Figure S3. Indel spectrum determined by TIDE of the off-target sites compared with indel frequencies of the control sample. Each module represents the TIDE analysis of one sgRNA in a bulk cell population electroporated with each of the single-guide-Cas9 encoded plasmids. Each bar graph represents an indel event with an estimation of the percentage of the population exhibiting this particular event. On-target and potential off-target sequences are represented on top of each module and mismatched bases are shown in red. Light-red bars represent the wild type situation, bright-red bars represent significant indel events and black bars represent non-significant differences. P-values according to Pearson’s chi-squared test. Decomposition was lim...
Figure S6. Sequencing coverage comparison of detected WES and RNA-seq indels in SU2C cohort. (PDF 97...
Scatter plots of gene expression values between samples. A figure illustrating how similar of genes ...
Analysis of enhancer regions based on CpG islands. Distribution of the H3K4me3, H3K27me3, bivalent a...
Figure S2. Indel spectrum determined by TIDE of the on-target sites compared with indel frequencies ...
Figure S2. A. Upper panel. Scatter plots of the gene log2 fold changes of the TRAIL condition agains...
Figure S3. Distribution of the log2 fold changes (TRAIL over untreated, day 14) across barcodes of t...
Figure S4. A. Distribution of the (log2) number of barcodes per sgRNA. B. Plot of the density of bar...
Frequency of indels and non-indels in each MAF dataset. Distribution of mutation frequency across MA...
Figure S1. CRISPR screening of a collection of sgRNAsiBAR-ANTXR1 containing all 4096 types of iBAR6 ...
Figure S2. Benchmarking of transIndel for mid-sized indels against existing indel detection tools us...
Figure S5. Reproducibility of the sgRNA-barcode pairs across time points of the untreated condition....
Super-Enhancers analysis. A: Ranked plot of enhancers defined in Control (left) and LPS (right) cond...
Comparison of induced indels between germline and somatic tissues. (a) Plot shows the same data as F...
Distribution of assembled transcripts based on abundance (FPKM) and corresponding read density. The ...
Nucleosome occupancy profiles in the vicinity of transcription start sites (TSSs) for 5419 genes in ...
Figure S6. Sequencing coverage comparison of detected WES and RNA-seq indels in SU2C cohort. (PDF 97...
Scatter plots of gene expression values between samples. A figure illustrating how similar of genes ...
Analysis of enhancer regions based on CpG islands. Distribution of the H3K4me3, H3K27me3, bivalent a...
Figure S2. Indel spectrum determined by TIDE of the on-target sites compared with indel frequencies ...
Figure S2. A. Upper panel. Scatter plots of the gene log2 fold changes of the TRAIL condition agains...
Figure S3. Distribution of the log2 fold changes (TRAIL over untreated, day 14) across barcodes of t...
Figure S4. A. Distribution of the (log2) number of barcodes per sgRNA. B. Plot of the density of bar...
Frequency of indels and non-indels in each MAF dataset. Distribution of mutation frequency across MA...
Figure S1. CRISPR screening of a collection of sgRNAsiBAR-ANTXR1 containing all 4096 types of iBAR6 ...
Figure S2. Benchmarking of transIndel for mid-sized indels against existing indel detection tools us...
Figure S5. Reproducibility of the sgRNA-barcode pairs across time points of the untreated condition....
Super-Enhancers analysis. A: Ranked plot of enhancers defined in Control (left) and LPS (right) cond...
Comparison of induced indels between germline and somatic tissues. (a) Plot shows the same data as F...
Distribution of assembled transcripts based on abundance (FPKM) and corresponding read density. The ...
Nucleosome occupancy profiles in the vicinity of transcription start sites (TSSs) for 5419 genes in ...
Figure S6. Sequencing coverage comparison of detected WES and RNA-seq indels in SU2C cohort. (PDF 97...
Scatter plots of gene expression values between samples. A figure illustrating how similar of genes ...
Analysis of enhancer regions based on CpG islands. Distribution of the H3K4me3, H3K27me3, bivalent a...