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Sample description
Sample ID: 2874
Anatomical region: thoracic cavity
Organ system: cardiovascular system
Term: artery
Sub-term: thoracic aorta
Sampling: 2017-10-05 / provided by Lohi lab
Transport media: RNAlater
Additional info: —
From subject: PI153
Breed (variant): German Pinscher
Sex: Female
Age: 1y 5m
Steril./Castr.: No
Reports:  Necropsy report   Clinical test results
WGS ID: PI153A1, BioProject PRJNA907518, SRR22520745
Additional info: —
Study: Study of gene expression across dog tissues
Description: This project will generate the critical resources to better utilize various canine models to advance both dog and human health.
Status / Visibility: Submitted / Public
Publication: The DoGA consortium expression atlas of promoters and genes in 100 canine tissues. Nat. Commun. 2024, 15(1):9082 (PMID: 39433728)
Other IDs: PRJNA907518
Additional info: —
 
Sample processing
RNA extraction
ID Date Bioanalizer ID Stock Conc.
(ng/µl)		 Tissue ammount Sample volume RNA amount
(ng)		 Extraction method RIN Ratio
A260/A280		 Ratio
A260/A230		 Comments
905 2018-01-18 2874 (TS12.2.2020) 99.4 (QUBIT) 2 mm3 30 2550.0 QIAZOL + QIAGEN RNeasy Mini Kit 7.30 2.03 1.12 —
 
Applied assays   
CAGE-seq
 
Technical replicate [1763]
Other ID Platform Instrument Paired end Seq. date Strand mode Max. read length Chemistry version Laboratory Comments
CAGE_L_00202.BC13 Illumina HiSeq 2500 No Aug. 20, 2020 SR 1x50bp 50 bp HiSeq SR Rapid Cluster Kit v2 GD-402-4002 + HiSeq Rapid Duo cBot Sample Loading Kit CT-403-2001 + SBS Clinical Genomics Stockholm
Sequencing information
Sequencing data
Seq. ID Files Derived from Mapped genome Command Freeze version Comments
CAGE_L_00202.BC13  CAGE_L_00202.BC13_qfilter_trimBC.fq.gz — — — 4 —
CAGE_L_00202.BC13  CAGE_L_00202.BC13.sorted.tar.gz CAGE_L_00202.BC13_qfilter_trimBC.fq.gz CanFam4 — 4 —
 
Sequencing quality data
Other ID Pool name BC reads Spike-in mapped reads Spike-in mapped % Canine mapped reads Canine mapped % Unmapped reads % Comments
CAGE_L_00202.BC13 Blood vessel pool 88,672,812 — — 2,559,669 50.00 — —
 
RNA extraction
ID Date Bioanalizer ID Stock Conc.
(ng/µl)		 Tissue ammount Sample volume RNA amount
(ng)		 Extraction method RIN Ratio
A260/A280		 Ratio
A260/A230		 Comments
445 — — — (ND) — — — Not specified — — — —
 
Applied assays   
This sample was not sequenced yet.
RNA extraction
ID Date Bioanalizer ID Stock Conc.
(ng/µl)		 Tissue ammount Sample volume RNA amount
(ng)		 Extraction method RIN Ratio
A260/A280		 Ratio
A260/A230		 Comments
462 — — — (ND) — — — Not specified — — — —
 
Applied assays   
This sample was not sequenced yet.