Cell Lines

10x WGS of Livestock Cell Lines Mapped to Cattle

• To view DNA sequence data for a cell line:

  • Download and install a desktop version of IGV

  • Download the ARS-UCD1.2 genome files from Ensemble or here:  [.fa, .gtf, .fai]  

    • Use these files to create a .genome file named "ARS-UCD1.2" in IGV

  • Copy a URL link address (right-click) and paste into IGV:  File> "Load from URL..."

    • Note:  left-clicking on a URL will start a 30GB .bam file download

   

• Madin-Darby Bovine Kidney Cells (MDBK) mapped to ARS-UCD1.2:  URL link

• Cells Resistant to Infection with Bovine viral diarrhea virus (CRIB cell line, derivative of MDBK) mapped to ARS-UCD1.2: URL link Workman et al. 2021 

• Bovine Leukocyte 3 Cells (BL3), BioProject PRJNA325058, mapped to ARS-UCD1.2:  URL link

 

* Requires Java Runtime Environment

Reads mapped to ARS-UCD1.2 bovine genome assembly of Hereford female L1 Dominette 01449