Center, Utrecht, The Netherlands N/A Critical commercial assays PowerPlex 16 System Promega Cat# DC6531 MycoAlert Mycoplasma Detection Kit Lonza Cat# LT07-318 MTT Assay SERVA Cat# 20395.03 CellTiter-Glo 3D Cell Viability Assay Promega Cat# G9681 Caspase-Glo 3/7 Assay reagent Promega Cat# G8090 miRNeasy Mini kit Qiagen Cat# 217084 Illumina Stranded mRNA prep Illumina Cat# 0040534 NextSeq 2000 P2 Reagents 100 Cycles single-end kit Illumina Cat# 20100987 Click-iT EdU Cell Proliferation Kit for Imaging, Alexa FluorTM 647 Thermo Fisher Scientific Cat# C10340 KAPA Hyper0Exome V2 capture system Roche Cat# 09062602001 Deposited data All RNA sequencing data Gene Expression Omnibus (GEO) repository GSE287496 Whole-exome sequencing data Gene Expression Omnibus (GEO) repository GSE317312 Experimental models: Cell lines Neuroblastoma cell line N206 Laboratory of Rogier Versteeg, Amsterdam UMC, The Netherlands RRID: CVCL_C885 Neuroblastoma cell line SH-SY5Y Laboratory of Johannes Schulte, Charité - Universitätsmedizin Berlin, Germany RRID: CVCL_0019 Neuroblastoma cell lines: CLB-GA, IMR-32, Kelly, SKNMM, GIMEN, LAN5, KPNYN, NGP, SHEP2, SKNBE, SJNB1, SJNB6, SJNB10, CHLA90. .. ATCC RRID: CVCL_9529, RRID: CVCL_0346, RRID: CVCL_2092, RRID: CVCL_C8G1, RRID: CVCL_1232, RRID: CVCL_0389, RRID: CVCL_1341, RRID: CVCL_2141, RRID: CVCL_HF70, RRID: CVCL_0528, RRID: CVCL_8812, RRID: CVCL_8823, RRID: CVCL_1441, RRID: CVCL_6610 (Continued on next page) 26 Cell Reports 45, 117997, October 27, 2026



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