Resources for our recent paper
Construct maps available for download in Genebank (.gb) format:
- Construct 1 – U6p_20nt1_WT_sgRNA
- Construct 2 – U6p_20nt1_mod1_sgRNA
- Construct 3 – U6p_20nt1_mod2_sgRNA (stgRNA)
- Construct 4 – U6p_20nt1_mod3_sgRNA
- Construct 5 – U6p_20nt1_mod4_sgRNA
- Construct 6 – U6p_20nt1_mod5_sgRNA
- Construct 7 – CMVp-Cas9-3xNLS-HSVpA
- Construct 8 – U6p_30ntr_stgRNA
- Construct 9 – U6p_30nt_stgRNA
- Construct 10 – U6p_40nt_stgRNA
- Construct 11 – U6p_70nt_stgRNA
- Construct 12 – hUBCp_Cas9_3xNLS_p2a_puroR
- Construct 13 – CMVp_U6p_27nt1_GFP(+3)_RFP(+2)
- Construct 14 – CMVp_U6p_26nt1_GFP(+2)_RFP(+1)
- Construct 15 – CMVp_U6p_25nt1_GFP(+1)_RFP(+3)
- Construct 16 – U6p_27nt1_CMVp_target_GFP(+3)_RFP(+2)
- Construct 17 – U6p_26nt1_CMVp_target_GFP(+2)_RFP(+1)
- Construct 18 – U6p_25nt1_CMVp_target_GFP(+1)_RFP(+3)
- Construct 19 – U6p_20nt1_16bpbarcode_library
- Construct 20 – U6p_20nt2_16bpbarcode_library
- Construct 21 – U6p_30nt1_16bpbarcode_library
- Construct 22 – U6p_30nt2_16bpbarcode_library
- Construct 23 – U6p_40nt1_16bpbarcode_library
- Construct 24 – U6p_40nt2_16bpbarcode_library
- Construct 25 – U6p_20nt_sgRNA_target
- Construct 26 – U6p_30nt_sgRNA_target
- Construct 27 – U6p_40nt_sgRNA_target
- Construct 28 – hUBCp_TetR_p2a_LacI_p2a_ZeoR
- Construct 29 – 1xTetO_H1p_20nt3_stgRNA
- Construct 30 – 3xLacO_U6p_20nt3_stgRNA
- Construct 31 – 1xTetO_H1p_20nt2_stgRNA_3xLacO_U6p_20nt3_stgRNA
- Construct 32 – NFKBRp_mKate2_2xNLS_p2a-puroR
- Construct 33 – NFKBRp_Cas9_3xNLS_p2a-puroR
stgRNA sequence variants observed for 20nt, 30nt and 40nt stgRNAs
C++ routines:
- Implementation of the optimal sequence alignment using affine gap costs by Altschul S.F. and Erickson B.W (1986)
- Identifying unique kmers (stgRNA variants):
- Calculating Transition Probability Matrices:
