Cell Type Specific Log10 QPCR Expression Values

Synonym	Cell Type	QPCR Expression	Normalized To	Data From
Rag1	CD4	-2.11	bActin	Intrathymic T Cell Precursors vs. Myeloid Progenitors (Rothenberg, Moore, and Yui 2008, Nat. Rev. Immunology)
Rag1	CD4	-1.72	bActin	Intrathymic T Cell Precursors vs. Myeloid Progenitors (Rothenberg, Moore, and Yui 2008, Nat. Rev. Immunology)
.
Rag1	CD4_24-	-0.29	bActin	Intrathymic T Cell Precursors vs. Myeloid Progenitors (Rothenberg, Moore, and Yui 2008, Nat. Rev. Immunology)
.
Rag1	CD4_69-	-2.32	bActin	Intrathymic T Cell Precursors vs. Myeloid Progenitors (Rothenberg, Moore, and Yui 2008, Nat. Rev. Immunology)
.
Rag1	CD8	-2.28	bActin	Intrathymic T Cell Precursors vs. Myeloid Progenitors (Rothenberg, Moore, and Yui 2008, Nat. Rev. Immunology)
Rag1	CD8	-0.82	bActin	Intrathymic T Cell Precursors vs. Myeloid Progenitors (Rothenberg, Moore, and Yui 2008, Nat. Rev. Immunology)
.
Rag1	CD8_24-	-0.74	bActin	Intrathymic T Cell Precursors vs. Myeloid Progenitors (Rothenberg, Moore, and Yui 2008, Nat. Rev. Immunology)
.
Rag1	CD8_69-	-2.92	bActin	Intrathymic T Cell Precursors vs. Myeloid Progenitors (Rothenberg, Moore, and Yui 2008, Nat. Rev. Immunology)
.
Rag1	DN1	-1.6	bActin	Intrathymic T Cell Precursors (Rothenberg, Moore, and Yui 2008, Nat. Rev. Immunology)
Rag1	DN1	-1.82	bActin	Intrathymic T Cell Precursors (Rothenberg, Moore, and Yui 2008, Nat. Rev. Immunology)
Rag1	DN1	-1.47	bActin	Intrathymic T Cell Precursors vs. Myeloid Progenitors (Rothenberg, Moore, and Yui 2008, Nat. Rev. Immunology)
Rag1	DN1	-2.05	bActin	Intrathymic T Cell Precursors vs. Myeloid Progenitors (Rothenberg, Moore, and Yui 2008, Nat. Rev. Immunology)
.
Rag1	DN2	-0.44	bActin	Intrathymic T Cell Precursors vs. Myeloid Progenitors (Rothenberg, Moore, and Yui 2008, Nat. Rev. Immunology)
Rag1	DN2	-0.89	bActin	Intrathymic T Cell Precursors vs. Myeloid Progenitors (Rothenberg, Moore, and Yui 2008, Nat. Rev. Immunology)
Rag1	DN2	-1.17	bActin	Intrathymic T Cell Precursors vs. Myeloid Progenitors (Rothenberg, Moore, and Yui 2008, Nat. Rev. Immunology)
.
Rag1	DN2a	-1.44	bActin	Intrathymic T Cell Precursors (Rothenberg, Moore, and Yui 2008, Nat. Rev. Immunology)
Rag1	DN2a	-1.46	bActin	Intrathymic T Cell Precursors (Rothenberg, Moore, and Yui 2008, Nat. Rev. Immunology)
Rag1	DN2a	-1.49	bActin	Intrathymic T Cell Precursors vs. Myeloid Progenitors (Rothenberg, Moore, and Yui 2008, Nat. Rev. Immunology)
Rag1	DN2a	-1.54	bActin	Intrathymic T Cell Precursors vs. Myeloid Progenitors (Rothenberg, Moore, and Yui 2008, Nat. Rev. Immunology)
.
Rag1	DN2b	-0.92	bActin	Intrathymic T Cell Precursors (Rothenberg, Moore, and Yui 2008, Nat. Rev. Immunology)
Rag1	DN2b	-0.96	bActin	Intrathymic T Cell Precursors (Rothenberg, Moore, and Yui 2008, Nat. Rev. Immunology)
.
Rag1	DN3a	0.58	bActin	Intrathymic T Cell Precursors (Rothenberg, Moore, and Yui 2008, Nat. Rev. Immunology)
Rag1	DN3a	0.3	bActin	Intrathymic T Cell Precursors (Rothenberg, Moore, and Yui 2008, Nat. Rev. Immunology)
Rag1	DN3a	0.8	bActin	Intrathymic T Cell Precursors vs. Myeloid Progenitors (Rothenberg, Moore, and Yui 2008, Nat. Rev. Immunology)
Rag1	DN3a	0.6	bActin	Intrathymic T Cell Precursors vs. Myeloid Progenitors (Rothenberg, Moore, and Yui 2008, Nat. Rev. Immunology)
Rag1	DN3a	0.43	bActin	Intrathymic T Cell Precursors vs. Myeloid Progenitors (Rothenberg, Moore, and Yui 2008, Nat. Rev. Immunology)
Rag1	DN3a	0.72	bActin	Intrathymic T Cell Precursors vs. Myeloid Progenitors (Rothenberg, Moore, and Yui 2008, Nat. Rev. Immunology)
.
Rag1	DN3b	-0.14	bActin	Intrathymic T Cell Precursors vs. Myeloid Progenitors (Rothenberg, Moore, and Yui 2008, Nat. Rev. Immunology)
Rag1	DN3b	-0.33	bActin	Intrathymic T Cell Precursors vs. Myeloid Progenitors (Rothenberg, Moore, and Yui 2008, Nat. Rev. Immunology)
Rag1	DN3b	-0.37	bActin	Intrathymic T Cell Precursors vs. Myeloid Progenitors (Rothenberg, Moore, and Yui 2008, Nat. Rev. Immunology)
Rag1	DN3b	-0.09	bActin	Intrathymic T Cell Precursors vs. Myeloid Progenitors (Rothenberg, Moore, and Yui 2008, Nat. Rev. Immunology)
.
Rag1	DP	0.98	bActin	Intrathymic T Cell Precursors vs. Myeloid Progenitors (Rothenberg, Moore, and Yui 2008, Nat. Rev. Immunology)
Rag1	DP	0.87	bActin	Intrathymic T Cell Precursors vs. Myeloid Progenitors (Rothenberg, Moore, and Yui 2008, Nat. Rev. Immunology)
.
Rag1	DP69-	-0.72	bActin	Intrathymic T Cell Precursors vs. Myeloid Progenitors (Rothenberg, Moore, and Yui 2008, Nat. Rev. Immunology)
Rag1	DP69-	0.8	bActin	Intrathymic T Cell Precursors vs. Myeloid Progenitors (Rothenberg, Moore, and Yui 2008, Nat. Rev. Immunology)
.
Rag1	GDT	-1.85	bActin	Intrathymic T Cell Precursors vs. Myeloid Progenitors (Rothenberg, Moore, and Yui 2008, Nat. Rev. Immunology)
Rag1	GDT	-1.85	bActin	Intrathymic T Cell Precursors vs. Myeloid Progenitors (Rothenberg, Moore, and Yui 2008, Nat. Rev. Immunology)

Effect of Key Gene Perturbations

Synonym	Perturbation	QPCR Expression	Relative To	Data From
Rag.1	BM	-1.58	Thymus	GATA-3 Expression, Other Tissues (Taghon et al. 2007 Nat. Immunol)
Rag.1	Fliver	-1.79	Thymus	GATA-3 Expression, Other Tissues (Taghon et al. 2007 Nat. Immunol)
Rag.1	Mast	-5.26	Thymus	GATA-3 Expression, Other Tissues (Taghon et al. 2007 Nat. Immunol)
.
Rag.1	LZ_DL	0	LZ,DL	Notch-Delta interaction data (Franco et al. 2006 PNAS)
Rag.1	LZ_noDL	-0.08	LZ,DL	Notch-Delta interaction data (Franco et al. 2006 PNAS)
.
Rag.1	LZ_DL	0	LZ,DL	Notch-Delta interaction data (Taghon et al. 2007 Nat. Immunol)
Rag.1	LZ_noDL	-0.33	LZ,DL	Notch-Delta interaction data (Taghon et al. 2007 Nat. Immunol)
.
Rag.1	LZ_DL	0	LZ,DL	Over Expressed GATA-3 (Taghon et al. 2007 Nat. Immunol)
Rag.1	G3_DL	-0.31	LZ,DL	Over Expressed GATA-3 (Taghon et al. 2007 Nat. Immunol)
Rag.1	KRRm_DL	-0.11	LZ,DL	Over Expressed GATA-3 (Taghon et al. 2007 Nat. Immunol)
Rag.1	LZ_noDL	-0.33	LZ,DL	Over Expressed GATA-3 (Taghon et al. 2007 Nat. Immunol)
Rag.1	G3_noDL	-0.76	LZ,DL	Over Expressed GATA-3 (Taghon et al. 2007 Nat. Immunol)
Rag.1	KRRm_noDL	-0.48	LZ,DL	Over Expressed GATA-3 (Taghon et al. 2007 Nat. Immunol)
.
Rag.1	DL_LZ	0	DL,LZ	PU.1-Notch signaling interaction data (Franco et al. 2006 PNAS)
Rag.1	DL_LZ	0	DL,LZ	PU.1-Notch signaling interaction data (Franco et al. 2006 PNAS)
Rag.1	DL_LZ	0	DL,LZ	PU.1-Notch signaling interaction data (Franco et al. 2006 PNAS)
Rag.1	DL_PU1	-0.49	DL,LZ	PU.1-Notch signaling interaction data (Franco et al. 2006 PNAS)
Rag.1	DL_PU1	-0.33	DL,LZ	PU.1-Notch signaling interaction data (Franco et al. 2006 PNAS)
Rag.1	DL_PU1	-0.33	DL,LZ	PU.1-Notch signaling interaction data (Franco et al. 2006 PNAS)
Rag.1	noDL_LZ	-0.05	DL,LZ	PU.1-Notch signaling interaction data (Franco et al. 2006 PNAS)
Rag.1	noDL_LZ	-0.09	DL,LZ	PU.1-Notch signaling interaction data (Franco et al. 2006 PNAS)
Rag.1	noDL_LZ	-0.12	DL,LZ	PU.1-Notch signaling interaction data (Franco et al. 2006 PNAS)
Rag.1	noDL_PU1	-1.3	DL,LZ	PU.1-Notch signaling interaction data (Franco et al. 2006 PNAS)
Rag.1	noDL_PU1	-0.81	DL,LZ	PU.1-Notch signaling interaction data (Franco et al. 2006 PNAS)
Rag.1	noDL_PU1	-0.8	DL,LZ	PU.1-Notch signaling interaction data (Franco et al. 2006 PNAS)
.
Rag1	Prmtv_LZ	-1.52	Pro-T,LZ	PU.1 Effects per stage data (Franco et al. 2006 PNAS)
Rag1	Prmtv_LZ	-0.5	Pro-T,LZ	PU.1 Effects per stage data (Franco et al. 2006 PNAS)
Rag1	Prmtv_PU1	-1.39	Pro-T,LZ	PU.1 Effects per stage data (Franco et al. 2006 PNAS)
Rag1	Prmtv_PU1	-2.15	Pro-T,LZ	PU.1 Effects per stage data (Franco et al. 2006 PNAS)
Rag1	ProT_LZ	0	Pro-T,LZ	PU.1 Effects per stage data (Franco et al. 2006 PNAS)
Rag1	ProT_LZ	0	Pro-T,LZ	PU.1 Effects per stage data (Franco et al. 2006 PNAS)
Rag1	ProT_LZ	0	Pro-T,LZ	PU.1 Effects per stage data (Franco et al. 2006 PNAS)
Rag1	ProT_PU1	-0.73	Pro-T,LZ	PU.1 Effects per stage data (Franco et al. 2006 PNAS)
Rag1	ProT_PU1	-0.83	Pro-T,LZ	PU.1 Effects per stage data (Franco et al. 2006 PNAS)
Rag1	ProT_PU1	-0.88	Pro-T,LZ	PU.1 Effects per stage data (Franco et al. 2006 PNAS)
Rag1	PreT_LZ	-0.21	Pro-T,LZ	PU.1 Effects per stage data (Franco et al. 2006 PNAS)
Rag1	PreT_LZ	-0.32	Pro-T,LZ	PU.1 Effects per stage data (Franco et al. 2006 PNAS)
Rag1	PreT_LZ	-0.05	Pro-T,LZ	PU.1 Effects per stage data (Franco et al. 2006 PNAS)
Rag1	PreT_PU1	-0.51	Pro-T,LZ	PU.1 Effects per stage data (Franco et al. 2006 PNAS)
Rag1	PreT_PU1	-0.75	Pro-T,LZ	PU.1 Effects per stage data (Franco et al. 2006 PNAS)
Rag1	PreT_PU1	-0.65	Pro-T,LZ	PU.1 Effects per stage data (Franco et al. 2006 PNAS)

Evidence for Interactions

Upstream Node	Interaction Type	Target Node	Literature Evidence
c-Myb	PROMOTES	RAG-1	Conjectural; based on Rag-1/Rag-2 coregulation and Myb inputs to Rag-2 per Wang QF, Lauring J, Schlissel MS Mol Cell Biol. 2000 Dec;20(24):9203-11; a different Myb complex, with Pax5 and LEF-1, controls Rag-2 in B cells per Jin,Z.X., et al.: Muraguchi, J Immunol. 2002 Oct 1;169(7):3783-92
Runx1	REPRESSES	RAG-1	Yannoutsos, N.,et al.: Nussenzweig, Nat Immunol. 2004 Apr;5(4):443-50
PU.1 modulated by Notch.DL	REPRESSES	RAG-1	Franco et al PNAS 2006; for PU.1 effect generally also Dionne et al. 2005 Devel. Biol.
pre-TCR signal	REPRESSES	RAG-1	Taghon et al 2006 Immunity
Net E protein activity	PROMOTES	RAG-1	Hsu, L.-Y.,et al.: Schlissel, Immunity. 2003 Jul;19(1):105-17 for B cells; for T cells (weak effect), Schwartz, R.,et al.: Murre, Proc Natl Acad Sci U S A. 2006 Jun 27;103(26):9976-81
High-level GATA-3	REPRESSES	RAG-1	Taghon, Yui, Rothenberg 2007 Nat. Immunol.; Anderson, M. K. et al 2002 Devel. Biol.
Notch.CSL	PROMOTES	RAG-1	Taghon, Yui, Rothenberg 2007 Nat. Immunol.
RAG-1	PROMOTES	Rearranged-TCR-Beta	major role in T-cell development