Male Donors Male 50-59 Yrs Track Settings
 
GTEx RNA-seq read coverage for male donor samples (50-59 years)

Track collection: GTEx RNA-seq from 371 Male Donors

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 All
Tissue
adiposeSubcut
adiposeVisceral
adrenalGland
arteryAorta
arteryCoronary
arteryTibial
bladder
brainAmygdala
brainAnCinCortex
brainCaudate
brainCerebelHemi
brainCerebellum
brainCortex
brainFrontCortex
brainHippocampus
brainHypothalamus
brainNucAccumbens
brainPutamen
brainSpinalcord
brainSubstanNigra
breastMamTissue
xformedlymphocytes
xformedfibroblasts
colonSigmoid
colonTransverse
esophagusJunction
esophagusMucosa
esophagusMuscular
heartAtrialAppend
heartLeftVentricl
kidneyCortex
liver
lung
minorSalivGland
muscleSkeletal
nerveTibial
pancreas
pituitary
prostate
skinNotExposed
skinExposed
smallIntestine
spleen
stomach
testis
thyroid
wholeBlood
Tissue
All 
Donor














































Donor
GTEX-111CU 50 yrs   GTEX-111CU 50 yrs
GTEX-117YW 50 yrs   GTEX-117YW 50 yrs
GTEX-117YX 50 yrs   GTEX-117YX 50 yrs
GTEX-1192X 50 yrs   GTEX-1192X 50 yrs
GTEX-11DXZ 50 yrs   GTEX-11DXZ 50 yrs
GTEX-11DZ1 50 yrs   GTEX-11DZ1 50 yrs
GTEX-11H98 50 yrs   GTEX-11H98 50 yrs
GTEX-11NUK 50 yrs   GTEX-11NUK 50 yrs
GTEX-11PRG 50 yrs   GTEX-11PRG 50 yrs
GTEX-11UD2 50 yrs   GTEX-11UD2 50 yrs
GTEX-11WQK 50 yrs   GTEX-11WQK 50 yrs
GTEX-12WSC 50 yrs   GTEX-12WSC 50 yrs
GTEX-12WSH 50 yrs   GTEX-12WSH 50 yrs
GTEX-12WSI 50 yrs   GTEX-12WSI 50 yrs
GTEX-12WSL 50 yrs   GTEX-12WSL 50 yrs
GTEX-12ZZW 50 yrs   GTEX-12ZZW 50 yrs
GTEX-13111 50 yrs   GTEX-13111 50 yrs
GTEX-13112 50 yrs   GTEX-13112 50 yrs
GTEX-131XE 50 yrs   GTEX-131XE 50 yrs
GTEX-131XH 50 yrs   GTEX-131XH 50 yrs
GTEX-139T6 50 yrs   GTEX-139T6 50 yrs
GTEX-139YR 50 yrs   GTEX-139YR 50 yrs
GTEX-13CIG 50 yrs   GTEX-13CIG 50 yrs
GTEX-13FHP 50 yrs   GTEX-13FHP 50 yrs
GTEX-13FLV 50 yrs   GTEX-13FLV 50 yrs
GTEX-13FLW 50 yrs   GTEX-13FLW 50 yrs
GTEX-13FXS 50 yrs   GTEX-13FXS 50 yrs
GTEX-13NZ9 50 yrs   GTEX-13NZ9 50 yrs
GTEX-13O21 50 yrs   GTEX-13O21 50 yrs
GTEX-13O3P 50 yrs   GTEX-13O3P 50 yrs
GTEX-13O3Q 50 yrs   GTEX-13O3Q 50 yrs
GTEX-13OVL 50 yrs   GTEX-13OVL 50 yrs
GTEX-13OW6 50 yrs   GTEX-13OW6 50 yrs
GTEX-13OW7 50 yrs   GTEX-13OW7 50 yrs
GTEX-13PVQ 50 yrs   GTEX-13PVQ 50 yrs
GTEX-13QJ3 50 yrs   GTEX-13QJ3 50 yrs
GTEX-13VXU 50 yrs   GTEX-13VXU 50 yrs
GTEX-13W46 50 yrs   GTEX-13W46 50 yrs
GTEX-13X6J 50 yrs   GTEX-13X6J 50 yrs
GTEX-144FL 50 yrs   GTEX-144FL 50 yrs
GTEX-144GL 50 yrs   GTEX-144GL 50 yrs
GTEX-144GN 50 yrs   GTEX-144GN 50 yrs
GTEX-145LU 50 yrs   GTEX-145LU 50 yrs
GTEX-145LV 50 yrs   GTEX-145LV 50 yrs
GTEX-145MF 50 yrs   GTEX-145MF 50 yrs
GTEX-145MG 50 yrs   GTEX-145MG 50 yrs
GTEX-145MH 50 yrs   GTEX-145MH 50 yrs
GTEX-147F4 50 yrs   GTEX-147F4 50 yrs
GTEX-14ABY 50 yrs   GTEX-14ABY 50 yrs
GTEX-14BIL 50 yrs   GTEX-14BIL 50 yrs
GTEX-14BMV 50 yrs   GTEX-14BMV 50 yrs
GTEX-14C38 50 yrs   GTEX-14C38 50 yrs
GTEX-14DAR 50 yrs   GTEX-14DAR 50 yrs
GTEX-14E1K 50 yrs   GTEX-14E1K 50 yrs
GTEX-14E6D 50 yrs   GTEX-14E6D 50 yrs
GTEX-NL4W 50 yrs   GTEX-NL4W 50 yrs
GTEX-O5YW 50 yrs   GTEX-O5YW 50 yrs
GTEX-OHPM 50 yrs   GTEX-OHPM 50 yrs
GTEX-OIZG 50 yrs   GTEX-OIZG 50 yrs
GTEX-OIZH 50 yrs   GTEX-OIZH 50 yrs
GTEX-OXRL 50 yrs   GTEX-OXRL 50 yrs
GTEX-OXRN 50 yrs   GTEX-OXRN 50 yrs
GTEX-PLZ5 50 yrs   GTEX-PLZ5 50 yrs
GTEX-PSDG 50 yrs   GTEX-PSDG 50 yrs
GTEX-QDVJ 50 yrs   GTEX-QDVJ 50 yrs
GTEX-QDVN 50 yrs   GTEX-QDVN 50 yrs
GTEX-QEL4 50 yrs   GTEX-QEL4 50 yrs
GTEX-QMR6 50 yrs   GTEX-QMR6 50 yrs
GTEX-QMRM 50 yrs   GTEX-QMRM 50 yrs
GTEX-QV44 50 yrs   GTEX-QV44 50 yrs
GTEX-QXCU 50 yrs   GTEX-QXCU 50 yrs
GTEX-R55D 50 yrs   GTEX-R55D 50 yrs
GTEX-R55F 50 yrs   GTEX-R55F 50 yrs
GTEX-RM2N 50 yrs   GTEX-RM2N 50 yrs
GTEX-RN64 50 yrs   GTEX-RN64 50 yrs
GTEX-RUSQ 50 yrs   GTEX-RUSQ 50 yrs
GTEX-RVPU 50 yrs   GTEX-RVPU 50 yrs
GTEX-S3XE 50 yrs   GTEX-S3XE 50 yrs
GTEX-S7SE 50 yrs   GTEX-S7SE 50 yrs
GTEX-SIU7 50 yrs   GTEX-SIU7 50 yrs
GTEX-SIU8 50 yrs   GTEX-SIU8 50 yrs
GTEX-T2YK 50 yrs   GTEX-T2YK 50 yrs
GTEX-T6MN 50 yrs   GTEX-T6MN 50 yrs
GTEX-TKQ2 50 yrs   GTEX-TKQ2 50 yrs
GTEX-TMKS 50 yrs   GTEX-TMKS 50 yrs
GTEX-U3ZG 50 yrs   GTEX-U3ZG 50 yrs
GTEX-UJMC 50 yrs   GTEX-UJMC 50 yrs
GTEX-UPJH 50 yrs   GTEX-UPJH 50 yrs
GTEX-V1D1 50 yrs   GTEX-V1D1 50 yrs
GTEX-VUSG 50 yrs   GTEX-VUSG 50 yrs
GTEX-WCDI 50 yrs   GTEX-WCDI 50 yrs
GTEX-WHPG 50 yrs   GTEX-WHPG 50 yrs
GTEX-WHSB 50 yrs   GTEX-WHSB 50 yrs
GTEX-WHWD 50 yrs   GTEX-WHWD 50 yrs
GTEX-WK11 50 yrs   GTEX-WK11 50 yrs
GTEX-WL46 50 yrs   GTEX-WL46 50 yrs
GTEX-WVJS 50 yrs   GTEX-WVJS 50 yrs
GTEX-WVLH 50 yrs   GTEX-WVLH 50 yrs
GTEX-WWTW 50 yrs   GTEX-WWTW 50 yrs
GTEX-WY7C 50 yrs   GTEX-WY7C 50 yrs
GTEX-WYJK 50 yrs   GTEX-WYJK 50 yrs
GTEX-X261 50 yrs   GTEX-X261 50 yrs
GTEX-X4LF 50 yrs   GTEX-X4LF 50 yrs
GTEX-X585 50 yrs   GTEX-X585 50 yrs
GTEX-X62O 50 yrs   GTEX-X62O 50 yrs
GTEX-XBEC 50 yrs   GTEX-XBEC 50 yrs
GTEX-XGQ4 50 yrs   GTEX-XGQ4 50 yrs
GTEX-XOTO 50 yrs   GTEX-XOTO 50 yrs
GTEX-XPVG 50 yrs   GTEX-XPVG 50 yrs
GTEX-XQ8I 50 yrs   GTEX-XQ8I 50 yrs
GTEX-XUYS 50 yrs   GTEX-XUYS 50 yrs
GTEX-XXEK 50 yrs   GTEX-XXEK 50 yrs
GTEX-Y111 50 yrs   GTEX-Y111 50 yrs
GTEX-Y3I4 50 yrs   GTEX-Y3I4 50 yrs
GTEX-YEC3 50 yrs   GTEX-YEC3 50 yrs
GTEX-YF7O 50 yrs   GTEX-YF7O 50 yrs
GTEX-Z93S 50 yrs   GTEX-Z93S 50 yrs
GTEX-Z93T 50 yrs   GTEX-Z93T 50 yrs
GTEX-ZAB5 50 yrs   GTEX-ZAB5 50 yrs
GTEX-ZDYS 50 yrs   GTEX-ZDYS 50 yrs
GTEX-ZEX8 50 yrs   GTEX-ZEX8 50 yrs
GTEX-ZG7Y 50 yrs   GTEX-ZG7Y 50 yrs
GTEX-ZT9W 50 yrs   GTEX-ZT9W 50 yrs
GTEX-ZTTD 50 yrs   GTEX-ZTTD 50 yrs
GTEX-ZV7C 50 yrs   GTEX-ZV7C 50 yrs
GTEX-ZVE2 50 yrs   GTEX-ZVE2 50 yrs
GTEX-ZVP2 50 yrs   GTEX-ZVP2 50 yrs
GTEX-ZVZP 50 yrs   GTEX-ZVZP 50 yrs
GTEX-ZY6K 50 yrs   GTEX-ZY6K 50 yrs
GTEX-ZYFC 50 yrs   GTEX-ZYFC 50 yrs
GTEX-ZYFD 50 yrs   GTEX-ZYFD 50 yrs
GTEX-ZZPT 50 yrs   GTEX-ZZPT 50 yrs
Donor














































Donor
 All
Tissue
adiposeSubcut
adiposeVisceral
adrenalGland
arteryAorta
arteryCoronary
arteryTibial
bladder
brainAmygdala
brainAnCinCortex
brainCaudate
brainCerebelHemi
brainCerebellum
brainCortex
brainFrontCortex
brainHippocampus
brainHypothalamus
brainNucAccumbens
brainPutamen
brainSpinalcord
brainSubstanNigra
breastMamTissue
xformedlymphocytes
xformedfibroblasts
colonSigmoid
colonTransverse
esophagusJunction
esophagusMucosa
esophagusMuscular
heartAtrialAppend
heartLeftVentricl
kidneyCortex
liver
lung
minorSalivGland
muscleSkeletal
nerveTibial
pancreas
pituitary
prostate
skinNotExposed
skinExposed
smallIntestine
spleen
stomach
testis
thyroid
wholeBlood
Tissue
All 
Select subtracks further by: (select multiple categories and items - Help)
Age:

List subtracks: only selected/visible    all    ()
  Tissue↓1 ↓2 Age↓3 Donor↓4   Track Name↓5  
 
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 Configure 		 adiposeSubcut      50-59  GTEX-13OW6 50 yrs  GTEx RNA signal from male Adipose - Subcutaneous (GTEX-13OW6-0526-SM-5L3HY)    Data format 
 
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 Configure 		 adiposeVisceral      50-59  GTEX-13OW6 50 yrs  GTEx RNA signal from male Adipose - Visceral (Omentum) (GTEX-13OW6-2426-SM-5K7WO)    Data format 
 
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 Configure 		 arteryAorta      50-59  GTEX-13OW6 50 yrs  GTEx RNA signal from male Artery - Aorta (GTEX-13OW6-1526-SM-5L3HX)    Data format 
 
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 Configure 		 arteryTibial      50-59  GTEX-13OW6 50 yrs  GTEx RNA signal from male Artery - Tibial (GTEX-13OW6-0326-SM-5L3H9)    Data format 
 
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 Configure 		 brainAmygdala      50-59  GTEX-13OW6 50 yrs  GTEx RNA signal from male Brain - Amygdala (GTEX-13OW6-0011-R4a-SM-5O9DX)    Data format 
 
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 Configure 		 brainCerebelHemi      50-59  GTEX-13OW6 50 yrs  GTEx RNA signal from male Brain - Cerebellar Hemisphere (GTEX-13OW6-0011-R11a-SM-5L3H2)    Data format 
 
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 Configure 		 brainCerebellum      50-59  GTEX-13OW6 50 yrs  GTEx RNA signal from male Brain - Cerebellum (GTEX-13OW6-2926-SM-5KM29)    Data format 
 
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 Configure 		 brainCortex      50-59  GTEX-13OW6 50 yrs  GTEx RNA signal from male Brain - Cortex (GTEX-13OW6-3026-SM-5J2MI)    Data format 
 
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 Configure 		 brainFrontCortex      50-59  GTEX-13OW6 50 yrs  GTEx RNA signal from male Brain - Frontal Cortex (BA9) (GTEX-13OW6-0011-R10a-SM-5L3HE)    Data format 
 
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 Configure 		 brainHippocampus      50-59  GTEX-13OW6 50 yrs  GTEx RNA signal from male Brain - Hippocampus (GTEX-13OW6-0011-R1a-SM-5L3HQ)    Data format 
 
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 Configure 		 brainHypothalamus      50-59  GTEX-13OW6 50 yrs  GTEx RNA signal from male Brain - Hypothalamus (GTEX-13OW6-0011-R8a-SM-5L3GF)    Data format 
 
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 Configure 		 brainPutamen      50-59  GTEX-13OW6 50 yrs  GTEx RNA signal from male Brain - Putamen (basal ganglia) (GTEX-13OW6-0011-R7b-SM-5L3H4)    Data format 
 
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 Configure 		 brainSubstanNigra      50-59  GTEX-13OW6 50 yrs  GTEx RNA signal from male Brain - Substantia nigra (GTEX-13OW6-0011-R2a-SM-5L3HG)    Data format 
 
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 Configure 		 colonSigmoid      50-59  GTEX-13OW6 50 yrs  GTEx RNA signal from male Colon - Sigmoid (GTEX-13OW6-2226-SM-5N9FL)    Data format 
 
hide
 Configure 		 esophagusJunction      50-59  GTEX-13OW6 50 yrs  GTEx RNA signal from male Esophagus - Gastroesophageal Junction (GTEX-13OW6-1626-SM-5IJD5)    Data format 
 
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 Configure 		 esophagusMuscular      50-59  GTEX-13OW6 50 yrs  GTEx RNA signal from male Esophagus - Muscularis (GTEX-13OW6-1426-SM-5L3EU)    Data format 
 
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 Configure 		 heartLeftVentricl      50-59  GTEX-13OW6 50 yrs  GTEx RNA signal from male Heart - Left Ventricle (GTEX-13OW6-1126-SM-5L3HL)    Data format 
 
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 Configure 		 kidneyCortex      50-59  GTEX-13OW6 50 yrs  GTEx RNA signal from male Kidney - Cortex (GTEX-13OW6-1826-SM-5N9F9)    Data format 
 
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 Configure 		 liver      50-59  GTEX-13OW6 50 yrs  GTEx RNA signal from male Liver (GTEX-13OW6-2626-SM-5IFF2)    Data format 
 
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 Configure 		 lung      50-59  GTEX-13OW6 50 yrs  GTEx RNA signal from male Lung (GTEX-13OW6-0826-SM-5L3GA)    Data format 
 
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 Configure 		 muscleSkeletal      50-59  GTEX-13OW6 50 yrs  GTEx RNA signal from male Muscle - Skeletal (GTEX-13OW6-0626-SM-5L3IB)    Data format 
 
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 Configure 		 nerveTibial      50-59  GTEX-13OW6 50 yrs  GTEx RNA signal from male Nerve - Tibial (GTEX-13OW6-0226-SM-5J1NB)    Data format 
 
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 Configure 		 pituitary      50-59  GTEX-13OW6 50 yrs  GTEx RNA signal from male Pituitary (GTEX-13OW6-3126-SM-5L3IA)    Data format 
 
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 Configure 		 skinExposed      50-59  GTEX-13OW6 50 yrs  GTEx RNA signal from male Skin - Sun Exposed (Lower leg) (GTEX-13OW6-0426-SM-5L3HM)    Data format 
 
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 Configure 		 skinNotExposed      50-59  GTEX-13OW6 50 yrs  GTEx RNA signal from male Skin - Not Sun Exposed (Suprapubic) (GTEX-13OW6-2726-SM-5J2OE)    Data format 
 
hide
 Configure 		 thyroid      50-59  GTEX-13OW6 50 yrs  GTEx RNA signal from male Thyroid (GTEX-13OW6-0726-SM-5L3FX)    Data format 
    
Assembly: Human Dec. 2013 (GRCh38/hg38)

Description

The NIH Genotype-Tissue Expression (GTEX) project was created to establish a sample and data resource for studies on the relationship between genetic variation and gene expression in multiple human tissues. This track hub shows RNA-seq read coverage signal graphs of GTEx samples in the GTEx midpoint milestone data release (V6, October 2015). A total of 7572 tracks representing samples from 570 adult post-mortem individuals are included.

Display Conventions

The individual sample tracks are organized by gender (Female Donors, Male Donors) and age, in 6 tracks, where samples can be selected from a donor vs. tissue matrix.

  • Female 20-49 yrs
  • Female 50-59 yrs
  • Female 60-69 yrs
  • Male 20-49 yrs
  • Male 50-59 yrs
  • Male 60-69 yrs
An alternative organization is provided by the 'By Tissues' supertrack set, which consists of a track containing all samples for each of the 53 tissues, with a selection matrix of donor gender and age.

Methods

Tissue samples were obtained using the GTEx standard operating procedures for informed consent and tissue collection, in conjunction with the National Cancer Institute Biorepositories and Biospecimen. All tissue specimens were reviewed by pathologists to characterize and verify organ source. Images from stained tissue samples can be viewed via the NCI histopathology viewer. The Qiagen PAXgene non-formalin tissue preservation product was used to stabilize tissue specimens without cross-linking biomolecules.

The Illumina TruSeq protocol was used to create an unstranded polyA+ library sequenced on the Illumina HiSeq 2000 platform to produce 76-bp paired end reads at a depth averaging 50M aligned reads per sample.

Sequence reads for this track were aligned to the hg38/GRCh38 human genome using STAR2 assisted by the GENCODE v24 transcriptome definition. The read coverage signal graphs were produced using the --outWig option of STAR2. Read mapping was performed at UCSC by the Computational Genomics lab, using the Toil pipeline. The resulting bedGraph files were converted to bigWig format for display. The bedGraph files were coordinate converted to the hg19/GRCh37 assembly via the UCSC liftOver tool.

Subject and Sample Characteristics

The scientific goal of the GTEx project required that the donors and their biospecimen present with no evidence of disease. The tissue types collected were chosen based on their clinical significance, logistical feasibility and their relevance to the scientific goal of the project and the research community. Postmortem samples were collected from non-diseased donors with ages ranging from 20 to 79. 34.4% of donors were female and 65.6% male.

Additional summary plots of GTEx sample characteristics are available at the GTEx Portal Tissue Summary page.

Credits

Samples were collected by the GTEx Consortium. RNA-seq was performed by the GTEx Laboratory, Data Analysis and Coordinating Center (LDACC) at the Broad Institute. John Vivian, Melissa Cline, and Benedict Paten of the UCSC Computational Genomics lab were responsible for the sequence read mapping and signal file generation used to produce this hub. Kate Rosenbloom and Parisa Nejad of the UCSC Genome Browser group were responsible for data file post-processing and track hub configuration.

Contacts

For questions about the GTEx data, contact the GTEx LDACC at the Broad Institute. For questions about this track hub, contact the UCSC Genome Browser mailing list.

References

GTEx Consortium. The Genotype-Tissue Expression (GTEx) project. Nat Genet. 2013 Jun;45(6):580-5. PMID: 23715323; PMC: PMC4010069

Carithers LJ, Ardlie K, Barcus M, Branton PA, Britton A, Buia SA, Compton CC, DeLuca DS, Peter-Demchok J, Gelfand ET et al. A Novel Approach to High-Quality Postmortem Tissue Procurement: The GTEx Project. Biopreserv Biobank. 2015 Oct;13(5):311-9. PMID: 26484571; PMC: PMC4675181

Melé M, Ferreira PG, Reverter F, DeLuca DS, Monlong J, Sammeth M, Young TR, Goldmann JM, Pervouchine DD, Sullivan TJ et al. Human genomics. The human transcriptome across tissues and individuals. Science. 2015 May 8;348(6235):660-5. PMID: 25954002; PMC: PMC4547472

DeLuca DS, Levin JZ, Sivachenko A, Fennell T, Nazaire MD, Williams C, Reich M, Winckler W, Getz G. RNA-SeQC: RNA-seq metrics for quality control and process optimization. Bioinformatics. 2012 Jun 1;28(11):1530-2. PMID: 22539670; PMC: PMC3356847