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Sample description
Sample ID: 665
Anatomical region: head
Organ system: eye
Term: inferior oblique extraocular muscle
Sub-term: inferior oblique extraocular muscle
Sampling: 2017-03-06 / provided by Lohi lab
Transport media: RNAlater
Additional info: List of tissues was modified from previous necropsy.
From subject: JPK344
Breed (variant): Swedish Elkhound
Sex: Female
Age: 3y 5m
Steril./Castr.: No
Reports:  Necropsy report   Clinical test results
WGS ID: JPK344A1, BioProject PRJNA907518, SRR22520748
Additional info: Two generalized epileptic seizures.
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
146 2017-04-12 665 31.0 (QUBIT) 25 mg 30 900.0 Not specified 8.60 2.09 0.128 —
 
Applied assays   
STRT2-seq
 
Technical replicate [1206]
Other ID Platform Instrument Paired end Seq. date Strand mode Max. read length Chemistry version Laboratory Comments
STRT2_FP8_33 Illumina NextSeq 550 No Aug. 16, 2018 SR 1x75bp 75bp NextSeq High Output FuGU lab Phi-X spike in added to each STRT2 library for sequencing (20%).
Sequencing information
Sequencing data
Seq. ID Files Derived from Mapped genome Command Freeze version Comments
STRT2_FP8_33  STRT2_FP8_33_canine_mapped.bam STRT2_FP8_33_canine_mapped.fq.gz CanFam3.1 — 3.0 —
STRT2_FP8_33  STRT2_FP8_33_canine_mapped.fq.gz — CanFam3.1 — 3.0 —
 
Sequencing quality data
Other ID Pool name BC reads Spike-in mapped reads Spike-in mapped % Canine mapped reads Canine mapped % Unmapped reads % Comments
STRT2_FP8_33 — — 70,452 — 1,511,952 70.10 — —
 
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
122 2017-04-05 665 260.0 (QUBIT) 35 mg 30 7950.0 Not specified 7.20 2.023 1.779 —
 
Applied assays   
This sample was not sequenced yet.