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Sample description
Sample ID: 5163
Anatomical region: abdominal cavity
Organ system: urinary system
Term: kidney
Sub-term: kidney medulla
Sampling: 2018-03-05 / provided by Lohi lab
Transport media: RNAlater
Additional info:
From subject: WLF001
Breed (variant): Wolf
Sex: Male
Age: 12y 9m
Steril./Castr.: No
Reports:  Necropsy report 
WGS ID: WLF001A1, BioProject PRJNA907518, SRR22520743
Additional info: Ranua Wildlife Park
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
421 2018-06-04 5163 (25.6.2018) 281.0 (QUBIT) 2 mm3 30 3055.0 QIAGEN RNeasy Mini Kit 9.50 2.12 2.0
 
Applied assays   
STRT2-seq
 
Technical replicate [1638]
Other ID Platform Instrument Paired end Seq. date Strand mode Max. read length Chemistry version Laboratory Comments
STRT2_FP15_8 Illumina NextSeq 550 No Aug. 15, 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_FP15_8  SDID_002081_STRT2_FP15_8_canine_mapped.bam SDID_002080_STRT2_FP15_8_canine_mapped.fq.gz CanFam3.1 3.0
STRT2_FP15_8  SDID_002080_STRT2_FP15_8_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_FP15_8 134,239 1,005,189 59.00