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Sample description
Sample ID: 1286
Anatomical region: abdominal cavity
Organ system: endocrine system
Term: adrenal gland
Sub-term: adrenal gland medulla
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
265 2017-04-26 RW356 1286 490.0 (ND) 13 mg 30 14700.0 QIAGEN RNeasy Mini Kit 7.80 2.159 2.188
 
Applied assays   
STRT2-seq
 
Technical replicate [1568]
Other ID Platform Instrument Paired end Seq. date Strand mode Max. read length Chemistry version Laboratory Comments
STRT2_FP14_31 Illumina NextSeq 550 No May 2, 2019 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_FP14_31  SDID_001947_STRT2_FP14_31_canine_mapped.bam SDID_001946_STRT2_FP14_31_canine_mapped.fq.gz CanFam3.1 3.0
STRT2_FP14_31  SDID_001946_STRT2_FP14_31_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_FP14_31 126,271 4,250,930 70.10
Technical replicate [1140]
Other ID Platform Instrument Paired end Seq. date Strand mode Max. read length Chemistry version Laboratory Comments
STRT2_FP6_2 Illumina NextSeq 550 No June 15, 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_FP6_2  STRT2_FP6_2_canine_mapped.bam STRT2_FP6_2_canine_mapped.fq.gz CanFam3.1 3.0
STRT2_FP6_2  STRT2_FP6_2_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_FP6_2 47,072 563,333 62.90