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Folder iconliquid droplet detergent iCLIP

Julian Zagalak
April 13, 2018
In this series of iCLIPs we treat cell with 1,6-hexanediol (1,6-HD) and other liquid droplet detergents in order to dissociate non-membranous subcellular compartments (eg. speckles, paraspeckles and stress granules). We are testing if the detergents capability of dissolving LCR-interactions could be used to minimise co-purification of contaminant RBPs during the pull-down step. Typical treatments are 5min 6% 1,6-HD PBS in live cells.

nomatch.fastq.gz

FASTQ file (single-end)
fastqc
Directory
nomatch.fastq.gz
1.45 GB
stderr.txt
755 B
nomatch_fastqc.zip
440.45 kB

ELS821A1-A23_S29_L003_R1_001.fastq.gz

FASTQ file (single-end)
fastqc
Directory
stderr.txt
1.15 kB
ELS821A1-A23_S29_L003_R1_001.fastq.gz
17.36 GB
ELS821A1-A23_S29_L003_R1_001_fastqc.zip
552.49 kB

No Sample

Reads (single-end)
fastqc
Directory
demux_NNNNGTATTNNN.fastq.gz
32.78 MB
stderr.txt
975 B
demux_NNNNGTATTNNN_fastqc.zip
533.11 kB
STAR
demux_NNNNTTTAANNN_unmapped.out.mate1.fastq.gz
18.69 MB
demux_NNNNTTTAANNN.bam
54.99 MB
demux_NNNNTTTAANNN.bam.bai
3.04 MB
demux_NNNNTTTAANNN_SJ.out.tab
122.75 kB
demux_NNNNTTTAANNN_stats.txt
1.80 kB
iCount demultiplex (from annotation file)
demultiplexing_stats.txt
1.48 kB
Reads (single-end)
fastqc
Directory
stderr.txt
1.00 kB
demux_NNNNCATTTNNN_fastqc.zip
466.42 kB
demux_NNNNCATTTNNN.fastq.gz
104.90 MB
Reads (single-end)
demux_NNNNACCTTNNN.fastq.gz
74.47 MB
fastqc
Directory
demux_NNNNACCTTNNN_fastqc.zip
464.80 kB
stderr.txt
975 B
STAR
demux_NNNNCATTTNNN.bam.bai
3.38 MB
demux_NNNNCATTTNNN_stats.txt
1.81 kB
demux_NNNNCATTTNNN_unmapped.out.mate1.fastq.gz
16.81 MB
demux_NNNNCATTTNNN.bam
245.83 MB
demux_NNNNCATTTNNN_SJ.out.tab
125.28 kB
iCount xlsites
demux_NNNNCAAGTNNN_unique.bed.gz
1.43 MB
demux_NNNNCAAGTNNN_skipped.bam
1.41 MB
demux_NNNNCAAGTNNN_multi.bed.gz
4.57 MB
Upload iCount sample annotation
iclip_annotation_Un1808_JZ.tab.gz
1.74 kB
iclip_annotation_Un1808_JZ.xlsx
26.17 kB
STAR
demux_NNNNACCTTNNN.bam
127.54 MB
demux_NNNNACCTTNNN.bam.bai
3.11 MB
demux_NNNNACCTTNNN_unmapped.out.mate1.fastq.gz
17.63 MB
demux_NNNNACCTTNNN_stats.txt
1.80 kB
demux_NNNNACCTTNNN_SJ.out.tab
86.06 kB
STAR
demux_NNNNGTATTNNN.bam.bai
3.40 MB
demux_NNNNGTATTNNN.bam
34.85 MB
demux_NNNNGTATTNNN_stats.txt
1.80 kB
demux_NNNNGTATTNNN_SJ.out.tab
39.83 kB
demux_NNNNGTATTNNN_unmapped.out.mate1.fastq.gz
18.53 MB
iCount xlsites
demux_NNNNACCTTNNN_skipped.bam
1.61 MB
demux_NNNNACCTTNNN_unique.bed.gz
381.69 kB
demux_NNNNACCTTNNN_multi.bed.gz
1.33 MB
iCount xlsites
demux_NNNNCATTTNNN_skipped.bam
2.32 MB
demux_NNNNCATTTNNN_multi.bed.gz
1.89 MB
demux_NNNNCATTTNNN_unique.bed.gz
569.83 kB
iCount xlsites
demux_NNNNGTATTNNN_multi.bed.gz
1.31 MB
demux_NNNNGTATTNNN_unique.bed.gz
394.92 kB
demux_NNNNGTATTNNN_skipped.bam
540.28 kB
FASTQ file (single-end)
fastqc
Directory
nomatch.fastq.gz
1.45 GB
stderr.txt
755 B
nomatch_fastqc.zip
440.45 kB
iCount group
1,6-HD_grouped.bedgraph
3.77 MB
1,6-HD_grouped.bed.gz
913.53 kB
iCount xlsites
demux_NNNNTTTAANNN_skipped.bam
990.43 kB
demux_NNNNTTTAANNN_unique.bed.gz
653.40 kB
demux_NNNNTTTAANNN_multi.bed.gz
1.48 MB
STAR
demux_NNNNCAAGTNNN_unmapped.out.mate1.fastq.gz
20.03 MB
demux_NNNNCAAGTNNN.bam.bai
4.68 MB
demux_NNNNCAAGTNNN.bam
140.43 MB
demux_NNNNCAAGTNNN_stats.txt
1.80 kB
demux_NNNNCAAGTNNN_SJ.out.tab
121.74 kB
Reads (single-end)
demux_NNNNTTTAANNN.fastq.gz
43.67 MB
fastqc
Directory
stderr.txt
975 B
demux_NNNNTTTAANNN_fastqc.zip
514.42 kB
Reads (single-end)
demux_NNNNCAAGTNNN.fastq.gz
71.07 MB
fastqc
Directory
stderr.txt
975 B
demux_NNNNCAAGTNNN_fastqc.zip
444.79 kB
FASTQ file (single-end)
fastqc
Directory
stderr.txt
1.15 kB
ELS821A1-A23_S29_L003_R1_001.fastq.gz
17.36 GB
ELS821A1-A23_S29_L003_R1_001_fastqc.zip
552.49 kB