Science Immunology

Supplementary Materials

The PDF file includes:

  • Results and Discussion
  • Materials and Methods
  • Fig. S1. Theoretical framework to categorize network patterns of TCR-proximal signaling protein complexes that could specify positive versus negative selection.
  • Fig. S2. The response of preselection OT1.β2m0.RAG20 DP thymocytes to H2O2, and comparison with PV stimulation.
  • Fig. S3. The response of preselection OT1.β2m0.RAG20 DP thymocytes to PV stimulation.
  • Fig. S4. Kinetics of PiSCES signatures for positive and negative selection stimuli.
  • Fig. S5. Kinetics of PiSCES signatures for agonist and antagonist stimuli in LC13ab.huCD8ab.JRT3 cells.
  • Fig. S6. Clustering analysis for top hits observed across the kinetic for agonist versus antagonist stimuli in LC13ab.huCD8ab.JRT3 cells.
  • Fig. S7. Kinetics of PiSCES signatures for agonist and antagonist stimuli in OT1ab.muCD8ab.JRT3 cells.
  • Fig. S8. Clustering analysis for top hits observed across the kinetic for OVA versus Q7 stimuli in OT1ab.muCD8ab.JRT3 cells.
  • Fig. S9. Assessment of CD8β and CD8αα (TLA+) expression in OT1.RAG20.β2m0 FTOC cells.
  • Fig. S10. FTOCs from positive selection conditions can be induced by antigenic stimulation to proliferate and kill target cells.
  • Fig. S11. MHC-dependent signaling generates residual αβ T cells in CD3δ0 mice.
  • Fig. S12. Developmental and maturation markers on peripheral T cells of wild-type and mutant mice.
  • Fig. S13. The few peripheral T cells in OT1.RAG20.CD3δ0 mice require MHC class I for their generation/survival.
  • Fig. S14. Diverse TCR repertoire in individual B6 and CD3δ0 mice.
  • Fig. S15. Multiple peripheral TCRα transcripts in B6 and CD3δ0 mice.
  • Fig. S16. T cells in CD3δ0 mice provide immune activity against PCP.
  • Fig. S17. T cells in CD3δ0 mice provide immune activity against TMEV.
  • Fig. S18. Example gating used for flow cytometry data.
  • Table S1. Validated Ab pairs used to identify each mouse protein target.
  • References (7582)

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Other Supplementary Material for this manuscript includes the following:

  • Table S2 (Microsoft Excel format). Raw data for experiments with n ≤ 25.

Files in this Data Supplement: