Nature - 2019.08.29

4

nature research | reporting summary

October 2018

Eukaryotic cell lines

Policy information about cell lines

Cell line source(s) Human NB cell lines Kelly and SK-N-BE(2) and human Ewing sarcoma cell lines TC-32, TC-71 and CHLA-10 were obtained from

the Children’s Oncology Group cell line bank (Lubbock, TX, USA). Human NB cell line SK-N-SH and human embryonic kidney

cell line HEK293T were obtained from the American Type Culture Collection (Manassas, VA, USA).

Authentication All cell lines have been authenticated by short tandem repeat analysis.

Mycoplasma contamination All cell lines tested negative for mycoplasma.

Commonly misidentified lines

(See ICLAC register)

No commonly misidentified cell lines were used.

Animals and other organisms

Policy information about studies involving animals; ARRIVE guidelines recommended for reporting animal research

Laboratory animals NU/NU (Crl:NU-Foxn1nu) mice (6-8 weeks old female) were purchased from Charles River Laboratories. NU/NU (CrTac:NCr-

Foxn1nu) mice (6-8 weeks old female) were purchased from Taconic.

Wild animals The study did not involve wild animals.

Field-collected samples The study did not involve samples collected from the field.

Ethics oversight All animal experiments were performed with approval from the Institutional Animal Care and Use Committee of the DFCI.

Note that full information on the approval of the study protocol must also be provided in the manuscript.

Human research participants

Policy information about studies involving human research participants

Population characteristics Data involving human research participants pertain to immunohistochemistry of formalin-fixed paraffin-embedded tumor tissue

slides, and were de-identified prior to analysis.

Recruitment Data involving human research participants pertain to immunohistochemistry of formalin-fixed paraffin-embedded tumor tissue

slides, and were de-identified prior to analysis.

Ethics oversight All human tumor specimens (formalin-fixed paraffin-embedded slides) were obtained under an Institutional Review Board-

approved protocol of the Dana-Farber/Boston Children's Cancer and Blood Disorders Center.

Note that full information on the approval of the study protocol must also be provided in the manuscript.

ChIP-seq

Data deposition

Confirm that both raw and final processed data have been deposited in a public database such as GEO.

Confirm that you have deposited or provided access to graph files (e.g. BED files) for the called peaks.

Data access links

May remain private before publication.

https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE103084

Files in database submission ChIPseq_Original_Submission_sens_res

Raw files:

Par_BORIS_1.fastq.gz

Par_BORIS_2.fastq.gz

Par_BRD4_1.fastq.gz

Par_BRD4_2.fastq.gz

Par_CTCF_1.fastq.gz

Par_CTCF_2.fastq.gz

Par_H3K27ac_1.fastq.gz

Par_H3K27ac_2.fastq.gz

Par_H3K27me3_1.fastq.gz

Par_H3K27me3_2.fastq.gz

Par_input_1.fastq.gz

Par_input_2.fastq.gz

Par_Pol2_1.fastq.gz

Par_Pol2_2.fastq.gz