Magic_Folder_Manuscript.zip
Magic_Folder_Manuscript
.ipynb_checkpoints
Flow_Cytometry_Data_Processing_Code-checkpoint.ipynb
5.4 MB
Codes
.ipynb_checkpoints
Supplementary Modeling-checkpoint.ipynb
264.3 kB
Bulk_RNAseq_Data_Analysis
.ipynb_checkpoints
DEseq_quantification_of_the_filtered_counts-checkpoint.R
5.3 kB
Filtering_Codes_For_Differential_Expression_Analysis-checkpoint.ipynb
116.0 kB
DEseq_quantification_of_the_filtered_counts.R
5.3 kB
Differential_Expression_Analysis
differential_expression_result_WT_vs_BFP_only.csv
180.7 kB
differential_expression_result_miR10_vs_BFP_only.csv
181.5 kB
differential_expression_result_miR1_vs_BFP_only.csv
181.3 kB
differential_expression_result_miR2_vs_BFP_only.csv
180.2 kB
differential_expression_result_miR3_vs_BFP_only.csv
180.8 kB
differential_expression_result_miR4_vs_BFP_only.csv
180.7 kB
differential_expression_result_miR5_vs_BFP_only.csv
180.4 kB
differential_expression_result_miR7_vs_BFP_only.csv
180.7 kB
differential_expression_result_miR8_vs_BFP_only.csv
180.9 kB
differential_expression_result_miR9_vs_BFP_only.csv
181.5 kB
differential_expression_result_miRL_vs_BFP_only.csv
180.7 kB
Filtering_Codes_For_Differential_Expression_Analysis.ipynb
116.0 kB
ReadMe.md
192 Bytes
Reads_Aligned_by_kallisto
Filtered_counts.csv
124.4 kB
miRNA_RNAseq_pre_filtering_tpm.csv
27.1 MB
norm_count_fano_factor_97.5.csv
376.3 kB
norm_count_size_factor_free.csv
381.6 kB
output_BFP_R2.zip
71.6 MB
output_BFP_R4.zip
79.8 MB
output_BFP_R5.zip
71.4 MB
output_WT.zip
66.2 MB
output_miR1.zip
69.0 MB
output_miR10.zip
66.9 MB
output_miR2.zip
66.4 MB
output_miR3.zip
76.7 MB
output_miR4.zip
69.2 MB
output_miR5.zip
67.1 MB
output_miR7.zip
67.0 MB
output_miR8.zip
61.0 MB
output_miR9.zip
66.7 MB
output_miRL.zip
62.3 MB
miRNA_RNAseq_metadata.csv
599 Bytes
Modeling_Plots
Figure2A.pdf
15.9 kB
FigureS1A.pdf
18.1 kB
FigureS1B.pdf
17.8 kB
FigureS1C.pdf
16.6 kB
Supplementary Modeling.ipynb
264.3 kB
Figures
Figure2C.pdf
19.6 kB
Figure2D.pdf
25.3 kB
Figure2E.pdf
22.0 kB
Figure2F.pdf
16.9 kB
Figure2F_hist.pdf
13.0 kB
Figure2H.pdf
20.1 kB
Figure2I.pdf
20.3 kB
Figure3A.pdf
14.3 kB
Figure3A_right.pdf
20.8 kB
Figure3B.pdf
21.2 kB
Figure3C.pdf
20.6 kB
Figure3D.pdf
19.3 kB
Figure3D_mRuby.pdf
15.7 kB
Figure3E.pdf
19.1 kB
Figure4B.pdf
19.0 kB
Figure4D_left.pdf
21.9 kB
Figure4D_right.pdf
22.5 kB
Figure4E.png
13.1 kB
Figure4F_left.pdf
20.9 kB
Figure4F_right.pdf
20.7 kB
Figure4H.png
507.9 kB
Figure5A_CHO.pdf
18.9 kB
Figure5A_HEK293.pdf
19.1 kB
Figure5A_N2A.pdf
18.5 kB
Figure5A_U2OS.pdf
18.9 kB
FigureS11A.pdf
19.7 kB
FigureS11B.pdf
19.6 kB
FigureS2B.pdf
18.0 kB
FigureS2C.pdf
18.6 kB
FigureS2D.pdf
18.5 kB
FigureS2E.pdf
19.2 kB
FigureS2G.pdf
19.1 kB
FigureS2H.pdf
19.4 kB
FigureS3A.pdf
23.8 kB
FigureS3B.pdf
24.2 kB
FigureS4.pdf
22.3 kB
FigureS5A.pdf
19.6 kB
FigureS5B.pdf
19.6 kB
FigureS6A_left.pdf
18.9 kB
FigureS6A_right.pdf
18.9 kB
FigureS6B.pdf
18.4 kB
FigureS7_left.pdf
19.3 kB
FigureS7_right.pdf
19.2 kB
FigureS8_1.pdf
19.8 kB
FigureS8_10.pdf
20.4 kB
FigureS8_2.pdf
21.8 kB
FigureS8_3.pdf
20.0 kB
FigureS8_4.pdf
21.5 kB
FigureS8_5.pdf
22.6 kB
FigureS8_7.pdf
20.3 kB
FigureS8_8.pdf
21.6 kB
FigureS8_9.pdf
21.7 kB
FigureS9_CHO.pdf
24.1 kB
FigureS9_HEK293.pdf
23.7 kB
FigureS9_N2A.pdf
23.7 kB
FigureS9_U2OS.pdf
24.4 kB
Flow_Cytometry_Data_Processing_Code.ipynb
5.4 MB
Raw Data
Flow_Cytometry_Data
2C
01-Well-C7.fcs
5.5 MB
01-Well-D5.fcs
5.5 MB
01-Well-D9.fcs
5.3 MB
2D
01-Well-C11.fcs
3.9 MB
01-Well-C7.fcs
5.5 MB
01-Well-C9.fcs
7.3 MB
01-Well-D1.fcs
6.7 MB
01-Well-D3.fcs
4.6 MB
01-Well-D5.fcs
5.5 MB
01-Well-D9.fcs
5.3 MB
2E
01-Well-A7.fcs
5.3 MB
01-Well-B3.fcs
4.3 MB
01-Well-F3.fcs
2.4 MB
01-Well-F5.fcs
1.7 MB
01-Well-F7.fcs
2.6 MB
2F
01-Well-A7.fcs
5.3 MB
2H
01-Well-A7.fcs
5.3 MB
01-Well-A9.fcs
8.7 MB
01-Well-B3.fcs
4.3 MB
2I
01-Well-D11.fcs
3.6 MB
01-Well-E1.fcs
2.6 MB
01-Well-E7.fcs
2.7 MB
3A
01-Well-A1.fcs
4.6 MB
01-Well-A11.fcs
5.1 MB
01-Well-A3.fcs
6.2 MB
01-Well-A5.fcs
6.0 MB
01-Well-A7.fcs
6.8 MB
01-Well-A9.fcs
5.9 MB
01-Well-B1.fcs
4.3 MB
01-Well-B11.fcs
4.4 MB
01-Well-B3.fcs
8.5 MB
01-Well-B5.fcs
4.9 MB
01-Well-B7.fcs
5.5 MB
01-Well-B9.fcs
3.5 MB
01-Well-C1.fcs
6.3 MB
01-Well-C3.fcs
3.6 MB
3B
01-Well-B11.fcs
8.2 MB
01-Well-B5.fcs
6.1 MB
01-Well-B7.fcs
7.6 MB
01-Well-B9.fcs
8.6 MB
3C
01-Well-A7.fcs
5.3 MB
01-Well-B3.fcs
4.3 MB
01-Well-F11.fcs
2.0 MB
01-Well-F9.fcs
2.1 MB
3D
01-Well-A7.fcs
5.3 MB
01-Well-B3.fcs
4.3 MB
01-Well-G1.fcs
2.0 MB
3E
01-Well-C10.fcs
9.5 MB
01-Well-C3.fcs
9.5 MB
01-Well-C6.fcs
7.6 MB
01-Well-C7.fcs
10.2 MB
01-Well-C8.fcs
10.0 MB
01-Well-C9.fcs
9.4 MB
4B
01-Well-J1.fcs
2.4 MB
01-Well-J11.fcs
2.3 MB
4D
01-Well-A1.fcs
13.6 MB
01-Well-A11.fcs
6.6 MB
01-Well-A3.fcs
18.1 MB
01-Well-A5.fcs
6.7 MB
01-Well-A7.fcs
7.3 MB
01-Well-A9.fcs
5.0 MB
01-Well-B1.fcs
4.5 MB
01-Well-B3.fcs
4.3 MB
01-Well-B5.fcs
4.6 MB
01-Well-B7.fcs
6.2 MB
01-Well-D5.fcs
2.0 MB
4E
01-Well-A1.fcs
7.6 MB
01-Well-A10.fcs
3.3 MB
01-Well-A11.fcs
3.4 MB
01-Well-A2.fcs
8.4 MB
01-Well-A3.fcs
8.1 MB
01-Well-A4.fcs
7.7 MB
01-Well-A5.fcs
6.7 MB
01-Well-A6.fcs
6.6 MB
01-Well-A7.fcs
3.1 MB
01-Well-A8.fcs
3.6 MB
01-Well-A9.fcs
3.9 MB
01-Well-B1.fcs
4.9 MB
01-Well-B10.fcs
3.0 MB
01-Well-B11.fcs
2.6 MB
01-Well-B2.fcs
3.6 MB
01-Well-B3.fcs
3.0 MB
01-Well-B4.fcs
4.8 MB
01-Well-B5.fcs
3.3 MB
01-Well-B6.fcs
3.6 MB
01-Well-B7.fcs
2.8 MB
01-Well-B8.fcs
2.7 MB
01-Well-B9.fcs
3.1 MB
01-Well-C1.fcs
3.7 MB
01-Well-C10.fcs
2.8 MB
01-Well-C11.fcs
1.8 MB
01-Well-C2.fcs
4.5 MB
01-Well-C3.fcs
2.6 MB
01-Well-C4.fcs
3.2 MB
01-Well-C5.fcs
2.5 MB
01-Well-C6.fcs
2.5 MB
01-Well-C7.fcs
2.0 MB
01-Well-C8.fcs
2.4 MB
01-Well-C9.fcs
2.5 MB
01-Well-D1.fcs
4.3 MB
01-Well-D10.fcs
2.1 MB
01-Well-D11.fcs
2.0 MB
01-Well-D2.fcs
4.5 MB
01-Well-D3.fcs
2.4 MB
01-Well-D4.fcs
2.8 MB
01-Well-D5.fcs
2.6 MB
01-Well-D6.fcs
2.7 MB
01-Well-D7.fcs
2.7 MB
01-Well-D8.fcs
2.8 MB
01-Well-D9.fcs
2.5 MB
01-Well-E1.fcs
4.4 MB
01-Well-E10.fcs
2.1 MB
01-Well-E11.fcs
1.8 MB
01-Well-E2.fcs
3.3 MB
01-Well-E3.fcs
2.4 MB
01-Well-E4.fcs
2.8 MB
01-Well-E5.fcs
2.6 MB
01-Well-E6.fcs
2.8 MB
01-Well-E7.fcs
2.7 MB
01-Well-E8.fcs
2.5 MB
01-Well-E9.fcs
2.4 MB
01-Well-F1.fcs
4.1 MB
01-Well-F10.fcs
2.5 MB
01-Well-F11.fcs
1.9 MB
01-Well-F2.fcs
2.8 MB
01-Well-F3.fcs
2.9 MB
01-Well-F4.fcs
2.7 MB
01-Well-F5.fcs
2.7 MB
01-Well-F6.fcs
3.5 MB
01-Well-F7.fcs
3.2 MB
01-Well-F8.fcs
3.1 MB
01-Well-F9.fcs
3.5 MB
01-Well-G1.fcs
4.5 MB
01-Well-G10.fcs
1.6 MB
01-Well-G11.fcs
2.6 MB
01-Well-G2.fcs
4.4 MB
01-Well-G3.fcs
4.3 MB
01-Well-G4.fcs
3.0 MB
01-Well-G5.fcs
2.8 MB
01-Well-G6.fcs
3.4 MB
01-Well-G7.fcs
3.0 MB
01-Well-G8.fcs
2.8 MB
01-Well-G9.fcs
2.9 MB
01-Well-H1.fcs
3.5 MB
01-Well-H10.fcs
2.6 MB
01-Well-H11.fcs
2.9 MB
01-Well-H2.fcs
3.4 MB
01-Well-H3.fcs
3.3 MB
01-Well-H4.fcs
4.5 MB
01-Well-H5.fcs
2.6 MB
01-Well-H6.fcs
3.4 MB
01-Well-H7.fcs
3.0 MB
01-Well-H8.fcs
3.1 MB
01-Well-H9.fcs
3.0 MB
01-Well-I1.fcs
3.3 MB
01-Well-I10.fcs
3.4 MB
01-Well-I11.fcs
4.4 MB
01-Well-I2.fcs
4.7 MB
01-Well-I3.fcs
4.9 MB
01-Well-I4.fcs
5.9 MB
01-Well-I5.fcs
5.0 MB
01-Well-I6.fcs
4.9 MB
01-Well-I7.fcs
6.1 MB
01-Well-I8.fcs
4.8 MB
01-Well-I9.fcs
4.3 MB
01-Well-J1.fcs
2.4 MB
01-Well-J10.fcs
1.8 MB
01-Well-J11.fcs
2.3 MB
01-Well-J2.fcs
2.9 MB
01-Well-J3.fcs
3.0 MB
01-Well-J4.fcs
2.8 MB
01-Well-J5.fcs
3.1 MB
01-Well-J6.fcs
3.4 MB
01-Well-J7.fcs
2.9 MB
01-Well-J8.fcs
2.8 MB
01-Well-J9.fcs
2.5 MB
4F
01-Well-B11.fcs
3.6 MB
01-Well-C1.fcs
3.1 MB
01-Well-C11.fcs
3.8 MB
01-Well-C3.fcs
2.5 MB
01-Well-C5.fcs
3.6 MB
01-Well-C7.fcs
2.6 MB
01-Well-C9.fcs
2.7 MB
01-Well-D1.fcs
3.0 MB
01-Well-D3.fcs
3.1 MB
01-Well-D5.fcs
4.4 MB
4H
01-Well-A1.fcs
6.9 MB
01-Well-A7.fcs
6.4 MB
01-Well-B3.fcs
3.5 MB
01-Well-B9.fcs
3.3 MB
5A
01-Well-E1.fcs
13.0 MB
01-Well-E9.fcs
14.4 MB
01-Well-F1.fcs
7.8 MB
01-Well-F9.fcs
4.9 MB
01-Well-G1.fcs
2.9 MB
01-Well-G9.fcs
2.6 MB
01-Well-H1.fcs
25.4 MB
01-Well-H9.fcs
40.0 MB
5D
01-Well-A9.fcs
1.2 MB
01-Well-C1.fcs
1.3 MB
01-Well-E9.fcs
1.7 MB
01-Well-F7.fcs
1.3 MB
S11
A
01-Well-D3.fcs
8.6 MB
01-Well-D5.fcs
6.7 MB
01-Well-D7.fcs
5.5 MB
B
01-Well-D11.fcs
4.2 MB
01-Well-D9.fcs
4.8 MB
01-Well-E1.fcs
2.7 MB
S2
B
01-Well-B11.fcs
9.1 MB
01-Well-B3.fcs
10.7 MB
C
01-Well-F7.fcs
2.6 MB
01-Well-G7.fcs
2.8 MB
D
01-Well-F11.fcs
4.1 MB
01-Well-F7.fcs
2.6 MB
E
01-Well-B1.fcs
11.7 MB
01-Well-B11.fcs
9.1 MB
01-Well-B3.fcs
10.7 MB
G
01-Well-A11.fcs
7.4 MB
01-Well-A3.fcs
11.8 MB
01-Well-A7.fcs
13.6 MB
H
01-Well-A11.fcs
7.4 MB
01-Well-A3.fcs
11.8 MB
01-Well-A7.fcs
13.6 MB
S3
A
01-Well-B11.fcs
7.0 MB
01-Well-B9.fcs
10.2 MB
01-Well-C5.fcs
6.4 MB
01-Well-E5.fcs
12.2 MB
B
01-Well-C1.fcs
6.0 MB
01-Well-C3.fcs
6.3 MB
01-Well-C7.fcs
6.5 MB
01-Well-E5.fcs
12.2 MB
S4
01-Well-A11.fcs
5.1 MB
01-Well-A3.fcs
6.2 MB
01-Well-A9.fcs
5.9 MB
01-Well-B1.fcs
4.3 MB
01-Well-B3.fcs
8.5 MB
01-Well-B5.fcs
4.9 MB
01-Well-B9.fcs
3.5 MB
S5
A
01-Well-A3.fcs
14.5 MB
01-Well-A6.fcs
14.4 MB
01-Well-A7.fcs
14.1 MB
01-Well-A8.fcs
12.7 MB
01-Well-A9.fcs
7.6 MB
01-Well-C10.fcs
9.5 MB
B
01-Well-B3.fcs
11.3 MB
01-Well-B6.fcs
13.7 MB
01-Well-B7.fcs
12.1 MB
01-Well-B8.fcs
10.7 MB
01-Well-B9.fcs
8.5 MB
01-Well-C10.fcs
9.5 MB
S6
A
A_left
01-Well-A1.fcs
7.6 MB
01-Well-A3.fcs
6.9 MB
A_right
01-Well-B11.fcs
5.8 MB
01-Well-C1.fcs
3.4 MB
B
01-Well-A7.fcs
2.3 MB
01-Well-B9.fcs
1.1 MB
S7
01-Well-A11.fcs
6.6 MB
01-Well-A9.fcs
9.6 MB
01-Well-B1.fcs
6.4 MB
01-Well-B3.fcs
6.4 MB
01-Well-D9.fcs
5.3 MB
S8
synmiR-1
01-Well-B3.fcs
7.8 MB
01-Well-B5.fcs
6.9 MB
01-Well-B7.fcs
6.6 MB
synmiR-10
01-Well-B11.fcs
12.8 MB
01-Well-B9.fcs
12.0 MB
01-Well-D1.fcs
3.2 MB
synmiR-2
01-Well-A1.fcs
15.2 MB
01-Well-A3.fcs
10.4 MB
01-Well-A5.fcs
13.0 MB
01-Well-B9.fcs
5.1 MB
synmiR-3
01-Well-A1.fcs
7.2 MB
01-Well-B11.fcs
6.1 MB
01-Well-B7.fcs
4.6 MB
synmiR-4
01-Well-C9.fcs
7.5 MB
01-Well-D1.fcs
3.3 MB
01-Well-D3.fcs
5.7 MB
01-Well-G3.fcs
3.9 MB
synmiR-5
01-Well-A11.fcs
10.8 MB
01-Well-A7.fcs
12.8 MB
01-Well-A9.fcs
10.1 MB
01-Well-B1.fcs
6.7 MB
01-Well-B9.fcs
5.1 MB
synmiR-7
01-Well-A5.fcs
12.6 MB
01-Well-A7.fcs
15.1 MB
01-Well-B5.fcs
6.1 MB
synmiR-8
01-Well-A1.fcs
15.9 MB
01-Well-A3.fcs
15.5 MB
01-Well-A5.fcs
17.9 MB
01-Well-D1.fcs
3.2 MB
synmiR-9
01-Well-A11.fcs
11.2 MB
01-Well-B1.fcs
6.4 MB
01-Well-B3.fcs
4.7 MB
01-Well-B5.fcs
6.1 MB
S9
01-Well-E1.fcs
13.0 MB
01-Well-E3.fcs
20.1 MB
01-Well-E5.fcs
18.9 MB
01-Well-E7.fcs
17.2 MB
01-Well-E9.fcs
14.4 MB
01-Well-F1.fcs
7.8 MB
01-Well-F3.fcs
7.5 MB
01-Well-F5.fcs
6.8 MB
01-Well-F7.fcs
12.6 MB
01-Well-F9.fcs
4.9 MB
01-Well-G1.fcs
2.9 MB
01-Well-G3.fcs
2.3 MB
01-Well-G5.fcs
3.0 MB
01-Well-G7.fcs
3.0 MB
01-Well-G9.fcs
2.6 MB
01-Well-H1.fcs
25.4 MB
01-Well-H3.fcs
32.2 MB
01-Well-H5.fcs
42.4 MB
01-Well-H7.fcs
39.9 MB
01-Well-H9.fcs
40.0 MB
Imaging_Data
EGFR_confocal
EGFR_4x18_regulated_representative_image.nd2
1.2 GB
EGFR_unregulated_representative_image.nd2
1.5 GB
dCas9_telomere_confocal
dCas9_4x17_regulated_representative_image1.nd2
2.0 GB
dCas9_4x17_regulated_representative_image2.nd2
872.9 MB
dCas9_4x19_regulated_representative_image1.nd2
2.1 GB
dCas9_unregulated_representative_image1.nd2
1.1 GB
dCas9_unregulated_representative_image2.nd2
2.0 GB