Sussel Repositories

[kwells4]

Grg project (Alex, Maria)

• ATAC-seq: https://github.com/CUAnschutzBDC/Grg_bulk_atac.git
• scRNA-seq: https://github.com/CUAnschutzBDC/sussle_220203_mouse_islet.git

Long read project (Maria)

• bulk long read: https://github.com/CUAnschutzBDC/sussel_bulk_long_read.git
• Failed sc long read: https://github.com/CUAnschutzBDC/sussel_long_read_2.git
• First sc long read experiment: https://github.com/CUAnschutzBDC/Sussel_sc_long_read.git
• Bulk RNA-seq test on insulin depletion: https://github.com/CUAnschutzBDC/insulin_depletion
  • Testing on bulk RNA-seq

ZNT8 (Yong)

• Bulk RNA-seq: https://github.com/CUAnschutzBDC/ZNT8_analysis.git

RBFOX2 (Nicole)

• Full repo: https://github.com/CUAnschutzBDC/RBFOX2_project
  • The repo to be published with the RBFOX2 manuscript
• Bulk RNA-seq: https://github.com/CUAnschutzBDC/Nicole_rbfox2_rnaseq
  • Bulk RNA-seq of RBFOX2 knockdown

CHD3/4 (Dylan)

• Bulk RNA-seq: https://github.com/CUAnschutzBDC/chd4_3wk_RNA-seq
  • Analysis of bulk RNA-seq from CHD3/4 knockdown
• Random scripts: https://github.com/CUAnschutzBDC/dylan_random_scripts
  • A set of scripts to help with the CHD3/4 project (plotting scripts)

Alpha cells (Elliott)

• Cut and run: https://github.com/CUAnschutzBDC/Elliott_klf_etv_cut_and_run
  • Development of Cut and run pipeline using klf4 and etv1 samples. This pipeline is not complete. Look at the issues for planned next steps.
• Atac: https://github.com/CUAnschutzBDC/etv1_klf4_atac
  • Development of ATAC pipeline using Etv1 and Klf4 knockouts. This pipeline is more complete. Some additional things to add (like comparing peak calling methods) can be found under projects