Tabula Sapiens Tabula Details Track Settings
 
Tabula sapiens full details view

Track collection: Tabula Sapiens single cell RNA data from many tissues

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+  All tracks in this collection (2)

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Label: Name or ID of item    Alternative name for item   
Log10(x+1) transform:    View limits maximum: parts per million (range 0-10000)


color cluster count tissue subtissue cell_class cell_type sex donor assay
   
adipose tissue/marrow/endothelial/end... 738 adipose tissue marrow endothelial endothelial cell male TSP10 10x 3' v3
   
adipose tissue/marrow/endothelial/end... 1214 adipose tissue marrow endothelial endothelial cell male TSP14 10x 3' v3
   
adipose tissue/marrow/endothelial/end... 12 adipose tissue marrow endothelial endothelial cell male TSP10 Smart-seq2
   
adipose tissue/subcutaneous/endotheli... 1051 adipose tissue subcutaneous endothelial endothelial cell male TSP10 10x 3' v3
   
adipose tissue/subcutaneous/endotheli... 662 adipose tissue subcutaneous endothelial endothelial cell male TSP14 10x 3' v3
   
adipose tissue/subcutaneous/endotheli... 71 adipose tissue subcutaneous endothelial endothelial cell male TSP10 Smart-seq2
   
bladder organ//endothelial/capillary ... 55 bladder organ endothelial capillary endothelial cell female TSP1 10x 3' v3
   
bladder organ//endothelial/capillary ... 10 bladder organ endothelial capillary endothelial cell female TSP2 10x 3' v3
   
bladder organ//endothelial/capillary ... 1 bladder organ endothelial capillary endothelial cell female TSP1 Smart-seq2
   
bladder organ//endothelial/endothelia... 45 bladder organ endothelial endothelial cell of lymphatic vessel female TSP1 10x 3' v3
   
bladder organ//endothelial/endothelia... 6 bladder organ endothelial endothelial cell of lymphatic vessel female TSP2 10x 3' v3
   
bladder organ//endothelial/endothelia... 22 bladder organ endothelial endothelial cell of lymphatic vessel female TSP1 Smart-seq2
   
bladder organ//endothelial/vein endot... 94 bladder organ endothelial vein endothelial cell female TSP1 10x 3' v3
   
bladder organ//endothelial/vein endot... 108 bladder organ endothelial vein endothelial cell female TSP2 10x 3' v3
   
bladder organ//endothelial/vein endot... 64 bladder organ endothelial vein endothelial cell female TSP1 Smart-seq2
   
eye/cornea-etc/endothelial/endothelia... 15 eye cornea-etc endothelial endothelial cell male TSP15 10x 3' v3
   
eye/cornea-etc/endothelial/retinal bl... 158 eye cornea-etc endothelial retinal blood vessel endothelial cell male TSP15 10x 3' v3
   
eye//endothelial/endothelial cell/10x... 3 eye endothelial endothelial cell female TSP5 10x 3' v3
   
eye/lacrimal gland/endothelial/endoth... 4 eye lacrimal gland endothelial endothelial cell female TSP3 Smart-seq2
   
eye/no cornea/endothelial/retinal blo... 1 eye no cornea endothelial retinal blood vessel endothelial cell female TSP3 Smart-seq2
   
eye/orbital/endothelial/retinal blood... 1 eye orbital endothelial retinal blood vessel endothelial cell female TSP3 10x 3' v3
   
eye//endothelial/retinal blood vessel... 22 eye endothelial retinal blood vessel endothelial cell female TSP5 10x 3' v3
   
eye/sclera-etc/endothelial/endothelia... 83 eye sclera-etc endothelial endothelial cell male TSP15 10x 3' v3
   
eye/sclera-etc/endothelial/retinal bl... 284 eye sclera-etc endothelial retinal blood vessel endothelial cell male TSP15 10x 3' v3
   
heart/atria/endothelial/cardiac endot... 1797 heart atria endothelial cardiac endothelial cell male TSP12 10x 3' v3
   
heart/atria/endothelial/cardiac endot... 63 heart atria endothelial cardiac endothelial cell male TSP12 Smart-seq2
   
heart/ventricle/endothelial/cardiac e... 760 heart ventricle endothelial cardiac endothelial cell male TSP12 10x 3' v3
   
heart/ventricle/endothelial/cardiac e... 45 heart ventricle endothelial cardiac endothelial cell male TSP12 Smart-seq2
   
kidney//endothelial/endothelial cell/... 95 kidney endothelial endothelial cell female TSP2 10x 3' v3
   
large intestine/distal/endothelial/gu... 14 large intestine distal endothelial gut endothelial cell female TSP2 10x 3' v3
   
large intestine/distal/endothelial/gu... 24 large intestine distal endothelial gut endothelial cell male TSP14 10x 3' v3
   
large intestine/proximal/endothelial/... 8 large intestine proximal endothelial gut endothelial cell female TSP2 10x 3' v3
   
large intestine/proximal/endothelial/... 7 large intestine proximal endothelial gut endothelial cell male TSP14 10x 3' v3
   
liver//endothelial/endothelial cell/1... 267 liver endothelial endothelial cell male TSP14 10x 3' v3
   
liver//endothelial/endothelial cell o... 330 liver endothelial endothelial cell of hepatic sinusoid male TSP6 10x 3' v3
   
liver//endothelial/endothelial cell o... 80 liver endothelial endothelial cell of hepatic sinusoid male TSP14 10x 3' v3
   
liver//endothelial/endothelial cell o... 11 liver endothelial endothelial cell of hepatic sinusoid male TSP6 Smart-seq2
   
lung//endothelial/capillary endotheli... 133 lung endothelial capillary endothelial cell female TSP1 10x 3' v3
   
lung//endothelial/capillary endotheli... 69 lung endothelial capillary endothelial cell female TSP2 Smart-seq2
   
lung/distal/endothelial/blood vessel ... 14 lung distal endothelial blood vessel endothelial cell male TSP14 10x 3' v3
   
lung//endothelial/endothelial cell of... 67 lung endothelial endothelial cell of artery female TSP1 10x 3' v3
   
lung//endothelial/endothelial cell of... 9 lung endothelial endothelial cell of artery female TSP2 Smart-seq2
   
lung//endothelial/endothelial cell of... 18 lung endothelial endothelial cell of lymphatic vessel female TSP1 10x 3' v3
   
lung//endothelial/lung microvascular ... 20 lung endothelial lung microvascular endothelial cell female TSP1 10x 3' v3
   
lung/medial-distal/endothelial/capill... 32 lung medial-distal endothelial capillary endothelial cell female TSP1 Smart-seq2
   
lung/medial-distal/endothelial/endoth... 9 lung medial-distal endothelial endothelial cell of artery female TSP1 Smart-seq2
   
lung/medial-distal/endothelial/endoth... 2 lung medial-distal endothelial endothelial cell of lymphatic vessel female TSP1 Smart-seq2
   
lung/medial-distal/endothelial/lung m... 1 lung medial-distal endothelial lung microvascular endothelial cell female TSP1 Smart-seq2
   
lung/medial-distal/endothelial/vein e... 5 lung medial-distal endothelial vein endothelial cell female TSP1 Smart-seq2
   
lung/prox-medial-distal/endothelial/c... 1241 lung prox-medial-distal endothelial capillary endothelial cell female TSP2 10x 3' v3
   
lung/prox-medial-distal/endothelial/e... 94 lung prox-medial-distal endothelial endothelial cell of artery female TSP2 10x 3' v3
   
lung/prox-medial-distal/endothelial/e... 18 lung prox-medial-distal endothelial endothelial cell of lymphatic vessel female TSP2 10x 3' v3
   
lung/prox-medial-distal/endothelial/l... 460 lung prox-medial-distal endothelial lung microvascular endothelial cell female TSP2 10x 3' v3
   
lung/prox-medial-distal/endothelial/l... 3 lung prox-medial-distal endothelial lung microvascular endothelial cell female TSP2 Smart-seq2
   
lung/prox-medial-distal/endothelial/v... 354 lung prox-medial-distal endothelial vein endothelial cell female TSP2 10x 3' v3
   
lung/proximal/endothelial/blood vesse... 33 lung proximal endothelial blood vessel endothelial cell male TSP14 10x 3' v3
   
lung/proximal/endothelial/capillary e... 59 lung proximal endothelial capillary endothelial cell female TSP1 Smart-seq2
   
lung/proximal/endothelial/endothelial... 8 lung proximal endothelial endothelial cell of artery female TSP1 Smart-seq2
   
lung/proximal/endothelial/endothelial... 9 lung proximal endothelial endothelial cell of lymphatic vessel female TSP1 Smart-seq2
   
lung/proximal/endothelial/lung microv... 1 lung proximal endothelial lung microvascular endothelial cell female TSP1 Smart-seq2
   
lung/proximal/endothelial/vein endoth... 7 lung proximal endothelial vein endothelial cell female TSP1 Smart-seq2
   
lung//endothelial/vein endothelial ce... 124 lung endothelial vein endothelial cell female TSP1 10x 3' v3
   
lung//endothelial/vein endothelial ce... 18 lung endothelial vein endothelial cell female TSP2 Smart-seq2
   
lymph node//endothelial/endothelial c... 9 lymph node endothelial endothelial cell female TSP2 10x 3' v3
   
lymph node//endothelial/endothelial c... 137 lymph node endothelial endothelial cell male TSP14 10x 3' v3
   
lymph node//endothelial/endothelial c... 6 lymph node endothelial endothelial cell female TSP2 Smart-seq2
   
lymph node/inguinal/endothelial/endot... 2 lymph node inguinal endothelial endothelial cell female TSP7 10x 3' v3
   
lymph node/inguinal/endothelial/endot... 1 lymph node inguinal endothelial endothelial cell female TSP7 Smart-seq2
   
lymph node/supradiaphragmatic/endothe... 2 lymph node supradiaphragmatic endothelial endothelial cell female TSP7 10x 3' v3
   
lymph node/supradiaphragmatic/endothe... 1 lymph node supradiaphragmatic endothelial endothelial cell female TSP7 Smart-seq2
   
mammary gland//endothelial/endothelia... 159 mammary gland endothelial endothelial cell of artery female TSP4 10x 3' v3
   
mammary gland//endothelial/endothelia... 9 mammary gland endothelial endothelial cell of artery female TSP4 Smart-seq2
   
mammary gland//endothelial/endothelia... 30 mammary gland endothelial endothelial cell of lymphatic vessel female TSP4 10x 3' v3
   
mammary gland//endothelial/endothelia... 2 mammary gland endothelial endothelial cell of lymphatic vessel female TSP4 Smart-seq2
   
mammary gland//endothelial/vein endot... 253 mammary gland endothelial vein endothelial cell female TSP4 10x 3' v3
   
mammary gland//endothelial/vein endot... 10 mammary gland endothelial vein endothelial cell female TSP4 Smart-seq2
   
muscle tissue/abdomen/endothelial/cap... 342 muscle tissue abdomen endothelial capillary endothelial cell male TSP14 10x 3' v3
   
muscle tissue/abdomen/endothelial/end... 22 muscle tissue abdomen endothelial endothelial cell of artery male TSP14 10x 3' v3
   
muscle tissue/abdomen/endothelial/end... 4 muscle tissue abdomen endothelial endothelial cell of lymphatic vessel male TSP14 10x 3' v3
   
muscle tissue/abdomen/endothelial/end... 173 muscle tissue abdomen endothelial endothelial cell of vascular tree male TSP14 10x 3' v3
   
muscle tissue//endothelial/capillary ... 375 muscle tissue endothelial capillary endothelial cell female TSP1 10x 3' v3
   
muscle tissue//endothelial/capillary ... 174 muscle tissue endothelial capillary endothelial cell female TSP1 Smart-seq2
   
muscle tissue//endothelial/capillary ... 74 muscle tissue endothelial capillary endothelial cell female TSP2 Smart-seq2
   
muscle tissue/diaphragm/endothelial/c... 68 muscle tissue diaphragm endothelial capillary endothelial cell female TSP2 10x 3' v3
   
muscle tissue/diaphragm/endothelial/c... 22 muscle tissue diaphragm endothelial capillary endothelial cell male TSP14 10x 3' v3
   
muscle tissue/diaphragm/endothelial/c... 20 muscle tissue diaphragm endothelial capillary endothelial cell female TSP2 Smart-seq2
   
muscle tissue/diaphragm/endothelial/c... 83 muscle tissue diaphragm endothelial capillary endothelial cell female TSP4 Smart-seq2
   
muscle tissue/diaphragm/endothelial/e... 19 muscle tissue diaphragm endothelial endothelial cell of artery female TSP2 10x 3' v3
   
muscle tissue/diaphragm/endothelial/e... 10 muscle tissue diaphragm endothelial endothelial cell of artery male TSP14 10x 3' v3
   
muscle tissue/diaphragm/endothelial/e... 2 muscle tissue diaphragm endothelial endothelial cell of artery female TSP4 Smart-seq2
   
muscle tissue/diaphragm/endothelial/e... 28 muscle tissue diaphragm endothelial endothelial cell of lymphatic vessel female TSP2 10x 3' v3
   
muscle tissue/diaphragm/endothelial/e... 18 muscle tissue diaphragm endothelial endothelial cell of lymphatic vessel male TSP14 10x 3' v3
   
muscle tissue/diaphragm/endothelial/e... 4 muscle tissue diaphragm endothelial endothelial cell of lymphatic vessel female TSP2 Smart-seq2
   
muscle tissue/diaphragm/endothelial/e... 35 muscle tissue diaphragm endothelial endothelial cell of lymphatic vessel female TSP4 Smart-seq2
   
muscle tissue/diaphragm/endothelial/e... 1391 muscle tissue diaphragm endothelial endothelial cell of vascular tree female TSP2 10x 3' v3
   
muscle tissue/diaphragm/endothelial/e... 54 muscle tissue diaphragm endothelial endothelial cell of vascular tree male TSP14 10x 3' v3
   
muscle tissue/diaphragm/endothelial/e... 236 muscle tissue diaphragm endothelial endothelial cell of vascular tree female TSP2 Smart-seq2
   
muscle tissue/diaphragm/endothelial/e... 128 muscle tissue diaphragm endothelial endothelial cell of vascular tree female TSP4 Smart-seq2
   
muscle tissue//endothelial/endothelia... 43 muscle tissue endothelial endothelial cell of artery female TSP1 10x 3' v3
   
muscle tissue//endothelial/endothelia... 9 muscle tissue endothelial endothelial cell of lymphatic vessel female TSP1 10x 3' v3
   
muscle tissue//endothelial/endothelia... 6 muscle tissue endothelial endothelial cell of lymphatic vessel female TSP1 Smart-seq2
   
muscle tissue//endothelial/endothelia... 302 muscle tissue endothelial endothelial cell of vascular tree female TSP1 10x 3' v3
   
muscle tissue//endothelial/endothelia... 134 muscle tissue endothelial endothelial cell of vascular tree female TSP1 Smart-seq2
   
muscle tissue//endothelial/endothelia... 99 muscle tissue endothelial endothelial cell of vascular tree female TSP2 Smart-seq2
   
muscle tissue/rectus abdominus/endoth... 790 muscle tissue rectus abdominus endothelial capillary endothelial cell female TSP2 10x 3' v3
   
muscle tissue/rectus abdominus/endoth... 67 muscle tissue rectus abdominus endothelial capillary endothelial cell female TSP4 Smart-seq2
   
muscle tissue/rectus abdominus/endoth... 36 muscle tissue rectus abdominus endothelial endothelial cell of artery female TSP2 10x 3' v3
   
muscle tissue/rectus abdominus/endoth... 1 muscle tissue rectus abdominus endothelial endothelial cell of artery female TSP4 Smart-seq2
   
muscle tissue/rectus abdominus/endoth... 9 muscle tissue rectus abdominus endothelial endothelial cell of lymphatic vessel female TSP2 10x 3' v3
   
muscle tissue/rectus abdominus/endoth... 21 muscle tissue rectus abdominus endothelial endothelial cell of lymphatic vessel female TSP4 Smart-seq2
   
muscle tissue/rectus abdominus/endoth... 947 muscle tissue rectus abdominus endothelial endothelial cell of vascular tree female TSP2 10x 3' v3
   
muscle tissue/rectus abdominus/endoth... 138 muscle tissue rectus abdominus endothelial endothelial cell of vascular tree female TSP4 Smart-seq2
   
pancreas/endocrine/endothelial/endoth... 146 pancreas endocrine endothelial endothelial cell female TSP1 10x 3' v3
   
pancreas/endocrine/endothelial/endoth... 27 pancreas endocrine endothelial endothelial cell female TSP1 Smart-seq2
   
pancreas/exocrine/endothelial/endothe... 92 pancreas exocrine endothelial endothelial cell female TSP1 10x 3' v3
   
pancreas/exocrine/endothelial/endothe... 1835 pancreas exocrine endothelial endothelial cell male TSP9 10x 3' v3
   
prostate gland//endothelial/endotheli... 471 prostate gland endothelial endothelial cell male TSP8 10x 3' v3
   
prostate gland//endothelial/endotheli... 114 prostate gland endothelial endothelial cell male TSP14 10x 3' v3
   
saliva-secreting gland/parotid/endoth... 88 saliva-secreting gland parotid endothelial endothelial cell female TSP7 10x 3' v3
   
saliva-secreting gland/parotid/endoth... 112 saliva-secreting gland parotid endothelial endothelial cell male TSP14 10x 3' v3
   
saliva-secreting gland/parotid/endoth... 57 saliva-secreting gland parotid endothelial endothelial cell of lymphatic vessel female TSP7 10x 3' v3
   
saliva-secreting gland/parotid/endoth... 6 saliva-secreting gland parotid endothelial endothelial cell of lymphatic vessel male TSP14 10x 3' v3
   
saliva-secreting gland/submandibular/... 123 saliva-secreting gland submandibular endothelial endothelial cell male TSP14 10x 3' v3
   
saliva-secreting gland/submandibular/... 257 saliva-secreting gland submandibular endothelial endothelial cell of lymphatic vessel male TSP14 10x 3' v3
   
skin of body/abdomen/endothelial/endo... 139 skin of body abdomen endothelial endothelial cell male TSP14 10x 3' v3
   
skin of body/abdomen/endothelial/endo... 52 skin of body abdomen endothelial endothelial cell male TSP10 Smart-seq2
   
skin of body/chest/endothelial/endoth... 337 skin of body chest endothelial endothelial cell male TSP14 10x 3' v3
   
skin of body/chest/endothelial/endoth... 79 skin of body chest endothelial endothelial cell male TSP10 Smart-seq2
   
skin of body//endothelial/endothelial... 702 skin of body endothelial endothelial cell male TSP10 10x 3' v3
   
small intestine/distal/endothelial/gu... 3 small intestine distal endothelial gut endothelial cell female TSP2 10x 3' v3
   
small intestine/distal/endothelial/gu... 7 small intestine distal endothelial gut endothelial cell male TSP14 10x 3' v3
   
small intestine/proximal/endothelial/... 28 small intestine proximal endothelial gut endothelial cell female TSP2 10x 3' v3
   
small intestine/proximal/endothelial/... 8 small intestine proximal endothelial gut endothelial cell male TSP14 10x 3' v3
   
spleen//endothelial/endothelial cell/... 156 spleen endothelial endothelial cell female TSP2 10x 3' v3
   
spleen//endothelial/endothelial cell/... 287 spleen endothelial endothelial cell female TSP7 10x 3' v3
   
spleen//endothelial/endothelial cell/... 128 spleen endothelial endothelial cell male TSP14 10x 3' v3
   
spleen//endothelial/endothelial cell/... 2 spleen endothelial endothelial cell female TSP2 Smart-seq2
   
spleen//endothelial/endothelial cell/... 23 spleen endothelial endothelial cell female TSP7 Smart-seq2
   
thymus//endothelial/capillary endothe... 842 thymus endothelial capillary endothelial cell female TSP2 10x 3' v3
   
thymus//endothelial/capillary endothe... 383 thymus endothelial capillary endothelial cell male TSP14 10x 3' v3
   
thymus//endothelial/capillary endothe... 137 thymus endothelial capillary endothelial cell female TSP2 Smart-seq2
   
thymus//endothelial/endothelial cell ... 179 thymus endothelial endothelial cell of artery female TSP2 10x 3' v3
   
thymus//endothelial/endothelial cell ... 355 thymus endothelial endothelial cell of artery male TSP14 10x 3' v3
   
thymus//endothelial/endothelial cell ... 2 thymus endothelial endothelial cell of artery female TSP2 Smart-seq2
   
thymus//endothelial/endothelial cell ... 14 thymus endothelial endothelial cell of lymphatic vessel female TSP2 10x 3' v3
   
thymus//endothelial/endothelial cell ... 256 thymus endothelial endothelial cell of lymphatic vessel male TSP14 10x 3' v3
   
thymus//endothelial/endothelial cell ... 1 thymus endothelial endothelial cell of lymphatic vessel female TSP2 Smart-seq2
   
thymus//endothelial/vein endothelial ... 568 thymus endothelial vein endothelial cell female TSP2 10x 3' v3
   
thymus//endothelial/vein endothelial ... 1442 thymus endothelial vein endothelial cell male TSP14 10x 3' v3
   
thymus//endothelial/vein endothelial ... 94 thymus endothelial vein endothelial cell female TSP2 Smart-seq2
   
tongue/anterior/endothelial/capillary... 45 tongue anterior endothelial capillary endothelial cell male TSP14 10x 3' v3
   
tongue/anterior/endothelial/capillary... 1 tongue anterior endothelial capillary endothelial cell female TSP7 Smart-seq2
   
tongue/anterior/endothelial/endotheli... 17 tongue anterior endothelial endothelial cell of artery male TSP14 10x 3' v3
   
tongue/anterior/endothelial/endotheli... 1 tongue anterior endothelial endothelial cell of artery female TSP7 Smart-seq2
   
tongue/anterior/endothelial/endotheli... 18 tongue anterior endothelial endothelial cell of lymphatic vessel male TSP14 10x 3' v3
   
tongue/anterior/endothelial/endotheli... 1 tongue anterior endothelial endothelial cell of lymphatic vessel female TSP7 Smart-seq2
   
tongue/anterior/endothelial/vein endo... 97 tongue anterior endothelial vein endothelial cell male TSP14 10x 3' v3
   
tongue/anterior/endothelial/vein endo... 5 tongue anterior endothelial vein endothelial cell female TSP7 Smart-seq2
   
tongue/posterior/endothelial/capillar... 22 tongue posterior endothelial capillary endothelial cell female TSP7 10x 3' v3
   
tongue/posterior/endothelial/capillar... 33 tongue posterior endothelial capillary endothelial cell male TSP14 10x 3' v3
   
tongue/posterior/endothelial/endothel... 7 tongue posterior endothelial endothelial cell of artery female TSP7 10x 3' v3
   
tongue/posterior/endothelial/endothel... 15 tongue posterior endothelial endothelial cell of artery male TSP14 10x 3' v3
   
tongue/posterior/endothelial/endothel... 20 tongue posterior endothelial endothelial cell of lymphatic vessel female TSP7 10x 3' v3
   
tongue/posterior/endothelial/endothel... 5 tongue posterior endothelial endothelial cell of lymphatic vessel male TSP14 10x 3' v3
   
tongue/posterior/endothelial/vein end... 61 tongue posterior endothelial vein endothelial cell female TSP7 10x 3' v3
   
tongue/posterior/endothelial/vein end... 59 tongue posterior endothelial vein endothelial cell male TSP14 10x 3' v3
   
tongue/posterior/endothelial/vein end... 4 tongue posterior endothelial vein endothelial cell female TSP7 Smart-seq2
   
trachea//endothelial/endothelial cell... 33 trachea endothelial endothelial cell female TSP2 10x 3' v3
   
trachea//endothelial/endothelial cell... 192 trachea endothelial endothelial cell male TSP6 10x 3' v3
   
trachea//endothelial/endothelial cell... 32 trachea endothelial endothelial cell male TSP6 Smart-seq2
   
uterus/endometrium/endothelial/endoth... 87 uterus endometrium endothelial endothelial cell female TSP4 10x 3' v3
   
uterus/endometrium/endothelial/endoth... 81 uterus endometrium endothelial endothelial cell of lymphatic vessel female TSP4 10x 3' v3
   
uterus//endothelial/endothelial cell ... 3 uterus endothelial endothelial cell of lymphatic vessel female TSP4 Smart-seq2
   
uterus//endothelial/endothelial cell/... 18 uterus endothelial endothelial cell female TSP4 Smart-seq2
   
uterus/myometrium/endothelial/endothe... 1972 uterus myometrium endothelial endothelial cell female TSP4 10x 3' v3
   
uterus/myometrium/endothelial/endothe... 2 uterus myometrium endothelial endothelial cell of lymphatic vessel female TSP4 10x 3' v3
   
vasculature/aorta/endothelial/endothe... 1274 vasculature aorta endothelial endothelial cell female TSP2 10x 3' v3
   
vasculature/aorta/endothelial/endothe... 275 vasculature aorta endothelial endothelial cell female TSP2 Smart-seq2
   
vasculature/aorta vena cava/endotheli... 217 vasculature aorta vena cava endothelial capillary endothelial cell male TSP14 10x 3' v3
   
vasculature/aorta vena cava/endotheli... 5 vasculature aorta vena cava endothelial endothelial cell male TSP14 10x 3' v3
   
vasculature/aorta vena cava/endotheli... 21 vasculature aorta vena cava endothelial endothelial cell of artery male TSP14 10x 3' v3
   
vasculature/aorta vena cava/endotheli... 2 vasculature aorta vena cava endothelial endothelial cell of lymphatic vessel male TSP14 10x 3' v3
   
vasculature/coronary arteries/endothe... 817 vasculature coronary arteries endothelial capillary endothelial cell male TSP14 10x 3' v3
   
vasculature/coronary arteries/endothe... 10 vasculature coronary arteries endothelial endothelial cell male TSP14 10x 3' v3
   
vasculature/coronary arteries/endothe... 117 vasculature coronary arteries endothelial endothelial cell of artery male TSP14 10x 3' v3
   
vasculature/coronary arteries/endothe... 42 vasculature coronary arteries endothelial endothelial cell of lymphatic vessel male TSP14 10x 3' v3
Data schema/format description and download
Assembly: Human Dec. 2013 (GRCh38/hg38)
Data last updated at UCSC: 2022-05-12 04:59:08

Description

This track shows data from The Tabula Sapiens: a multiple organ single cell transcriptomic atlas of humans. The dataset covers ~500,000 cells from a total of 24 human tissues and organs from all regions of the body using both droplet-based and plate-based single-cell RNA-sequencing (scRNA-seq). Samples were taken from the human bladder, blood, bone marrow, eye, fat, heart, kidney, large intestine, liver, lung, lymph node, mammary, muscle, pancreas, prostate, salivary gland, skin, small intestine, spleen, thymus, tongue, trachea, uterus, and vasculature. The dataset includes 264,009 immune cells, 102,580 epithelial cells, 32,701 endothelial cells, and 81,529 stromal cells. A total of 475 distinct cell types were identified.

This track collection contains two bar chart tracks of RNA expression. The first track, Tabula Tissue Cell allows cells to be grouped together and faceted on up to 3 categories: tissue, cell class, and cell type. The second track, Tabula Details allows cells to be grouped together and faceted on up to 7 categories: tissue, cell class, cell type, subtissue, sex, donor, and assay.

Please see tabula-sapiens-portal.ds.czbiohub.org for further interactive displays and additional data.

Display Conventions and Configuration

The cell types are colored by which compartment they belong to according to the following table. In addition, cells found in the Tabula Details track with less than 100 transcripts will be a lighter shade and less concentrated in color to represent a low number of transcripts.

Color Cell Compartment
epithelial
endothelial
germline
immune
stromal

Methods

All tissues

36 tissue specimens comprising 24 unique tissues and organs were collected from 15 human donors (TSP1-15) with a mean age of 51 years. Tissue specimens were collected at various hospital locations in the Northern California region and transported on ice in less than one hour to preserve cell viability. Single cell suspensions from each organ were prepared in tissue expert laboratories at Stanford and UCSF. For each tissue, the dissociated cells were sorted using MACS and FACS to balance immune, stromal, epithelial, and endothelial cell types.

Sequencing libraries for all tissues were prepared using 10x 3' v3.1, 10x 5' v2, and Smart-seq2 (SS2) protocols for Illumina sequencing. Two 10x reactions per organ were loaded with 7,000 cells each with the goal to yield 10,000 QC-passed cells. Four 384-well Smartseq2 plates were run per organ. In most organs, one plate was used for each compartment (epithelial, endothelial, immune, and stromal), however, to capture rare cells, some organ experts allocated cells across the four plates differently. Sequencing runs for droplet libraries were loaded onto the NovaSeq S4 flow cell in sets of 16 to 20 libraries of approximately 5,000 cells per library with the goal of generating 50,000 to 75,000 reads per cell. Plate libraries were run in sets of 20 plates on Novaseq S4 flow cells to allow generating 1M reads per cell, depending on library quality. 152 10x reactions were performed, yielding 454,069 cells passing QC, and 161 smartseq2 plates were processed, yielding 27,051 cells passing QC.

Tissues collected from the same donor were used to study the clonal distribution of T cells between tissues, to understand the tissue specific mutation rate in B cells, and to analyze the cell cycle state and proliferative potential of shared cell types across tissues. RNA splicing analysis was also used to characterize cell type specific splicing and its variation across individuals.

For detailed methods and information on donors for each organ or tissue please refer to Quake et al, 2021 or the Tabula Sapiens website.

Errata

Some cell types, particularly in the intestines, are duplicated due to the use of multiple ontologies for the same cell type. In a future version, we plan to pool the data from these duplicates.

Data Access

The raw bar chart data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information.

The cell/gene matrix and cell-level metadata was downloaded from the UCSC Cell Browser. The UCSC command line utility matrixClusterColumns, matrixToBarChart, and bedToBigBed were used to transform these into a bar chart format bigBed file that can be visualized. The UCSC utilities can be found on our download server.

Credits

Thanks to the Tabula Sapiens Consortium who worked on producing and publishing this data set. The data were integrated into the UCSC Genome Browser by Jim Kent, Brittney Wick, and Rachel Schwartz.

References

The Tabula Sapiens Consortium, Quake SR., The Tabula Sapiens: A Multiple Organ Single Cell Transcriptomic Atlas of Humans. bioRxiv. 2021 March 4.; doi: https://doi.org/10.1101/2021.07.19.452956.