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. 2019 Jan 18;47(6):e31. doi: 10.1093/nar/gkz020

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© The Author(s) 2019. Published by Oxford University Press on behalf of Nucleic Acids Research.

This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.

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Figure 3. — Effects of different nuclear extract treatments on PU.1-IRF8 cooperative binding. (A) Boxplot of PU.1-IRF8 cooperativity scores (see Methods) for a set of EICE probes (n = 116) in various listed nuclear extract (NE) conditions and treatments including a gradient of 2-fold dilutions (1:1, 1:2, 1:4, and 1:8), an extract where IRF8 has been immune-depleted (IRF8 immune-depletion), an extract treated with a broad-spectrum phosphatase (phosphatase), and an extract generated from a line of cells where IRF8 has been knocked out (IRF8 CRISPR KO). Boxplot elements – center line: median, box limits: first and third quartiles, whiskers: 1.5x interquartile range, individual points: data points beyond end of whiskers. (B) Sequence logos obtained by profiling PU.1 binding (left column) and IRF8 binding (right column) to the same sample EICE seed probe in the corresponding nuclear extract treatments/conditions from (A).