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Sample description
Sample ID: 1021
Anatomical region: head
Organ system: central nervous system
Term: midbrain
Sub-term: substantia nigra
Sampling: 2017-04-11 / provided by Lohi lab
Transport media: RNAlater
Additional info: —
From subject: RW356
Breed (variant): Rottweiler
Sex: Male
Age: 6y 2m
Steril./Castr.: No
Reports:  Necropsy report   Clinical test results
WGS ID: RW356A1, BioProject PRJNA907518, SRR22520747
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
191 2017-04-25 RW356 1021 260.0 (ND) 23 mg 30 7800.0 QIAGEN RNeasy Mini Kit 7.60 2.109 2.1 —
 
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
385 2017-04-25 RW356 1021 260 (ND) 23 mg 30 7800 QIAZOL + QIAGEN RNeasy Mini Kit 7.60 2.109 2.1 —
 
Applied assays   
STRT2-seq
 
Technical replicate [1067]
Other ID Platform Instrument Paired end Seq. date Strand mode Max. read length Chemistry version Laboratory Comments
STRT2_FP4_10 Illumina NextSeq 550 No May 14, 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_FP4_10  STRT2_FP4_10_canine_mapped.bam STRT2_FP4_10_canine_mapped.fq.gz CanFam3.1 — 3.0 —
STRT2_FP4_10  STRT2_FP4_10_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_FP4_10 — — 161,295 — 1,078,747 65.90 — —