Sample overview

Project Name	TCGA-BRCA
GSE ID	GSE182694
GSM ID	GSM5534766
Cell Line	BT474
Tissue type	None
Disease Type	HER2-positive Breast Cancer
PMID	\
Initial gene number	33538
Initial cell number	4210
Post-QC gene number	9099
Post-QC cell number	3864

QC Metrics

Bulk-to-ScRNA-seq Label Transfer

Bulk phenotype-associated subpopulations

Reference-Based Annotation

Differentially expressed genes

Overall Survival : Cluster vs

Overall Survival : Cluster vs ( + )

Clinical Stage : Cluster vs

Tumor Size : Cluster vs

Lymph Node Involvement : Cluster vs

Distant Metastasis : Cluster vs

Cell-Cell communications ( Survival-Associated Subpopulations Across Cell Types )

Cell Population Signaling and Communication

Ligand-Receptor-Mediated Cell-Cell Interactions

Sending Cell Type	Ligand	Receiving Cell Type	Receptor	Score	P-value	Pathway Name	Function	Evidence
Epithelial,cells(Nos)_source	TGFB3_ligand	Epithelial,cells(Nos)_target	TGFbR1_R2_receptor	7.189e-05	0.0	TGFb	Secreted Signaling	KEGG: hsa04350
Epithelial,cells(Nos)_source	TGFB3_ligand	Epithelial,cells(Nos)_target	ACVR1B_TGFbR2_receptor	2.501e-05	0.0	TGFb	Secreted Signaling	PMID: 27449815
Epithelial,cells(Nos)_source	TGFB3_ligand	Epithelial,cells(Nos)_target	ACVR1_TGFbR_receptor	5.239e-05	0.0	TGFb	Secreted Signaling	PMID: 29376829
Epithelial,cells(Nos)_source	BMP7_ligand	Epithelial,cells(Good)_target	ACVR1_BMPR2_receptor	4.637e-05	0.0	BMP	Secreted Signaling	KEGG: hsa04350; PMID:26893264
Epithelial,cells(Nos)_source	BMP7_ligand	Epithelial,cells(Nos)_target	ACVR1_BMPR2_receptor	3.220e-04	0.0	BMP	Secreted Signaling	KEGG: hsa04350; PMID:26893264
Epithelial,cells(Good)_source	NAMPT_ligand	Epithelial,cells(Nos)_target	INSR_receptor	3.701e-05	0.0	VISFATIN	Secreted Signaling	PMID: 28490838
Epithelial,cells(Nos)_source	NAMPT_ligand	Epithelial,cells(Nos)_target	INSR_receptor	2.703e-04	0.0	VISFATIN	Secreted Signaling	PMID: 28490838
Epithelial,cells(Nos)_source	MDK_ligand	Epithelial,cells(Nos)_target	SDC1_receptor	7.290e-02	0.0	MK	Secreted Signaling	PMID: 28356350
Epithelial,cells(Nos)_source	MDK_ligand	Epithelial,cells(Nos)_target	SDC4_receptor	5.715e-02	0.0	MK	Secreted Signaling	PMID: 28356350
Epithelial,cells(Nos)_source	MDK_ligand	Epithelial,cells(Good)_target	NCL_receptor	1.829e-02	0.0	MK	Secreted Signaling	PMID: 28356350
Epithelial,cells(Nos)_source	MDK_ligand	Epithelial,cells(Nos)_target	NCL_receptor	1.668e-01	0.0	MK	Secreted Signaling	PMID: 28356350
Epithelial,cells(Nos)_source	SEMA3C_ligand	Epithelial,cells(Nos)_target	NRP1_PLXNA3_receptor	9.565e-04	0.0	SEMA3	Secreted Signaling	PMID: 27533782
Epithelial,cells(Good)_source	GRN_ligand	Epithelial,cells(Nos)_target	SORT1_receptor	8.060e-04	0.02	GRN	Secreted Signaling	PMID: 29555433
Epithelial,cells(Nos)_source	GRN_ligand	Epithelial,cells(Nos)_target	SORT1_receptor	8.151e-03	0.0	GRN	Secreted Signaling	PMID: 29555433
Epithelial,cells(Nos)_source	COL1A1_ligand	Epithelial,cells(Nos)_target	ITGA2_ITGB1_receptor	2.843e-04	0.0	COLLAGEN	ECM-Receptor	KEGG: hsa04512
Epithelial,cells(Nos)_source	LAMA5_ligand	Epithelial,cells(Good)_target	ITGA2_ITGB1_receptor	1.834e-04	0.0	LAMININ	ECM-Receptor	KEGG: hsa04512
Epithelial,cells(Nos)_source	LAMA5_ligand	Epithelial,cells(Nos)_target	ITGA2_ITGB1_receptor	1.860e-03	0.0	LAMININ	ECM-Receptor	KEGG: hsa04512
Epithelial,cells(Nos)_source	LAMA5_ligand	Epithelial,cells(Poor)_target	ITGA2_ITGB1_receptor	1.753e-05	0.0	LAMININ	ECM-Receptor	KEGG: hsa04512
Epithelial,cells(Nos)_source	LAMA5_ligand	Erythrocytes(Good)_target	ITGA2_ITGB1_receptor	7.543e-09	0.0	LAMININ	ECM-Receptor	KEGG: hsa04512
Epithelial,cells(Nos)_source	LAMA5_ligand	Erythrocytes(Nos)_target	ITGA2_ITGB1_receptor	5.654e-09	0.0	LAMININ	ECM-Receptor	KEGG: hsa04512
Epithelial,cells(Nos)_source	LAMA5_ligand	Erythrocytes(Poor)_target	ITGA2_ITGB1_receptor	2.550e-09	0.0	LAMININ	ECM-Receptor	KEGG: hsa04512
Epithelial,cells(Nos)_source	LAMA5_ligand	Epithelial,cells(Good)_target	ITGA3_ITGB1_receptor	1.982e-04	0.0	LAMININ	ECM-Receptor	KEGG: hsa04512
Epithelial,cells(Nos)_source	LAMA5_ligand	Epithelial,cells(Nos)_target	ITGA3_ITGB1_receptor	1.905e-03	0.0	LAMININ	ECM-Receptor	KEGG: hsa04512
Epithelial,cells(Nos)_source	LAMA5_ligand	Epithelial,cells(Poor)_target	ITGA3_ITGB1_receptor	1.561e-05	0.0	LAMININ	ECM-Receptor	KEGG: hsa04512
Epithelial,cells(Nos)_source	COL1A1_ligand	Epithelial,cells(Good)_target	ITGA3_ITGB1_receptor	3.029e-05	0.0	COLLAGEN	ECM-Receptor	KEGG: hsa04512
Epithelial,cells(Nos)_source	COL1A1_ligand	Epithelial,cells(Nos)_target	ITGA3_ITGB1_receptor	2.910e-04	0.0	COLLAGEN	ECM-Receptor	KEGG: hsa04512
Epithelial,cells(Nos)_source	COL1A1_ligand	Epithelial,cells(Nos)_target	SDC1_receptor	2.642e-04	0.0	COLLAGEN	ECM-Receptor	KEGG: hsa04512
Epithelial,cells(Nos)_source	COL1A1_ligand	Epithelial,cells(Nos)_target	SDC4_receptor	2.023e-04	0.0	COLLAGEN	ECM-Receptor	KEGG: hsa04512
Epithelial,cells(Nos)_source	AGRN_ligand	Epithelial,cells(Nos)_target	DAG1_receptor	8.931e-04	0.0	AGRN	ECM-Receptor	KEGG: hsa04512
Epithelial,cells(Nos)_source	LAMA5_ligand	Epithelial,cells(Good)_target	DAG1_receptor	3.138e-05	0.0	LAMININ	ECM-Receptor	KEGG: hsa04512
Epithelial,cells(Nos)_source	LAMA5_ligand	Epithelial,cells(Nos)_target	DAG1_receptor	6.966e-04	0.0	LAMININ	ECM-Receptor	KEGG: hsa04512
Epithelial,cells(Nos)_source	CADM1_ligand	Epithelial,cells(Nos)_target	CADM1_receptor	1.019e-04	0.0	CADM	Cell-Cell Contact	PMID: 24503895
Epithelial,cells(Nos)_source	CD99_ligand	Epithelial,cells(Nos)_target	CD99_receptor	1.092e-01	0.0	CD99	Cell-Cell Contact	KEGG: hsa04514
Epithelial,cells(Nos)_source	CDH1_ligand	Epithelial,cells(Nos)_target	CDH1_receptor	1.241e-02	0.0	CDH	Cell-Cell Contact	KEGG: hsa04514
Epithelial,cells(Nos)_source	CDH1_ligand	Epithelial,cells(Nos)_target	ITGA2_ITGB1_receptor	1.200e-02	0.0	CDH1	Cell-Cell Contact	PMID: 12392763
Epithelial,cells(Good)_source	DSC2_ligand	Epithelial,cells(Nos)_target	DSG2_receptor	2.805e-04	0.02	DESMOSOME	Cell-Cell Contact	PMID: 27298358
Epithelial,cells(Nos)_source	DSC2_ligand	Epithelial,cells(Nos)_target	DSG2_receptor	2.480e-03	0.0	DESMOSOME	Cell-Cell Contact	PMID: 27298358
Epithelial,cells(Good)_source	EFNA1_ligand	Epithelial,cells(Good)_target	EPHA1_receptor	2.174e-05	0.0	EPHA	Cell-Cell Contact	PMID: 15114347
Epithelial,cells(Nos)_source	EFNA1_ligand	Epithelial,cells(Good)_target	EPHA1_receptor	1.696e-04	0.0	EPHA	Cell-Cell Contact	PMID: 15114347
Epithelial,cells(Good)_source	EFNA1_ligand	Epithelial,cells(Nos)_target	EPHA1_receptor	1.814e-04	0.0	EPHA	Cell-Cell Contact	PMID: 15114347
Epithelial,cells(Nos)_source	EFNA1_ligand	Epithelial,cells(Nos)_target	EPHA1_receptor	1.415e-03	0.0	EPHA	Cell-Cell Contact	PMID: 15114347
Epithelial,cells(Good)_source	EFNA1_ligand	Epithelial,cells(Good)_target	EPHA4_receptor	8.111e-06	0.0	EPHA	Cell-Cell Contact	PMID: 15114347
Epithelial,cells(Nos)_source	EFNA1_ligand	Epithelial,cells(Good)_target	EPHA4_receptor	6.326e-05	0.0	EPHA	Cell-Cell Contact	PMID: 15114347
Epithelial,cells(Good)_source	EFNA1_ligand	Epithelial,cells(Nos)_target	EPHA4_receptor	7.092e-05	0.0	EPHA	Cell-Cell Contact	PMID: 15114347
Epithelial,cells(Nos)_source	EFNA1_ligand	Epithelial,cells(Nos)_target	EPHA4_receptor	5.532e-04	0.0	EPHA	Cell-Cell Contact	PMID: 15114347
Epithelial,cells(Nos)_source	EFNA3_ligand	Epithelial,cells(Good)_target	EPHA1_receptor	6.986e-05	0.0	EPHA	Cell-Cell Contact	PMID: 15114347
Epithelial,cells(Nos)_source	EFNA3_ligand	Epithelial,cells(Nos)_target	EPHA1_receptor	5.827e-04	0.0	EPHA	Cell-Cell Contact	PMID: 15114347
Epithelial,cells(Nos)_source	EFNA3_ligand	Epithelial,cells(Good)_target	EPHA4_receptor	2.604e-05	0.0	EPHA	Cell-Cell Contact	PMID: 15114347
Epithelial,cells(Nos)_source	EFNA3_ligand	Epithelial,cells(Nos)_target	EPHA4_receptor	2.277e-04	0.0	EPHA	Cell-Cell Contact	PMID: 15114347
Epithelial,cells(Nos)_source	EFNA4_ligand	Epithelial,cells(Good)_target	EPHA1_receptor	7.995e-05	0.0	EPHA	Cell-Cell Contact	PMID: 15114347
Epithelial,cells(Nos)_source	EFNA4_ligand	Epithelial,cells(Nos)_target	EPHA1_receptor	6.669e-04	0.0	EPHA	Cell-Cell Contact	PMID: 15114347
Epithelial,cells(Nos)_source	EFNA4_ligand	Epithelial,cells(Good)_target	EPHA4_receptor	2.980e-05	0.0	EPHA	Cell-Cell Contact	PMID: 15114347
Epithelial,cells(Nos)_source	EFNA4_ligand	Epithelial,cells(Nos)_target	EPHA4_receptor	2.606e-04	0.0	EPHA	Cell-Cell Contact	PMID: 15114347
Epithelial,cells(Nos)_source	EFNA5_ligand	Epithelial,cells(Good)_target	EPHA1_receptor	2.496e-05	0.0	EPHA	Cell-Cell Contact	PMID: 15114347
Epithelial,cells(Nos)_source	EFNA5_ligand	Epithelial,cells(Nos)_target	EPHA1_receptor	2.082e-04	0.0	EPHA	Cell-Cell Contact	PMID: 15114347
Epithelial,cells(Nos)_source	EFNA5_ligand	Epithelial,cells(Good)_target	EPHA4_receptor	9.300e-06	0.0	EPHA	Cell-Cell Contact	PMID: 15114347
Epithelial,cells(Nos)_source	EFNA5_ligand	Epithelial,cells(Nos)_target	EPHA4_receptor	8.132e-05	0.0	EPHA	Cell-Cell Contact	PMID: 15114347
Epithelial,cells(Nos)_source	EFNB2_ligand	Epithelial,cells(Good)_target	EPHA4_receptor	2.513e-05	0.0	EPHB	Cell-Cell Contact	PMID: 15114347
Epithelial,cells(Nos)_source	EFNB2_ligand	Epithelial,cells(Nos)_target	EPHA4_receptor	2.197e-04	0.0	EPHB	Cell-Cell Contact	PMID: 15114347
Epithelial,cells(Nos)_source	EFNB2_ligand	Epithelial,cells(Nos)_target	EPHB3_receptor	4.216e-04	0.0	EPHB	Cell-Cell Contact	PMID: 15114347
Epithelial,cells(Good)_source	EFNB2_ligand	Epithelial,cells(Nos)_target	EPHB4_receptor	5.008e-05	0.0	EPHB	Cell-Cell Contact	PMID: 15114347
Epithelial,cells(Nos)_source	EFNB2_ligand	Epithelial,cells(Nos)_target	EPHB4_receptor	5.349e-04	0.0	EPHB	Cell-Cell Contact	PMID: 15114347
Epithelial,cells(Nos)_source	F11R_ligand	Epithelial,cells(Good)_target	F11R_receptor	7.025e-04	0.03	JAM	Cell-Cell Contact	KEGG: hsa04514
Epithelial,cells(Good)_source	F11R_ligand	Epithelial,cells(Nos)_target	F11R_receptor	7.025e-04	0.03	JAM	Cell-Cell Contact	KEGG: hsa04514
Epithelial,cells(Nos)_source	F11R_ligand	Epithelial,cells(Nos)_target	F11R_receptor	6.465e-03	0.0	JAM	Cell-Cell Contact	KEGG: hsa04514
Epithelial,cells(Good)_source	MPZL1_ligand	Epithelial,cells(Good)_target	MPZL1_receptor	3.030e-05	0.02	MPZ	Cell-Cell Contact	KEGG: hsa04514
Epithelial,cells(Nos)_source	MPZL1_ligand	Epithelial,cells(Good)_target	MPZL1_receptor	2.698e-04	0.0	MPZ	Cell-Cell Contact	KEGG: hsa04514
Epithelial,cells(Good)_source	MPZL1_ligand	Epithelial,cells(Nos)_target	MPZL1_receptor	2.698e-04	0.0	MPZ	Cell-Cell Contact	KEGG: hsa04514
Epithelial,cells(Nos)_source	MPZL1_ligand	Epithelial,cells(Nos)_target	MPZL1_receptor	2.402e-03	0.0	MPZ	Cell-Cell Contact	KEGG: hsa04514
Epithelial,cells(Good)_source	NECTIN1_ligand	Epithelial,cells(Good)_target	NECTIN4_receptor	7.644e-06	0.02	NECTIN	Cell-Cell Contact	PMID: 23027581
Epithelial,cells(Nos)_source	NECTIN1_ligand	Epithelial,cells(Good)_target	NECTIN4_receptor	6.573e-05	0.0	NECTIN	Cell-Cell Contact	PMID: 23027581
Epithelial,cells(Good)_source	NECTIN1_ligand	Epithelial,cells(Nos)_target	NECTIN4_receptor	6.874e-05	0.04	NECTIN	Cell-Cell Contact	PMID: 23027581
Epithelial,cells(Nos)_source	NECTIN1_ligand	Epithelial,cells(Nos)_target	NECTIN4_receptor	5.911e-04	0.0	NECTIN	Cell-Cell Contact	PMID: 23027581
Epithelial,cells(Good)_source	OCLN_ligand	Epithelial,cells(Good)_target	OCLN_receptor	2.245e-06	0.0	OCLN	Cell-Cell Contact	KEGG: hsa04514
Epithelial,cells(Nos)_source	OCLN_ligand	Epithelial,cells(Good)_target	OCLN_receptor	1.741e-05	0.0	OCLN	Cell-Cell Contact	KEGG: hsa04514
Epithelial,cells(Good)_source	OCLN_ligand	Epithelial,cells(Nos)_target	OCLN_receptor	1.741e-05	0.0	OCLN	Cell-Cell Contact	KEGG: hsa04514
Epithelial,cells(Nos)_source	OCLN_ligand	Epithelial,cells(Nos)_target	OCLN_receptor	1.351e-04	0.02	OCLN	Cell-Cell Contact	KEGG: hsa04514