Table 2.

List of reference atlas available for spatial omics applications (as of March 2022). HPA Human Protein Atlas (https://www.proteinatlas.org/), HCA Human Cell Atlas (https://www.humancellatlas.org/), Tabula Sapiens (https://tabula-sapiens-portal.ds.czbiohub.org/)

	GeoMx	HPA	HCA	HCA	Tabula sapiens
		Coverage	Project counts	Est. cell counts	Cell counts
Lung	N	Y	18	6,200,000	35,682
Kidney	Y	Y	9	4,900,000	9641
Liver	N	Y	10	5,400,000	5007
Brain	Y	Y	14	9,700,000	N/A
Skin	N	Y	12	1,500,000	9424
Colon (large intestine)	Y	Y	4	1,100,000	N/A
Rectum (large intestine)	N	Y	2	372,300	N/A
Small intestine	N	Y	3	986,700	12,467
Stomach	N	Y	3	4,600,000	N/A
Lymph node	Y	Y	3	536,700	53,275
Prostate	N	Y	3	798,900	16,375
Ovary	N	Y	3	525,100	N/A
Uterus	N	Y	3	1,000,000	7124
Heart	N	Y	8	6,200,000	11,505
Esophagus	N	Y	4	914,600	N/A
Bone marrow	N	Y	3	571,700	12,297
Bone (skeletal muscle)	N	Y	2	212,600	N/A
Adipose (fat)	N	Y	4	1,000,000	20,263
Bladder	N	Y	2	486,700	21,517
Eye	N	Y	7	4,900,000	10,650
Testis	N	Y	2	30,200	N/A
Spleen	N	N	5	4,800,000	34,004
Appendix (large intestine)	N	Y	N/A	N/A	N/A
Bile duct	N	N	1	84,375	N/A
Pancreas	Y	Y	16	5,100,000	13,497
Smooth muscle	N	Y	N/A	N/A	30,746
Nasal cavity	N	N	3	114,800	N/A
Peritoneum	N	N	N/A	N/A	N/A
Blood	N	N	28	3,000,000	50,115
Breast	N	Y	2	709,100	N/A
Large intestine	N	Y	2	482,300	13,680
Mammary gland	N	N	1	N/A	11,375
Salivary gland	N	Y	1	N/A	27,199
Thymus	N	Y	3	4,800,000	33,664
Tongue	N	N	1	N/A	15,020
Trachea	N	N	3	564,700	9522
Vasculature	N	N	1	N/A	17,071