-
cellranger_bcr
Analysis type
Reference Alignment
OEZ014556
-
celescope_expr
Analysis type
Reference Alignment
OEZ014555
-
cellranger_tcr
Analysis type
Reference Alignment
OEZ014554
-
cellranger_expr
Analysis type
Reference Alignment
OEZ014553
-
DU145 shSOAT1
Analysis type
De Novo Assembly
OEZ014551
-
DU145 oeSOAT1
Analysis type
De Novo Assembly
OEZ014550
-
DU145 sphere
Analysis type
De Novo Assembly
OEZ014548
-
22Rv1 sphere
Analysis type
De Novo Assembly
OEZ014549
-
OEZ_wenyan_2312251121
Analysis type
Other
OEZ014547
-
Processed_CUT&Tag-seq data
Description
To process raw data, reads containing adapter or ploy-N were removed to generate clean reads. Further filtration according to the calculated Q20, Q30 and GC content resulted in high-quality clean reads, which were then aligned to reference human genome GRCh38 using the BWA program (version 0.7.15). The MACS2 package(version 2.2.9.1)was used for peak-calling from the BAM files with q-value < 0.05. HOMER (version 4.11) was applied to the generated peak file and the genome fasta for motif analysis. Peaks were annotated using the annotatePeaks.pl function. For defining differentially accessible peaks, peak files of each sample were first merged using BEDTools (version 2.28.0). The counts of the reads over the bed were then determined for each sample using the multicov function from BEDTools. Finally, differentially accessible peaks were assessed using DESeq2 (version v1.42.0).
Analysis typeOther
OEZ014525