You are logged in as AnonymousUser


 
Sample description
Sample ID: 6614
Anatomical region: all parts
Organ system: all systems
Term: embryo
Sub-term: embryo
Sampling: — / provided by Werch’s Lab
Transport media: Liquid nitrogen
Additional info:
From subject: BD342-4
Breed (variant): Mixed Breed
Sex: Not specified
Age: Not specified
Steril./Castr.: Not specified
Reports:
WGS ID:
Additional info: Embryo. Age about 20-25 days.
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
858 2019-11-29 BD342 #4dil.(TS 5.12.2019) 200.0 (ND) 50 10012.0 QIAGEN RNeasy Mini Kit 9.80 1.94 2.16
 
Applied assays   
STRT2-seq
 
Technical replicate [1721]
Other ID Platform Instrument Paired end Seq. date Strand mode Max. read length Chemistry version Laboratory Comments
STRT2_FP16_37 Illumina NextSeq 550 No Dec. 23, 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_FP16_37  SDID_002160_STRT2_FP16_37_canine_mapped.bam SDID_002159_STRT2_FP16_37_canine_mapped.fq.gz CanFam3.1 3.0
STRT2_FP16_37  SDID_002159_STRT2_FP16_37_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_FP16_37 4,099,596 69.30