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Sample description
Sample ID: 95
Anatomical region: head
Organ system: olfactory system
Term: vomeronasal organ
Sub-term: vomeronasal organ
Sampling: 2017-02-16 / provided by Lohi lab
Transport media: RNAlater
Additional info: Dissection date 16.2.2017
From subject: SLK1048
Breed (variant): Finnish Lapphund
Sex: Female
Age: 6y 6m
Steril./Castr.: Yes
Reports:  Necropsy report   Clinical test results
WGS ID: SLK1048A1, BioProject PRJNA907518, SRR22520749
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
723 2017-03-01 5.SLK1048.24 (6.3) 10.0 (ND) 6 mg 40 400.0 QIAGEN RNeasy Mini Kit 7.60 1.904 0.986 Tissue pooled with sample 96
 
Applied assays   
STRT2-seq
 
Technical replicate [1002]
Other ID Platform Instrument Paired end Seq. date Strand mode Max. read length Chemistry version Laboratory Comments
STRT2_FP11_21 Illumina NextSeq 550 No Oct. 25, 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_FP11_21  STRT2_FP11_21_canine_mapped.bam STRT2_FP11_21_canine_mapped.fq.gz CanFam3.1 3.0
STRT2_FP11_21  STRT2_FP11_21_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_FP11_21 125,116 2,160,752 76.90
Technical replicate [1003]
Other ID Platform Instrument Paired end Seq. date Strand mode Max. read length Chemistry version Laboratory Comments
STRT2_FP1_21 Illumina NextSeq 550 No April 19, 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_FP1_21  STRT2_FP1_21_canine_mapped.bam STRT2_FP1_21_canine_mapped.fq.gz CanFam3.1 3.0
STRT2_FP1_21  STRT2_FP1_21_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_FP1_21 171,460 1,474,785 58.60