The human proteome in data - The Human Protein Atlas

HPA IHC data Consensus RNA data HPA RNA data HPA RNA transcript data GTEx RNA data FANTOM RNA data

HPA IHC data

Expression profiles for proteins in 45 human tissues based on immunohistochemisty using tissue micro arrays. The tab-separated file includes Ensembl gene identifier, tissue name, annotated cell type, expression value ("Level"), and the gene reliability of the expression value ("Reliability"). The data is based on The Human Protein Atlas version24.0 and Ensembl version 109.

normal_ihc_data.tsv.zip

Tissues for IHC

Download: normal_ihc_tissues.tsv.zip | 45 lines
Tissue	Organ
Adipose tissue	Connective & Soft tissue
Adrenal gland	Endocrine tissues
Appendix	Bone marrow & Lymphoid tissues
Bone marrow	Bone marrow & Lymphoid tissues
Breast	Breast and female reproductive system
Bronchus	Respiratory system
Caudate	Brain
Cerebellum	Brain
Cerebral cortex	Brain
Cervix	Breast and female reproductive system
Colon	Gastrointestinal tract
Duodenum	Gastrointestinal tract
Endometrium	Breast and female reproductive system
Epididymis	Male reproductive system
Esophagus	Proximal digestive tract
Fallopian tube	Breast and female reproductive system
Gallbladder	Liver & Gallbladder
Heart muscle	Muscle tissues
Hippocampus	Brain
Kidney	Kidney & Urinary bladder
Liver	Liver & Gallbladder
Lung	Respiratory system
Lymph node	Bone marrow & Lymphoid tissues
Nasopharynx	Respiratory system
Oral mucosa	Proximal digestive tract
Ovary	Breast and female reproductive system
Pancreas	Pancreas
Parathyroid gland	Endocrine tissues
Placenta	Breast and female reproductive system
Prostate	Male reproductive system
Rectum	Gastrointestinal tract
Salivary gland	Proximal digestive tract
Seminal vesicle	Male reproductive system
Skeletal muscle	Muscle tissues
Skin	Skin
Small intestine	Gastrointestinal tract
Smooth muscle	Muscle tissues
Soft tissue	Connective & Soft tissue
Spleen	Bone marrow & Lymphoid tissues
Stomach	Gastrointestinal tract
Testis	Male reproductive system
Thyroid gland	Endocrine tissues
Tonsil	Bone marrow & Lymphoid tissues
Urinary bladder	Kidney & Urinary bladder
Vagina	Breast and female reproductive system

Annotated cell types for IHC

Download: normal_ihc_cell_types.tsv.zip | 76 lines
Cell type	Tissue	Organ
Adipocytes	Adipose tissue	Connective & Soft tissue
Adipocytes	Breast	Breast and female reproductive system
Alveolar cells	Lung	Respiratory system
Cardiomyocytes	Heart muscle	Muscle tissues
Cells in endometrial stroma	Endometrium	Breast and female reproductive system
Cells in glomeruli	Kidney	Kidney & Urinary bladder
Cells in granular layer	Cerebellum	Brain
Cells in molecular layer	Cerebellum	Brain
Cells in red pulp	Spleen	Bone marrow & Lymphoid tissues
Cells in seminiferous ducts	Testis	Male reproductive system
Cells in tubules	Kidney	Kidney & Urinary bladder
Cells in white pulp	Spleen	Bone marrow & Lymphoid tissues
Cholangiocytes	Liver	Liver & Gallbladder
Chondrocytes	Soft tissue	Connective & Soft tissue
Decidual cells	Placenta	Breast and female reproductive system
Endothelial cells	Cerebral cortex	Brain
Endothelial cells	Colon	Gastrointestinal tract
Epidermal cells	Skin	Skin
Exocrine glandular cells	Pancreas	Pancreas
Fibroblasts	Skin	Skin
Fibroblasts	Soft tissue	Connective & Soft tissue
Follicle cells	Ovary	Breast and female reproductive system
Germinal center cells	Lymph node	Bone marrow & Lymphoid tissues
Germinal center cells	Tonsil	Bone marrow & Lymphoid tissues
Glandular cells	Adrenal gland	Endocrine tissues
Glandular cells	Appendix	Bone marrow & Lymphoid tissues
Glandular cells	Breast	Breast and female reproductive system
Glandular cells	Cervix	Breast and female reproductive system
Glandular cells	Colon	Gastrointestinal tract
Glandular cells	Duodenum	Gastrointestinal tract
Glandular cells	Endometrium	Breast and female reproductive system
Glandular cells	Epididymis	Male reproductive system
Glandular cells	Fallopian tube	Breast and female reproductive system
Glandular cells	Gallbladder	Liver & Gallbladder
Glandular cells	Parathyroid gland	Endocrine tissues
Glandular cells	Prostate	Male reproductive system
Glandular cells	Rectum	Gastrointestinal tract
Glandular cells	Salivary gland	Proximal digestive tract
Glandular cells	Seminal vesicle	Male reproductive system
Glandular cells	Small intestine	Gastrointestinal tract
Glandular cells	Stomach	Gastrointestinal tract
Glandular cells	Thyroid gland	Endocrine tissues
Glial cells	Caudate	Brain
Glial cells	Cerebral cortex	Brain
Glial cells	Hippocampus	Brain
Hematopoietic cells	Bone marrow	Bone marrow & Lymphoid tissues
Hepatocytes	Liver	Liver & Gallbladder
Keratinocytes	Skin	Skin
Langerhans	Skin	Skin
Leydig cells	Testis	Male reproductive system
Lymphoid tissue	Appendix	Bone marrow & Lymphoid tissues
Macrophages	Lung	Respiratory system
Melanocytes	Skin	Skin
Myocytes	Skeletal muscle	Muscle tissues
Myoepithelial cells	Breast	Breast and female reproductive system
Neuronal cells	Caudate	Brain
Neuronal cells	Cerebral cortex	Brain
Neuronal cells	Hippocampus	Brain
Neuropil	Cerebral cortex	Brain
Non-germinal center cells	Lymph node	Bone marrow & Lymphoid tissues
Non-germinal center cells	Tonsil	Bone marrow & Lymphoid tissues
Ovarian stroma cells	Ovary	Breast and female reproductive system
Pancreatic endocrine cells	Pancreas	Pancreas
Peripheral nerve	Soft tissue	Connective & Soft tissue
Peripheral nerve/ganglion	Colon	Gastrointestinal tract
Purkinje cells	Cerebellum	Brain
Respiratory epithelial cells	Bronchus	Respiratory system
Respiratory epithelial cells	Nasopharynx	Respiratory system
Smooth muscle cells	Smooth muscle	Muscle tissues
Squamous epithelial cells	Cervix	Breast and female reproductive system
Squamous epithelial cells	Esophagus	Proximal digestive tract
Squamous epithelial cells	Oral mucosa	Proximal digestive tract
Squamous epithelial cells	Tonsil	Bone marrow & Lymphoid tissues
Squamous epithelial cells	Vagina	Breast and female reproductive system
Trophoblastic cells	Placenta	Breast and female reproductive system
Urothelial cells	Urinary bladder	Kidney & Urinary bladder

Consensus RNA data

Consensus transcript expression levels summarized per gene in 50 tissues based on transcriptomics data from HPA and GTEx. The consensus normalized expression ("nTPM") value is calculated as the maximum nTPM value for each gene in the two data sources. For tissues with multiple sub-tissues (brain regions, lymphoid tissues and intestine) the maximum of all sub-tissues is used for the tissue type. The tab-separated file includes Ensembl gene identifier, analysed tissue and normalized expression ("nTPM"). The data is based on The Human Protein Atlas version24.0 and Ensembl version 109.

rna_tissue_consensus.tsv.zip

Consensus tissues

Download: rna_tissue_consensus_tissues.tsv.zip | 50 lines
Tissue	Organ
adipose tissue	Connective & Soft tissue
adrenal gland	Endocrine tissues
amygdala	Brain
appendix	Bone marrow & Lymphoid tissues
basal ganglia	Brain
bone marrow	Bone marrow & Lymphoid tissues
breast	Breast and female reproductive system
cerebellum	Brain
cerebral cortex	Brain
cervix	Breast and female reproductive system
choroid plexus	Brain
colon	Gastrointestinal tract
duodenum	Gastrointestinal tract
endometrium	Breast and female reproductive system
epididymis	Male reproductive system
esophagus	Proximal digestive tract
fallopian tube	Breast and female reproductive system
gallbladder	Liver & Gallbladder
heart muscle	Muscle tissues
hippocampal formation	Brain
hypothalamus	Brain
kidney	Kidney & Urinary bladder
liver	Liver & Gallbladder
lung	Respiratory system
lymph node	Bone marrow & Lymphoid tissues
midbrain	Brain
ovary	Breast and female reproductive system
pancreas	Pancreas
parathyroid gland	Endocrine tissues
pituitary gland	Endocrine tissues
placenta	Breast and female reproductive system
prostate	Male reproductive system
rectum	Gastrointestinal tract
retina	Eye
salivary gland	Proximal digestive tract
seminal vesicle	Male reproductive system
skeletal muscle	Muscle tissues
skin	Skin
small intestine	Gastrointestinal tract
smooth muscle	Muscle tissues
spinal cord	Brain
spleen	Bone marrow & Lymphoid tissues
stomach	Gastrointestinal tract
testis	Male reproductive system
thymus	Bone marrow & Lymphoid tissues
thyroid gland	Endocrine tissues
tongue	Proximal digestive tract
tonsil	Bone marrow & Lymphoid tissues
urinary bladder	Kidney & Urinary bladder
vagina	Breast and female reproductive system

HPA RNA data

Transcript expression levels summarized per gene in 40 HPA tissues based on RNA-seq. The tab-separated file includes Ensembl gene identifier, analysed tissue, transcripts per million ("TPM"), protein-transcripts per million ("pTPM") and normalized expression ("nTPM"). The data is based onThe Human Protein Atlas version24.0 and Ensembl version 109.

rna_tissue_hpa.tsv.zip

HPA tissues (RNA)

Download: rna_tissue_hpa_tissues.tsv.zip | 40 lines
Tissue	Organ
adipose tissue	Connective & Soft tissue
adrenal gland	Endocrine tissues
appendix	Bone marrow & Lymphoid tissues
bone marrow	Bone marrow & Lymphoid tissues
breast	Breast and female reproductive system
cerebral cortex	Brain
cervix	Breast and female reproductive system
choroid plexus	Brain
colon	Gastrointestinal tract
duodenum	Gastrointestinal tract
endometrium	Breast and female reproductive system
epididymis	Male reproductive system
esophagus	Proximal digestive tract
fallopian tube	Breast and female reproductive system
gallbladder	Liver & Gallbladder
heart muscle	Muscle tissues
kidney	Kidney & Urinary bladder
liver	Liver & Gallbladder
lung	Respiratory system
lymph node	Bone marrow & Lymphoid tissues
ovary	Breast and female reproductive system
pancreas	Pancreas
parathyroid gland	Endocrine tissues
placenta	Breast and female reproductive system
prostate	Male reproductive system
rectum	Gastrointestinal tract
salivary gland	Proximal digestive tract
seminal vesicle	Male reproductive system
skeletal muscle	Muscle tissues
skin	Skin
small intestine	Gastrointestinal tract
smooth muscle	Muscle tissues
spleen	Bone marrow & Lymphoid tissues
stomach	Gastrointestinal tract
testis	Male reproductive system
thymus	Bone marrow & Lymphoid tissues
thyroid gland	Endocrine tissues
tongue	Proximal digestive tract
tonsil	Bone marrow & Lymphoid tissues
urinary bladder	Kidney & Urinary bladder

HPA RNA transcript data

Transcript expression levels in 186 human tissue samples based on RNA-seq. The tab-separated file includes Ensembl gene identifier, Ensembl transcript identifier, transcript per million ("TPM") and estimated counts ("est_counts") of the analysed sample ("sample_name.sample_id"). The data is based on The Human Protein Atlas version24.0 and Ensembl version 109.

transcript_rna_tissue.tsv.zip

HPA tissue samples

Download: rna_tissue_hpa_samples.tsv.zip | 186 lines
Tissue	HPA sample id	Age	Sex
adipose tissue	86	80	Female
adipose tissue	137	57	Female
adipose tissue	115	45	Female
adipose tissue	329	74	Female
adipose tissue	331	59	Female
adrenal gland	87	62	Female
adrenal gland	88	36	Female
adrenal gland	89	63	Female
appendix	92	26	Male
appendix	93	37	Female
appendix	94	53	Female
bone marrow	97	N/A	Female
bone marrow	98	68	Male
bone marrow	99	8	Female
bone marrow	100	64	Male
breast	390	80	Female
breast	405	47	Female
breast	373	52	Female
breast	410	38	Female
cerebral cortex	48	5	Male
cerebral cortex	105	40	Female
cerebral cortex	106	70	Male
cervix	374	44	Female
cervix	383	53	Female
choroid plexus	3666	76	Male
choroid plexus	3667	67	Female
colon	67	54	Male
colon	76	68	Female
colon	68	57	Female
colon	69	80	Male
colon	70	68	Male
colon	391	69	Female
colon	384	80	Male
colon	381	84	Male
colon	368	78	Female
colon	403	72	Female
colon	389	78	Female
colon	299	61	Female
colon	300	80	Male
duodenum	120	77	Female
duodenum	121	68	Male
endometrium	113	34	Female
endometrium	114	56	Female
endometrium	268	40	Female
endometrium	297	60	Female
endometrium	301	83	Female
epididymis	407	69	Male
esophagus	130	70	Female
esophagus	131	38	Male
esophagus	132	76	Male
fallopian tube	136	66	Female
fallopian tube	304	65	Female
fallopian tube	305	41	Female
fallopian tube	306	44	Female
fallopian tube	307	80	Female
gallbladder	140	60	Male
gallbladder	141	74	Male
gallbladder	142	56	Female
heart muscle	149	48	Female
heart muscle	150	42	Female
heart muscle	151	53	Male
heart muscle	152	69	Female
kidney	358	57	Female
kidney	414	48	Female
kidney	377	78	Male
kidney	380	73	Male
kidney	55	58	Female
kidney	56	67	Female
kidney	57	55	Female
kidney	58	46	Male
kidney	394	59	Female
liver	21	60	Female
liver	23	54	Male
liver	24	74	Male
liver	350	62	Female
liver	351	78	Male
liver	352	53	Male
liver	353	77	Male
liver	396	23	Female
liver	367	70	Male
liver	359	72	Female
lung	379	70	Female
lung	164	71	Female
lung	165	57	Male
lung	166	71	Female
lung	167	74	Female
lung	168	73	Female
lung	376	74	Male
lung	406	63	Male
lung	387	75	Female
lymph node	173	34	Male
lymph node	174	29	Female
lymph node	175	61	Female
lymph node	176	83	Female
lymph node	177	52	Female
ovary	3662	7	Female
ovary	3663	16	Female
ovary	3664	20	Female
ovary	3665	32	Female
ovary	192	64	Female
ovary	193	52	Female
ovary	308	80	Female
pancreas	194	59	Female
pancreas	195	60	Male
parathyroid gland	1600	0.1	Female
parathyroid gland	1601	0.1	Male
parathyroid gland	393	68	Female
placenta	398	37	Female
placenta	375	30	Female
placenta	413	36	Female
placenta	385	31	Female
placenta	200	N/A	Female
placenta	202	28	Female
placenta	203	39	Female
placenta	204	31	Female
prostate	59	62	Male
prostate	365	63	Male
prostate	364	66	Male
prostate	412	58	Male
prostate	388	66	Male
prostate	361	60	Male
prostate	205	65	Male
prostate	206	65	Male
prostate	207	68	Male
rectum	333	67	Male
rectum	334	69	Male
rectum	335	82	Male
rectum	338	63	Male
salivary gland	216	68	Female
salivary gland	217	60	Male
salivary gland	218	21	Female
seminal vesicle	404	70	Male
seminal vesicle	386	68	Male
seminal vesicle	409	67	Male
skeletal muscle	339	23	Male
skeletal muscle	340	25	Female
skeletal muscle	341	-	Female
skeletal muscle	342	22	Female
skeletal muscle	343	29	Male
skin	225	34	Female
skin	226	30	Female
skin	227	57	Male
small intestine	232	65	Male
small intestine	233	39	Male
small intestine	234	68	Male
small intestine	235	85	Male
smooth muscle	298	39	Female
smooth muscle	302	49	Female
smooth muscle	330	74	Female
spleen	378	65	Female
spleen	236	60	Female
spleen	237	17	Male
spleen	238	20	Male
spleen	239	19	Female
stomach	61	33	Female
stomach	369	66	Female
stomach	240	82	Male
stomach	241	71	Male
testis	349	51	Male
testis	354	34	Male
testis	371	26	Male
testis	244	56	Male
testis	278	34	Male
testis	279	62	Male
testis	280	34	Male
testis	281	26	Male
testis	282	50	Male
testis	283	37	Male
thymus	1599	0.1	Female
thymus	1602	0.1	Male
thymus	1603	0.1	Male
thyroid gland	363	21	Male
thyroid gland	249	20	Female
thyroid gland	250	55	Female
thyroid gland	251	58	Female
thyroid gland	252	48	Female
tongue	1604	0.1	Male
tonsil	295	19	Female
tonsil	309	23	Male
tonsil	315	20	Female
tonsil	318	32	Male
tonsil	320	20	Male
urinary bladder	1597	0.1	Female
urinary bladder	1598	0.1	Female
urinary bladder	264	74	Male
urinary bladder	265	80	Male

GTEx RNA data

Transcript expression levels from RNA seq summarized per gene in 35 tissues based on 46 tissue subtypes and in the individual tissue subtypes. The tab-separated files includes Ensembl gene identifier, analysed tissue, transcripts per million ("TPM"), protein-transcripts per million ("pTPM") and normalized expression ("nTPM"). The data was obtained from GTEx and is based on The Human Protein Atlas version 24.0 and Ensembl version 109.

rna_tissue_gtex.tsv.zip

rna_tissue_detail_gtex.tsv.zip

Transcript expression levels from RNA seq for 105 retina samples.The tab-separated file includes Ensembl gene identifier, Ensembl transcript identifier, transcript per million ("TPM") and estimated counts of the analysed sample ("sample_name.sample_id"). The data is based on The Human Protein Atlas version 24.0 and Ensembl version 109.

transcript_rna_gtexretina.tsv.zip

GTEx tissues

Download: rna_tissue_gtex_tissues.tsv.zip | 35 lines
Tissue	Organ
adipose tissue	Connective & Soft tissue
adrenal gland	Endocrine tissues
amygdala	Brain
basal ganglia	Brain
breast	Breast and female reproductive system
cerebellum	Brain
cerebral cortex	Brain
cervix	Breast and female reproductive system
colon	Gastrointestinal tract
endometrium	Breast and female reproductive system
esophagus	Proximal digestive tract
fallopian tube	Breast and female reproductive system
heart muscle	Muscle tissues
hippocampal formation	Brain
hypothalamus	Brain
kidney	Kidney & Urinary bladder
liver	Liver & Gallbladder
lung	Respiratory system
midbrain	Brain
ovary	Breast and female reproductive system
pancreas	Pancreas
pituitary gland	Endocrine tissues
prostate	Male reproductive system
retina	Eye
salivary gland	Proximal digestive tract
skeletal muscle	Muscle tissues
skin	Skin
small intestine	Gastrointestinal tract
spinal cord	Brain
spleen	Bone marrow & Lymphoid tissues
stomach	Gastrointestinal tract
testis	Male reproductive system
thyroid gland	Endocrine tissues
urinary bladder	Kidney & Urinary bladder
vagina	Breast and female reproductive system

GTEx tissue subtypes

Download: rna_tissue_detail_gtex_tissues.tsv.zip | 46 lines
Source tissue	Tissue	Organ	Num samples
Adipose - Subcutaneous	adipose tissue	Connective & Soft tissue	663
Adipose - Visceral (Omentum)	adipose tissue	Connective & Soft tissue	541
Adrenal Gland	adrenal gland	Endocrine tissues	258
Bladder	urinary bladder	Kidney & Urinary bladder	21
Brain - Amygdala	amygdala	Brain	152
Brain - Anterior cingulate cortex (BA24)	cerebral cortex	Brain	176
Brain - Caudate (basal ganglia)	caudate	Brain	246
Brain - Cerebellar Hemisphere	cerebellum	Brain	215
Brain - Cerebellum	cerebellum	Brain	241
Brain - Cortex	cerebral cortex	Brain	255
Brain - Frontal Cortex (BA9)	cerebral cortex	Brain	209
Brain - Hippocampus	hippocampus	Brain	197
Brain - Hypothalamus	hypothalamus	Brain	202
Brain - Nucleus accumbens (basal ganglia)	nucleus accumbens	Brain	246
Brain - Putamen (basal ganglia)	putamen	Brain	205
Brain - Spinal cord (cervical c-1)	spinal cord	Brain	159
Brain - Substantia nigra	substantia nigra	Brain	139
Breast - Mammary Tissue	breast	Breast and female reproductive system	459
Cervix - Ectocervix	cervix	Breast and female reproductive system	9
Cervix - Endocervix	cervix	Breast and female reproductive system	10
Colon - Sigmoid	colon	Gastrointestinal tract	373
Colon - Transverse	colon	Gastrointestinal tract	406
Esophagus - Mucosa	esophagus	Proximal digestive tract	555
Fallopian Tube	fallopian tube	Breast and female reproductive system	9
Heart - Atrial Appendage	heart muscle	Muscle tissues	429
Heart - Left Ventricle	heart muscle	Muscle tissues	432
Kidney - Cortex	kidney	Kidney & Urinary bladder	85
Kidney - Medulla	kidney	Kidney & Urinary bladder	4
Liver	liver	Liver & Gallbladder	226
Lung	lung	Respiratory system	578
Minor Salivary Gland	salivary gland	Proximal digestive tract	162
Muscle - Skeletal	skeletal muscle	Muscle tissues	803
Ovary	ovary	Breast and female reproductive system	180
Pancreas	pancreas	Pancreas	328
Pituitary	pituitary gland	Endocrine tissues	283
Prostate	prostate	Male reproductive system	245
Retina	retina	Eye	105
Skin - Not Sun Exposed (Suprapubic)	skin	Skin	604
Skin - Sun Exposed (Lower leg)	skin	Skin	701
Small Intestine - Terminal Ileum	small intestine	Gastrointestinal tract	187
Spleen	spleen	Bone marrow & Lymphoid tissues	241
Stomach	stomach	Gastrointestinal tract	359
Testis	testis	Male reproductive system	361
Thyroid	thyroid gland	Endocrine tissues	653
Uterus - Endometrium	endometrium	Breast and female reproductive system	16
Vagina	vagina	Breast and female reproductive system	156

GTEx tissue samples

15527 GTEx tissue samples: rna_tissue_detail_gtex_samples.tsv.zip

FANTOM RNA data

Transcript expression levels from CAGE data summarized per gene in 46 tissues based on 66 tissue subtypes. The tab-separated file includes Ensembl gene identifier ("Gene"), analysed sample ("Tissue"), tags per million ("Tags per million"), scaled-tags per million ("Scaled tags per million") and normalized expression ("nTPM"). The data was obtained from FANTOM5 and is based on The Human Protein Atlas version24.0 and Ensembl version 109.

rna_tissue_fantom.tsv.zip

rna_tissue_detail_fantom.tsv.zip

FANTOM tissues

Download: rna_tissue_fantom_tissues.tsv.zip | 46 lines
Tissue	Organ
adipose tissue	Connective & Soft tissue
amygdala	Brain
appendix	Bone marrow & Lymphoid tissues
basal ganglia	Brain
breast	Breast and female reproductive system
cerebellum	Brain
cerebral cortex	Brain
cervix	Breast and female reproductive system
colon	Gastrointestinal tract
corpus callosum	Brain
ductus deferens	Male reproductive system
endometrium	Breast and female reproductive system
epididymis	Male reproductive system
esophagus	Proximal digestive tract
gallbladder	Liver & Gallbladder
heart muscle	Muscle tissues
hippocampal formation	Brain
kidney	Kidney & Urinary bladder
liver	Liver & Gallbladder
lung	Respiratory system
lymph node	Bone marrow & Lymphoid tissues
midbrain	Brain
olfactory bulb	Brain
ovary	Breast and female reproductive system
pancreas	Pancreas
pituitary gland	Endocrine tissues
placenta	Breast and female reproductive system
pons	Brain
pons and medulla	Brain
prostate	Male reproductive system
retina	Eye
salivary gland	Proximal digestive tract
seminal vesicle	Male reproductive system
skeletal muscle	Muscle tissues
small intestine	Gastrointestinal tract
smooth muscle	Muscle tissues
spinal cord	Brain
spleen	Bone marrow & Lymphoid tissues
testis	Male reproductive system
thalamus	Brain
thymus	Bone marrow & Lymphoid tissues
thyroid gland	Endocrine tissues
tongue	Proximal digestive tract
tonsil	Bone marrow & Lymphoid tissues
urinary bladder	Kidney & Urinary bladder
vagina	Breast and female reproductive system

FANTOM tissue subtypes

Download: rna_tissue_detail_fantom_tissues.tsv.zip | 66 lines
Source tissue	Tissue	Organ	Num samples
adipose tissue	adipose tissue	Connective & Soft tissue	1
amygdala	amygdala	Brain	1
appendix	appendix	Bone marrow & Lymphoid tissues	1
bladder	urinary bladder	Kidney & Urinary bladder	1
breast	breast	Breast and female reproductive system	1
caudate nucleus	caudate	Brain	1
cerebellum	cerebellum	Brain	2
cervix	cervix	Breast and female reproductive system	1
colon	colon	Gastrointestinal tract	1
corpus callosum	corpus callosum	Brain	1
ductus deferens	ductus deferens	Male reproductive system	1
epididymis	epididymis	Male reproductive system	1
esophagus	esophagus	Proximal digestive tract	1
frontal lobe	frontal lobe	Brain	1
gall bladder	gallbladder	Liver & Gallbladder	1
globus pallidus	globus pallidus	Brain	2
heart	heart muscle	Muscle tissues	1
hippocampus	hippocampus	Brain	2
insula	insular cortex	Brain	1
kidney	kidney	Kidney & Urinary bladder	1
left atrium	heart muscle	Muscle tissues	1
left ventricle	heart muscle	Muscle tissues	1
liver	liver	Liver & Gallbladder	1
locus coeruleus	locus coeruleus	Brain	2
lung	lung	Respiratory system	1
lung - right lower lobe	lung	Respiratory system	1
lymph node	lymph node	Bone marrow & Lymphoid tissues	1
medial frontal gyrus	medial frontal gyrus	Brain	1
medial temporal gyrus	medial temporal gyrus	Brain	2
medulla oblongata	medulla oblongata	Brain	3
nucleus accumbens	nucleus accumbens	Brain	1
occipital cortex	occipital cortex	Brain	1
occipital lobe	occipital lobe	Brain	1
occipital pole	occipital pole	Brain	1
olfactory region	olfactory bulb	Brain	1
ovary	ovary	Breast and female reproductive system	1
pancreas	pancreas	Pancreas	1
paracentral gyrus	paracentral gyrus	Brain	1
parietal lobe	parietal lobe	Brain	3
parotid gland	salivary gland	Proximal digestive tract	1
pituitary gland	pituitary gland	Endocrine tissues	1
placenta	placenta	Breast and female reproductive system	1
pons	pons	Brain	1
postcentral gyrus	postcentral gyrus	Brain	1
prostate	prostate	Male reproductive system	1
putamen	putamen	Brain	1
retina	retina	Eye	1
salivary gland	salivary gland	Proximal digestive tract	1
seminal vesicle	seminal vesicle	Male reproductive system	1
skeletal muscle	skeletal muscle	Muscle tissues	1
skeletal muscle - soleus muscle	skeletal muscle	Muscle tissues	1
small intestine	small intestine	Gastrointestinal tract	1
smooth muscle	smooth muscle	Muscle tissues	1
spinal cord	spinal cord	Brain	2
spleen	spleen	Bone marrow & Lymphoid tissues	1
submaxillary gland	salivary gland	Proximal digestive tract	1
substantia nigra	substantia nigra	Brain	1
temporal lobe	temporal cortex	Brain	1
testis	testis	Male reproductive system	2
thalamus	thalamus	Brain	1
thymus	thymus	Bone marrow & Lymphoid tissues	1
thyroid	thyroid gland	Endocrine tissues	1
tongue	tongue	Proximal digestive tract	1
tonsil	tonsil	Bone marrow & Lymphoid tissues	1
uterus	endometrium	Breast and female reproductive system	1
vagina	vagina	Breast and female reproductive system	1

FANTOM tissue samples

Download: rna_tissue_detail_fantom_samples.tsv.zip | 77 lines
Tissue	FANTOM5 tissue	FANTOM5 sample id	Age	Sex
adipose tissue	adipose tissue	FF:10010-101C1	65,65,76	Mixed
amygdala	amygdala	FF:10151-102I7	76	Female
appendix	appendix	FF:10189-103D9	29	Male
breast	breast	FF:10080-102A8	77	Female
caudate	caudate nucleus	FF:10164-103B2	76	Female
cerebellum	cerebellum	FF:10083-102B2	22-68	Mixed
cerebellum	cerebellum	FF:10166-103B4	76	Female
cervix	cervix	FF:10013-101C4	40,46,57,65	Female
colon	colon	FF:10014-101C5	62,83,84	Mixed
corpus callosum	corpus callosum	FF:10042-101F6	24-68	Mixed
ductus deferens	ductus deferens	FF:10196-103E7	24	Male
endometrium	uterus	FF:10100-102D1	23-63	Female
epididymis	epididymis	FF:10197-103E8	24	Male
esophagus	esophagus	FF:10015-101C6	68,74,75	Mixed
frontal lobe	frontal lobe	FF:10040-101F4	32-61	Mixed
gallbladder	gall bladder	FF:10198-103E9	57	Male
globus pallidus	globus pallidus	FF:10161-103A8	76	Female
globus pallidus	globus pallidus	FF:10175-103C4	60	Female
heart muscle	heart	FF:10016-101C7	70,73,74	Mixed
heart muscle	left ventricle	FF:10078-102A6	73	Female
heart muscle	left atrium	FF:10079-102A7	40	Male
hippocampus	hippocampus	FF:10153-102I9	76	Female
hippocampus	hippocampus	FF:10169-103B7	60	Female
insular cortex	insula	FF:10039-101F3	20-68	Mixed
kidney	kidney	FF:10017-101C8	60,62,63	Female
liver	liver	FF:10018-101C9	64,69,70	Mixed
locus coeruleus	locus coeruleus	FF:10165-103B3	76	Female
locus coeruleus	locus coeruleus	FF:10182-103D2	60	Female
lung	lung	FF:10019-101D1	46,65,94	Mixed
lung	lung - right lower lobe	FF:10075-102A3	29	Male
lymph node	lymph node	FF:10077-102A5	30	Male
medial frontal gyrus	medial frontal gyrus	FF:10150-102I6	76	Female
medial temporal gyrus	medial temporal gyrus	FF:10156-103A3	76	Female
medial temporal gyrus	medial temporal gyrus	FF:10183-103D3	60	Female
medulla oblongata	medulla oblongata	FF:10038-101F2	18-64	Mixed
medulla oblongata	medulla oblongata	FF:10155-103A2	76	Female
medulla oblongata	medulla oblongata	FF:10174-103C3	60	Female
nucleus accumbens	nucleus accumbens	FF:10037-101F1	23-56	Mixed
occipital cortex	occipital cortex	FF:10163-103B1	76	Female
occipital lobe	occipital lobe	FF:10076-102A4	27	Male
occipital pole	occipital pole	FF:10036-101E9	22-68	Mixed
olfactory bulb	olfactory region	FF:10195-103E6	87	Female
ovary	ovary	FF:10020-101D2	47,75,84	Female
pancreas	pancreas	FF:10049-101G4	52	Male
paracentral gyrus	paracentral gyrus	FF:10035-101E8	22-69	Mixed
parietal lobe	parietal lobe	FF:10034-101E7	35-89	Mixed
parietal lobe	parietal lobe	FF:10157-103A4	76	Female
parietal lobe	parietal lobe	FF:10171-103B9	60	Female
pituitary gland	pituitary gland	FF:10162-103A9	76	Female
placenta	placenta	FF:10021-101D3		Female
pons	pons	FF:10033-101E6	18-54	Mixed
postcentral gyrus	postcentral gyrus	FF:10032-101E5	44-52	Mixed
prostate	prostate	FF:10022-101D4	73,79,93	Male
putamen	putamen	FF:10176-103C5	60	Female
retina	retina	FF:10030-101E3	24-65	Mixed
salivary gland	salivary gland	FF:10093-102C3	16-60	Mixed
salivary gland	parotid gland	FF:10199-103F1	23	Male
salivary gland	submaxillary gland	FF:10202-103F4	24	Male
seminal vesicle	seminal vesicle	FF:10201-103F3	24	Male
skeletal muscle	skeletal muscle	FF:10023-101D5	55,79,79	Mixed
skeletal muscle	skeletal muscle - soleus muscle	FF:10282-104F3		Male
small intestine	small intestine	FF:10024-101D6	15,40,85	Mixed
smooth muscle	smooth muscle	FF:10048-101G3	20-68	Male
spinal cord	spinal cord	FF:10159-103A6	76	Female
spinal cord	spinal cord	FF:10181-103D1	60	Female
spleen	spleen	FF:10025-101D7	39,50,70	Male
substantia nigra	substantia nigra	FF:10158-103A5	76	Female
temporal cortex	temporal lobe	FF:10031-101E4	32-61	Mixed
testis	testis	FF:10026-101D8	34,53,86	Male
testis	testis	FF:10096-102C6	14-64	Male
thalamus	thalamus	FF:10154-103A1	76	Female
thymus	thymus	FF:10027-101D9	0.5,0.5,0.83 years old infant	Male
thyroid gland	thyroid	FF:10028-101E1	67,68,78	Mixed
tongue	tongue	FF:10203-103F5	28	Male
tonsil	tonsil	FF:10047-101G2	22-61	Mixed
urinary bladder	bladder	FF:10011-101C2	55,58,79	Mixed
vagina	vagina	FF:10204-103F6	68	Female