A Genome-Wide siRNA Screen Reveals Positive and Negative Regulators of the NOD2 and NF-κB Signaling Pathways

Neil Warner, Aaron Burberry, Luigi Franchi, Yun-Gi Kim, Christine McDonald, Maureen A. Sartor, Gabriel Núñez*

*To whom correspondence should be addressed. E-mail: bclx{at}umich.edu

This PDF file includes:

• Fig. S1. Characterization of the NOD2 reporter cell line used in the genome-wide siRNA screen.
• Fig. S2. Layout of the assay plate for the genome-wide siRNA screen.
• Fig. S3. Data normalization.
• Fig. S4. Data distribution.
• Fig. S5. Screening assay reproducibility.
• Fig. S6. Screening assay robustness.
• Fig. S7. MDP-induced NF-κB luminescence weakly correlates with cell viability.
• Fig. S8. Cell viability analysis helps reduce false positives.
• Fig. S9. Mass spectra of WBP11 and FUS peptides isolated in a biochemical screen for NOD2-interacting proteins.
• Fig. S10. NCF1 is a positive regulator of NF-κB signaling.
• Fig. S11. ZDHHC2 is a general regulator of NF-κB signaling.

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Other Supplementary Material for this manuscript includes the following:

• Table S1 (Microsoft Excel format). Primary screen results.
• Table S2 (Microsoft Excel format). Published NOD2-interacting proteins.
• Table S3 (Microsoft Excel format). ConceptGen enrichment of top 700 positive regulators.
• Table S4 (Microsoft Excel format). Hits supported by microarray studies.
• Table S5 (Microsoft Excel format). Hits supported by proteomic studies.
• Table S6 (Microsoft Excel format). Hits supported in the literature.
• Table S7 (Microsoft Excel format). References for Crohn's disease GWAS hits.
• Table S8 (Microsoft Excel format). 313 secondary validation hits list—annotation.
• Table S9 (Microsoft Excel format). 313 secondary validation results.

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© 2013 American Association for the Advancement of Science