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BETA
  • SUMMARY

  • TISSUE

  • BRAIN

  • SINGLE CELL

  • IMMUNE

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  • RPL5
EVOLUTIONARY SUBSTANTIA NIGRA Show tissue menu
BRAIN35 EYE3 ENDOCRINE TISSUES5 RESPIRATORY SYSTEM6 PROXIMAL DIGESTIVE TRACT5 GASTROINTESTINAL TRACT10 LIVER & GALLBLADDER2 PANCREAS1 KIDNEY & URINARY BLADDER4 MALE REPRODUCTIVE SYSTEM8 BREAST & FEMALE REPRODUCTIVE SYSTEM7 MUSCLE & VASCULAR TISSUE11 CONNECTIVE & SOFT TISSUE11 SKIN3 BONE MARROW & LYMPHOID TISSUES6
Select an organ to show its tissues
AMYGDALA BASAL GANGLIA CAUDATE NUCLEUS CEREBELLUM CEREBRAL CORTEX CHOROID PLEXUS CINGULATE CORTEX CORPUS CALLOSUM DORSAL HIPPOCAMPUS DORSAL SPINAL CORD ENTORHINAL CORTEX HIPPOCAMPAL FORMATION
HYPOTHALAMUS INSULAR CORTEX MEDULLA OBLONGATA MIDBRAIN MOTOR CORTEX OCCIPITAL CORTEX OLFACTORY BULB PERIAQUEDUCTAL GRAY PONS PREFRONTAL CORTEX PUTAMEN RETROSPLENIAL CORTEX
SEPTUM SOMATOSENSORY CORTEX SPINAL CORD SUBICULUM SUBSTANTIA NIGRA SUPERIOR COLLICULI TEMPORAL CORTEX THALAMUS VENTRAL HIPPOCAMPUS VENTRAL PALLIDUM VENTRAL SPINAL CORD
CORNEA LENS RETINA
ADRENAL GLAND PARATHYROID GLAND PINEAL GLAND PITUITARY GLAND THYROID GLAND
BRONCHUS LARYNX LUNG NASOPHARYNX OLFACTORY EPITHELIUM TRACHEA
ESOPHAGUS LIP ORAL MUCOSA SALIVARY GLAND TONGUE
CECUM COLON DUODENUM ILEUM JEJUNUM RECTUM SMALL INTESTINE STOMACH STOMACH (LOWER) STOMACH (UPPER)
GALLBLADDER LIVER
PANCREAS
KIDNEY KIDNEY (CORTEX) KIDNEY (MEDULLA) URINARY BLADDER
BULBOURETHRAL GLAND DUCTUS DEFERENS EPIDIDYMIS PENIS PROSTATE SEMINAL VESICLE TESTIS URETHRAL GLAND
BREAST CERVIX ENDOMETRIUM FALLOPIAN TUBE OVARY PLACENTA VAGINA
AORTA BLOOD VESSEL HEART ATRIUM HEART MUSCLE HEART VALVE HEART WALL PERIPHERAL VASCULATURE SKELETAL MUSCLE SMOOTH MUSCLE SMOOTH MUSCLE (INTESTINE) SMOOTH MUSCLE (UTERUS)
ABDOMINAL ADIPOSE TISSUE ADIPOSE TISSUE DURA MATER EAR CARTILAGE JOINT CARTILAGE ORBITAL ADIPOSE TISSUE PERITONEUM PLEURA SUBCUTANEOUS ADIPOSE TISSUE SYNOVIAL TISSUE VAGUS NERVE
SKIN SKIN (BACK) SKIN (GROIN)
APPENDIX BONE MARROW LYMPH NODE SPLEEN THYMUS TONSIL
HumanMacaqueMouseRatPig
Protein evolution
Brain
Evolutionary methods
SUBSTANTIA NIGRA - Expression summary
Protein expressioni

On the top, protein expression in current human tissue, based on all annotated cell types, is reported with the units not detected (n), low (l), medium (m) and high (h). Underneath, protein expression in each annotated cell type are reported using the same units. Protein expression data is based on knowledge-based annotation. For genes where more than one antibody has been used, a collective score is set. If knowledge-based annotation could not be performed for a gene, no data is displayed here. View antibody staining data further down this page.

No data
RNA expressioni

A summary of mRNA expression data available for current tissue based on several datasets. The mRNA expression levels in human tissues are based on RNA-seq data generated by the Human Protein Atlas HPA, Genotype-Tissue Expression GTEx portal and CAGE data generated by the FANTOM5 consortium. Consensus normalized expression levels for human tissues was created by combining the data from HPA and GTEx datasets. The mRNA expression levels in pig brain are based on RNA-seq data generated by the Human Protein Atlas, and for mouse brain HPA data and in situ hybridization generated by the Allen brain atlas dataset are reported.

Scroll down to view mRNA expression data in more detail.

HPA Brain:217.4 nTPM
GTEx:709.0 nTPM
FANTOM5:539.0 Scaled Tags Per Million
Pig:0.0 nTPM
BRAIN - SINGLE CELL RNA EXPRESSION
Explore single cell type data

SUBSTANTIA NIGRA - HPA Brain RNA-seq
Max subtype nTPMi

Max subtype nTPM is the value for the subtype with the largest average nTPM across the subtype samples.

217.4
Sample id Sample description nTPM
Substantia nigra
nTPM: 217.4
2699 Male, age 18, unknown 257.0
2665 Male, age 74, both hemispheres 254.4
1851 Male, age 51, unknown 246.0
2241 Male, age 72, unknown 236.5
2590 Female, age 75, unknown 216.2
1916 Female, age 42, unknown 204.3
1889 Female, age 72, unknown 201.4
2409 Female, age 72, unknown 195.3
2583 Male, age 75, right hemisphere 187.1
1941 Male, age 53, unknown 175.7

SUBSTANTIA NIGRA - GTEx RNA-seqi

RNA-Seq data generated by the Genotype-Tissue Expression (GTEx) project from human tissues is reported as mean nTPM. More information can be found on the GTEx portal.

Distribution across the dataset is visualized with box plots, shown as median and 25th and 75th percentiles. Points are displayed as outliers if they are above or below 1.5 times the interquartile range. nTPM values of the individual samples are presented next to the box plot.

Max subtype nTPMi

Max subtype nTPM is the value for the subtype with the largest average nTPM across the subtype samples.

709.0
GTEx sample id Sample description nTPM
Brain - Substantia nigra
Average nTPM: 709.0
Samples: 183

Max nTPM: 1435.8
Min nTPM: 252.1
Std nTPM: 213.8
Median nTPM: 689.3
GTEX-1F75B-0011-R2a-SM-ARL8I 50-59 years, male 1435.8
GTEX-1O9I2-0011-R2b-SM-F3K53 50-59 years, male 1333.8
GTEX-1LVA9-0011-R2a-SM-EZ6MJ 50-59 years, male 1318.3
GTEX-1IGQW-0011-R2b-SM-D4P26 60-69 years, male 1313.3
GTEX-1H1ZS-0011-R2b-SM-CL54Q 70-79 years, male 1299.1
GTEX-1RLM8-0011-R2a-SM-EZ6N4 50-59 years, male 1164.3
GTEX-12WSH-0011-R2a-SM-5GU68 50-59 years, male 1122.1
GTEX-1117F-0011-R2b-SM-GI4VL 60-69 years, female 1117.5
GTEX-RN5K-0011-R2A-SM-GQ1CA 50-59 years, female 1110.6
GTEX-ZV68-0011-R2a-SM-4YCDK 50-59 years, female 1063.1
GTEX-1I19N-0011-R2b-SM-GPRYG 70-79 years, male 1055.0
GTEX-1N5O9-0011-R2a-SM-G8LM1 60-69 years, male 1044.1
GTEX-1A8G7-0011-R2a-SM-7IGQI 60-69 years, male 1043.5
GTEX-1MCQQ-0011-R2a-SM-F649V 60-69 years, male 1031.7
GTEX-11GS4-0011-R2a-SM-DO942 60-69 years, male 1022.7
GTEX-1HBPH-0011-R2a-SM-GQ1DS 40-49 years, female 1019.4
GTEX-1LVAO-0011-R2a-SM-EYYX1 60-69 years, male 1014.9
GTEX-11EMC-0011-R2b-SM-DO114 60-69 years, female 1011.8
GTEX-YJ89-0011-R2b-SM-4RGLT 60-69 years, male 1011.4
GTEX-1JMQK-0011-R2a-SM-EYYXQ 60-69 years, male 1007.3
GTEX-R55E-0011-R2A-SM-EYYV9 20-29 years, male 1002.3
GTEX-1R9K4-0011-R2b-SM-G8LLF 60-69 years, male 988.7
GTEX-ZAJG-0011-R2a-SM-GNTAX 50-59 years, female 981.6
GTEX-1EU9M-0011-R2b-SM-9QEH7 60-69 years, male 955.4
GTEX-1H3VE-0011-R2a-SM-CE6SA 40-49 years, male 942.4
GTEX-1C6VR-0011-R2a-SM-7RHGZ 60-69 years, male 939.5
GTEX-1LKK1-0011-R2b-SM-G8OLT 50-59 years, female 938.0
GTEX-1F48J-0011-R2a-SM-CL535 50-59 years, female 936.1
GTEX-1KD5A-0011-R2b-SM-G9EPP 50-59 years, male 932.1
GTEX-1HR98-0011-R2a-SM-ARL7A 60-69 years, male 920.8
GTEX-15SHU-0011-R2a-SM-GPRXS 40-49 years, female 911.9
GTEX-OHPN-0011-R2A-SM-2I5FB 60-69 years, female 902.5
GTEX-1GN1U-0011-R2a-SM-CL53A 50-59 years, female 896.2
GTEX-11TUW-0011-R2b-SM-DO92T 60-69 years, male 895.6
GTEX-1PWST-0011-R2b-SM-F3K5I 70-79 years, male 882.6
GTEX-1GN2E-0011-R2a-SM-9WG7D 60-69 years, male 866.8
GTEX-1J8Q2-0011-R2b-SM-EAZ2X 60-69 years, male 865.5
GTEX-1JMQJ-0011-R2a-SM-F6493 50-59 years, male 858.4
GTEX-13OVJ-0011-R2b-SM-5L3GP 50-59 years, female 849.7
GTEX-1LSNL-0011-R2a-SM-EZ6MK 50-59 years, male 847.0
GTEX-1NV5F-0011-R2a-SM-G8LME 60-69 years, female 844.8
GTEX-YFC4-0011-R2a-SM-4V6DZ 40-49 years, female 843.3
GTEX-13CF2-0011-R2a-SM-5L3DC 60-69 years, male 842.2
GTEX-13SLW-0011-R2b-SM-5O9C6 70-79 years, male 841.0
GTEX-1NV8Z-0011-R2b-SM-F648N 60-69 years, male 837.9
GTEX-13PDP-0011-R2b-SM-5O9DH 60-69 years, male 836.4
GTEX-1HSMO-0011-R2a-SM-CL553 60-69 years, male 836.1
GTEX-1H3O1-0011-R2b-SM-CKZOT 60-69 years, male 830.4
GTEX-1I1GS-0011-R2b-SM-CMKHG 60-69 years, male 827.4
GTEX-1LG7Y-0011-R2b-SM-G8LMM 50-59 years, male 826.9
GTEX-12WSA-0011-R2a-SM-57WDK 60-69 years, male 824.7
GTEX-132Q8-0011-R2b-SM-5EQ5Z 60-69 years, male 814.6
GTEX-1LSVX-0011-R2a-SM-G8OL9 60-69 years, male 814.0
GTEX-1GZ2Q-0011-R2b-SM-9OSWO 40-49 years, male 813.6
GTEX-1I1CD-0011-R2a-SM-CM2T3 60-69 years, female 805.7
GTEX-139TS-0011-R2b-SM-5J1MX 60-69 years, male 800.3
GTEX-1192X-0011-R2b-SM-GI4VV 50-59 years, male 790.9
GTEX-XMD1-0011-R2B-SM-4AT5N 60-69 years, male 790.1
GTEX-13OVL-0011-R2b-SM-H65ZN 50-59 years, male 788.4
GTEX-15G19-0011-R2b-SM-H6Q7S 60-69 years, male 784.9
GTEX-1E1VI-0011-R2a-SM-9QEGS 50-59 years, male 784.7
GTEX-13NYB-0011-R2a-SM-5MR3C 40-49 years, male 779.7
GTEX-1H23P-0011-R2a-SM-CKZP3 60-69 years, male 778.4
GTEX-12ZZX-0011-R2a-SM-5EGLG 40-49 years, female 769.9
GTEX-14BIM-0011-R2b-SM-69LQ6 60-69 years, female 764.0
GTEX-1IL2U-0011-R2a-SM-ARU6V 60-69 years, male 762.3
GTEX-16GPK-0011-R2a-SM-GRR1F 60-69 years, male 757.8
GTEX-1IDJH-0011-R2a-SM-GPI9D 70-79 years, male 754.7
GTEX-1LB8K-0011-R2a-SM-EZ6MQ 50-59 years, male 752.7
GTEX-UTHO-0011-R2A-SM-3GIKC 60-69 years, male 750.4
GTEX-ZE9C-0011-R2a-SM-4WKGH 60-69 years, male 750.1
GTEX-1P4AB-0011-R2a-SM-F649K 50-59 years, male 746.3
GTEX-17HG3-0011-R2a-SM-7MGVX 30-39 years, female 736.4
GTEX-1IY9M-0011-R2a-SM-D4P29 60-69 years, male 732.1
GTEX-13X6K-0011-R2b-SM-5P9K3 60-69 years, female 731.4
GTEX-12WSD-0011-R2a-SM-5LZWB 60-69 years, female 727.7
GTEX-1JMPZ-0011-R2a-SM-G8LLS 30-39 years, male 722.3
GTEX-1RDX4-0011-R2b-SM-F649Z 50-59 years, female 721.4
GTEX-1QMI2-0011-R2b-SM-F648R 60-69 years, male 721.3
GTEX-1JJ6O-0011-R2a-SM-EY5ZO 60-69 years, male 720.7
GTEX-11TTK-0011-R2b-SM-GJ3PU 60-69 years, female 717.2
GTEX-1CB4J-0011-R2a-SM-9WG5N 60-69 years, male 712.1
GTEX-1JN1M-0011-R2b-SM-G9EPE 60-69 years, female 710.9
GTEX-13X6I-0011-R2b-SM-5PNWQ 60-69 years, male 707.5
GTEX-1MA7X-0011-R2b-SM-EZ6MT 60-69 years, male 707.5
GTEX-16Z82-0011-R2b-SM-79OK9 60-69 years, male 706.6
GTEX-15RJE-0011-R2b-SM-79OMP 40-49 years, male 699.6
GTEX-1POEN-0011-R2b-SM-G8LLP 30-39 years, female 695.3
GTEX-1H1DG-0011-R2a-SM-ADEIQ 70-79 years, male 694.2
GTEX-1F6IF-0011-R2b-SM-9QEHB 60-69 years, male 692.8
GTEX-1KD4Q-0011-R2a-SM-F649I 40-49 years, male 692.1
GTEX-1B8SG-0011-R2b-SM-79OOT 50-59 years, male 689.3
GTEX-ZYY3-0011-R2a-SM-GNTB2 60-69 years, female 686.5
GTEX-ZDXO-0011-R2b-SM-4WKFG 60-69 years, male 672.2
GTEX-17EVP-0011-R2a-SM-7LG4W 40-49 years, male 668.4
GTEX-11WQC-0011-R2a-SM-DO927 60-69 years, male 667.1
GTEX-131XH-0011-R2b-SM-5DUVY 50-59 years, male 666.6
GTEX-13NYS-0011-R2b-SM-5MR4G 60-69 years, male 661.8
GTEX-12WSF-0011-R2a-SM-5DUVU 70-79 years, male 659.1
GTEX-11ZTS-0011-R2b-SM-5BC75 60-69 years, female 657.3
GTEX-1GMR8-0011-R2a-SM-CE6RD 50-59 years, female 656.9
GTEX-11PRG-0011-R2a-SM-69LQ5 50-59 years, male 656.0
GTEX-1J1OQ-0011-R2b-SM-ARU88 40-49 years, female 654.1
GTEX-T2IS-0011-R2A-SM-32QPF 20-29 years, female 650.8
GTEX-11UD1-0011-R2b-SM-5BC6O 40-49 years, female 647.5
GTEX-15EO6-0011-R2a-SM-6M46R 50-59 years, male 645.6
GTEX-NPJ7-0011-R2a-SM-2I3GF 60-69 years, female 642.4
GTEX-13G51-0011-R2b-SM-5LZXS 60-69 years, male 638.9
GTEX-1KWVE-0011-R2a-SM-G8OLX 30-39 years, male 637.9
GTEX-13QJC-0011-R2b-SM-5PNUN 60-69 years, female 636.3
GTEX-1445S-0011-R2b-SM-5PNUH 60-69 years, male 633.1
GTEX-1RQED-0011-R2a-SM-F3K5T 60-69 years, male 631.2
GTEX-1GTWX-0011-R2b-SM-ADEH5 60-69 years, male 620.0
GTEX-1399T-0011-R2b-SM-5DUXM 60-69 years, male 617.6
GTEX-ZAK1-0011-R2a-SM-GPRX1 50-59 years, female 617.4
GTEX-14C5O-0011-R2a-SM-5ZZV2 60-69 years, male 615.3
GTEX-14PJO-0011-R2a-SM-5ZZVF 60-69 years, male 610.5
GTEX-15DCD-0011-R2b-SM-6LPIE 70-79 years, female 604.0
GTEX-1MJK2-0011-R2b-SM-EXUS5 50-59 years, male 603.3
GTEX-QMR6-0011-R2A-SM-32PKV 50-59 years, male 599.8
GTEX-147GR-0011-R2b-SM-5S2RQ 60-69 years, male 597.8
GTEX-1R9PO-0011-R2a-SM-F2TBH 60-69 years, female 595.6
GTEX-1HFI6-0011-R2a-SM-CMKH5 40-49 years, male 595.1
GTEX-11DZ1-0011-R2a-SM-DNZZM 50-59 years, male 589.3
GTEX-11GSO-0011-R2a-SM-57WDF 60-69 years, male 581.7
GTEX-1EMGI-0011-R2b-SM-9OSVS 60-69 years, male 573.3
GTEX-1HT8W-0011-R2a-SM-CMKH9 30-39 years, male 568.8
GTEX-1N2EE-0011-R2a-SM-F649F 60-69 years, male 563.9
GTEX-T6MN-0011-R2A-SM-32QOW 50-59 years, male 563.6
GTEX-13FXS-0011-R2b-SM-5K7XX 50-59 years, male 562.5
GTEX-XLM4-0011-R2B-SM-4AT5Z 60-69 years, male 560.8
GTEX-1PPGY-0011-R2b-SM-F33YW 60-69 years, male 560.4
GTEX-QDT8-0011-R2A-SM-32PKQ 30-39 years, female 558.9
GTEX-15DYW-0011-R2b-SM-7KUKY 60-69 years, female 558.2
GTEX-13O3O-0011-R2b-SM-5P9H1 60-69 years, female 553.9
GTEX-13OW8-0011-R2a-SM-5L3G2 60-69 years, male 544.9
GTEX-1RQEC-0011-R2b-SM-EY5ZT 60-69 years, male 544.9
GTEX-S7SE-0011-R2A-SM-2XCDC 50-59 years, male 543.7
GTEX-111FC-0011-R2a-SM-GIN8S 60-69 years, male 535.4
GTEX-117XS-0011-R2b-SM-GI4VT 60-69 years, male 532.3
GTEX-12696-0011-R2b-SM-GHWPY 60-69 years, male 527.7
GTEX-1HB9E-0011-R2b-SM-A96RW 50-59 years, male 521.6
GTEX-11NUK-0011-R2a-SM-GINAO 50-59 years, male 516.1
GTEX-1CB4G-0011-R2a-SM-9QEGQ 60-69 years, male 515.8
GTEX-13SLX-0011-R2b-SM-5S2VP 50-59 years, female 515.3
GTEX-1LH75-0011-R2b-SM-EYYWQ 50-59 years, female 515.0
GTEX-1F6I4-0011-R2a-SM-CL536 60-69 years, male 514.4
GTEX-1N2EF-0011-R2b-SM-F6482 60-69 years, male 509.9
GTEX-WL46-0011-R2A-SM-3LK6O 50-59 years, male 507.3
GTEX-ZZPT-0011-R2a-SM-GNTB1 50-59 years, male 505.7
GTEX-1EKGG-0011-R2a-SM-CE6R8 60-69 years, male 502.8
GTEX-11GSP-0011-R2b-SM-9QEGE 60-69 years, female 501.9
GTEX-13N2G-0011-R2a-SM-5MR4Q 60-69 years, male 501.3
GTEX-14PN4-0011-R2a-SM-6EU2Y 50-59 years, male 500.0
GTEX-1A3MX-0011-R2b-SM-7EWFL 60-69 years, male 498.0
GTEX-X585-0011-R2B-SM-46MVF 50-59 years, male 495.5
GTEX-14JG1-0011-R2a-SM-5ZZVE 40-49 years, male 490.0
GTEX-145LS-0011-R2a-SM-5PNZI 60-69 years, female 488.7
GTEX-X4XX-0011-R2A-SM-3P623 60-69 years, male 483.3
GTEX-RU72-0011-R2A-SM-2TF6O 50-59 years, female 478.2
GTEX-14ASI-0011-R2b-SM-5YY9H 60-69 years, male 477.5
GTEX-ZAB4-0011-R2a-SM-4RGNP 40-49 years, male 475.5
GTEX-1PIIG-0011-R2b-SM-F648W 30-39 years, male 474.7
GTEX-QVJO-0011-R2A-SM-2S1QK 60-69 years, female 471.0
GTEX-13RTJ-0011-R2a-SM-5PNW9 60-69 years, male 469.3
GTEX-13O3Q-0011-R2b-SM-5KM3K 50-59 years, male 467.6
GTEX-Z93S-0011-R2a-SM-4RGNG 50-59 years, male 460.5
GTEX-1313W-0011-R2a-SM-5EGLF 50-59 years, female 459.9
GTEX-14BIN-0011-R2a-SM-5S2RJ 50-59 years, female 456.3
GTEX-1IKJJ-0011-R2b-SM-ARZLJ 60-69 years, male 454.2
GTEX-Q2AG-0011-R2A-SM-2HMIT 40-49 years, female 453.6
GTEX-1B996-0011-R2a-SM-7IGON 60-69 years, male 449.5
GTEX-1B933-0011-R2b-SM-7IGNM 50-59 years, female 440.8
GTEX-13OW6-0011-R2a-SM-5L3HG 50-59 years, male 430.3
GTEX-15CHQ-0011-R2b-SM-6AJAD 60-69 years, male 422.6
GTEX-WHSE-0011-R2A-SM-3P5ZL 20-29 years, male 417.1
GTEX-1I1GV-0011-R2a-SM-ARZLF 60-69 years, male 416.3
GTEX-13OW7-0011-R2b-SM-H6Q8E 50-59 years, male 410.3
GTEX-1GN73-0011-R2a-SM-CJI2V 60-69 years, male 399.7
GTEX-1B8L1-0011-R2a-SM-9OSVL 60-69 years, male 368.5
GTEX-15ER7-0011-R2a-SM-6M46O 20-29 years, female 326.0
GTEX-WVLH-0011-R2A-SM-3MJFJ 50-59 years, male 321.7
GTEX-X4EP-0011-R2B-SM-3P625 60-69 years, female 252.1
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SUBSTANTIA NIGRA - FANTOM5 CAGEi

RNA expression in human tissues obtained through Cap Analysis of Gene Expression (CAGE) generated by the FANTOM5 project are reported as Scaled Tags Per Million.

Max subtype Scaled Tags Per Millioni

Max subtype Scaled Tags Per Million is the value for the subtype with the largest average Scaled Tags Per Million across the subtype samples.

539.0
FANTOM5 sample id Sample description Scaled Tags Per Million
Substantia nigra
Scaled Tags Per Million: 539.0
FF:10158-103A5 76 years, female 539.0

SUBSTANTIA NIGRA - Pig RNA-seqi

RNA-seq data obtained from pig brain is reported as nTPM. Normal distribution across the dataset is visualized with box plots, shown as median and 25th and 75th percentiles. Points are displayed as outliers if they are above or below 1.5 times the interquartile range. nTPM values of the individual samples are presented next to the box plot.

Max subtype nTPMi

Max subtype nTPM is the value for the subtype with the largest average nTPM across the subtype samples.

0.0
Pig sample Sample description nTPM
Substantia nigra
nTPM: 0.1
Samples: 3

Max nTPM: 0.1
Min nTPM: 0.0
Sample A Female 0.1
Sample B Female 0.1
Sample C Male 0.0

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