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PhenoCode Discovery Immune Profiling Human Protein Core
Barcode	Inventoried Antibody	Biological Relevance	Biological Questions
BX003	CD4 (AKYP0048)-BX003	Helper T cells	What is the abundance and spatial organization of distinct immune cell populations in the tumor microenvironment?
BX005	CD44 (AKYP0073)-BX005	Activated T cells
BX015	CD68 (AKYP0050)-BX015	Macrophages
BX017	CD45RO (AKYP0059)-BX017	Memory T cells
BX021	CD45 (AKYP0074)-BX021	Immune cells
BX024	CD11c (AKYP0051)-BX024	Dendritic cells
BX026	CD8 (AKYP0028)-BX026	Cytotoxic T cells
BX028	CD56 (AKYP0118)-BX028	NK cells
BX029	HLA-A (AKYP0078)-BX004	MHC I
BX033	HLA-DR (AKYP0063)-BX033	APCs (MHC II)
BX037	CD14 (AKYP0079)-BX037	Monocytes
BX047	Ki67 (AKYP0052)-BX047	Proliferating cells
BX064	CD20 (AKYP0049)-BX064	B cells
BX066	Pan-Cytokeratin (AKYP0053)-BX066	Tumor cells
BX080	CD3e (AKYP0062)-BX080	T cells

Tissue Architecture
Barcode	Inventoried Antibody	Biological Relevance	Biological Questions
BX001	CD31 (AKYP0047)-BX001	Vascular structures	Is there evidence for epithelial-to-mesenchymal transition in the tumor? What is the distribution of the vasculature? Do we see a decrease in tumor vasculature after anti-angiogenic therapies?
BX013	SMA (AKYP0081)-BX013	Vascular structures, fibroblasts, smooth muscle
BX014	E-cadherin (AKYP0057)-BX014	Epithelial cells
BX022	Vimentin (AKYP0082)-BX022	Cyto-structures
BX025	CD34 (AKYP0088)-BX025	Vascular structures
BX042	Collagen IV (AKYP0083)-BX042	extracellular matrix (ECM)
BX086	Caveolin (AKYP0115)-BX086	Integral membrane protein
BX096	b-Catenin1 (AKYP0068)-BX096	Cell adhesion, Wnt signaling
BX117	Beta-actin (AKYP0072)-BX117	Cytoskeleton, housekeeping gene
BX121	Podoplanin (AKYP0007)-BX121	Lymphatics

Immune Activation & Proliferation
Barcode	Inventoried Antibody	Biological Relevance	Biological Questions
BX010	CD40 (AKYP0095)-BX010	Activated dendritic cells	What are the mechanisms of immune activation and evasion in the tumor? What kind of checkpoint inhibitors could be used for the treatment of this tumor?
BX020	IFNG (AKYP0093)-BX020	Activated lymphocytes
BX027	IDO1 (AKYP0084)-BX027	Multifunctional/Immune inhibitory
BX034	HLA-E (AKYP0096)-BX034	MHC I
BX036	PCNA (AKYP0085)-BX036	Proliferation
BX040	VISTA (AKYP0094)-BX040	Immune checkpoint
BX043	PD-L1 (AKYP0103)-BX043	Checkpoint ligand
BX046	PD-1 (AKYP0070)-BX046	Checkpoint receptor
BX054	ICOS (AKYP0090)-BX054	Checkpoint receptor
BX055	LAG3 (AKYP0089)-BX055	Checkpoint receptor

Lymphocyte Profiling
Barcode	Inventoried Antibody	Biological Relevance	Biological Questions
BX006	CD107a (AKYP0004)-BX006	CD8+ and NK cells; lysosomal marker	Where are the regulatory T cells located? Identification of different types of B cell neoplasms
BX031	FOXP3 (AKYP0102)-BX031	Regulatory T cells
BX032	CD21 (AKYP0061)-BX032	B cells
BX041	Granzyme B (AKYP0086)-BX041	Activated T cells/NK cells
BX052	T-bet/TBX21 (AKYP0117)-BX052	Transcription factor, Th1 T cell development
BX060	TOX (AKYP0098)-BX060	Transcription factor; T cell exhaustion
BX061	TCF-1 (AKYP0099)-BX061	Transcription factor, Wnt signaling
BX089	CD38 (AKYP0110)-BX089	Plasma B cells
BX090	CD79a (AKYP0109)-BX090	B cells; pre B ALL
BX099	CD39 (AKYP0107)-BX099	T cell exhaustion

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