ChIP-seq of HA-tagged PD-L1 in MDA-MB-231 cells

ChIP was performed with anti-HA-tag antibody (Abcam, ab9110) in MDA-MB-231 PD-L1 KO cells stably expressing HA-tagged PD-L1. For replicate 1, ChIP was performed using Diagenode iDeal ChIP-seq Kit for Transcription Factors (Diagenode, C01010055) with addition of ChIP cross-link Gold cross-lining reagent (C01019027). Library preparation and sequencing analysis were performed at the Molecular Biology Core facility in Dana-Farber Cancer institute. For replicate 2, ChIP was performed as described^{54 (link)}. Qualified libraries were deep sequenced using an Illumina HiSeq 4000 per the manufacturer’s instructions at the Northwestern University.

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Gao Y., Nihira N.T., Bu X., Chu C., Zhang J., Kolodziejczyk A., Fan Y., Chan N.T., Ma L., Liu J., Wang D., Dai X., Liu H., Ono M., Nakanishi A., Inuzuka H., North B.J., Huang Y.H., Sharma S., Geng Y., Xu W., Liu X.S., Li L., Miki Y., Sicinski P., Freeman G.J, & Wei W. (2020). Acetylation-dependent regulation of PD-L1 nuclear translocation dictates the efficacy of anti-PD-1 immunotherapy. Nature cell biology, 22(9), 1064-1075.

Publication 2020

iDeal ChIP-seq Kit for Transcription Factors HiSeq 4000

Anti antibody Cancer Chip Chip seq Gold Library Mda mb 231 cells Pd l1 Replicate Sequencing analysis Transcription factors

Corresponding Organization :

Other organizations : Beth Israel Deaconess Medical Center, Harvard University, Dana-Farber Cancer Institute, University of Wisconsin–Madison, Xi'an Jiaotong University, Tokyo Medical and Dental University, First Affiliated Hospital of Xi'an Jiaotong University

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Variable analysis

independent variables

Anti-HA-tag antibody (Abcam, ab9110)
ChIP cross-link Gold cross-lining reagent (C01019027)
Diagenode iDeal ChIP-seq Kit for Transcription Factors (Diagenode, C01010055)

dependent variables

ChIP-seq data

control variables

MDA-MB-231 PD-L1 KO cells stably expressing HA-tagged PD-L1

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