ENCORE eCLIP:755

Experiment Information (Status: Released)

	755	755-control
Exp_UID	755	755
RBPARK_Exp_name
ENCODE_ACCESSION	ENCSR366DGX	ENCSR423QXH
ENCODE_alias	gene-yeo:755	gene-yeo:755-control
RBP	KHSRP	KHSRP
Cell_Line	HepG2	HepG2
Batch
Exp_type	eCLIP	control
ENCODE_Antibody_ID	ENCAB531WWS	ENCAB531WWS
Antibody	RN065PW	RN065PW
Lot_num	1	1
crosslinking_method	ultraviolet irradiation	ultraviolet irradiation
queried_RNP_size_range	175-300	175-300
Self_consistency_hg38
rescue_GRCh38
Status	Released	Released
Project	ENCODE4	ENCODE4
ID	432	487

Replicate Information


Rep_UID	755_01	755_02	755_INPUT
Exp UID	755	755	755
Replicate_type	rep1	rep2	control
ENCODE_ACCESSION	ENCLB178KDM	ENCLB620TTV	ENCLB348ATY
ENCODE_alias	gene-yeo:755_01	gene-yeo:755_02	gene-yeo:755_INPUT
Biosample Name	HepG2_012016	HepG2_102015	HepG2_012016
Biosample_ENCODE_Accession	ENCBS074YUC	ENCBS575NGC	ENCBS074YUC
Biosample_ENCODE_Alias	gene-yeo:HepG2_012016	gene-yeo:HepG2_102015	gene-yeo:HepG2_012016
Cell_Line	HepG2	HepG2	HepG2
Culture_Start_Date	2016-01-20	2015-10-20	2016-01-20
Culture_End_Date	2016-02-17	2015-11-17	2016-02-17
Passage	4	4	4

QC Stats

Experiment QC

	755	755-control
Self_consistency_hg38
rescue_GRCh38

Replicate QC


Rep_UID	755_01	755_02	755_INPUT
eCT
Usable_reads
Entropy_hg38

Library-Prep
Sequencing

Library-Prep Information


Rep_UID	755_01	755_02	755_INPUT
library_size_selection_method	agarose gel extraction	agarose gel extraction	agarose gel extraction
strand_specificity	reverse	reverse	reverse
inline_barcode_1	A03	A04	none
inline_barcode_2	G07	F05	none
i5_barcode	504	504	503
i7_barcode	704	704	703

Sequencing Information


Rep_UID	755_01	755_02	755_INPUT
seq_read_type	paired-ended	paired-ended	paired-ended
read_length	50	50	50
machine
flowcell
lane

File Information

FASTQ

file_name	Sample ID	file_format	output_type	run_type	paired_end	read_length	platform	assay_type
755_01_KHSRP.R1.fastq.gz	755_01	fastq	reads	paired-ended	1	50	HiSeq4000	eCLIP
755_01_KHSRP.R2.fastq.gz	755_01	fastq	reads	paired-ended	2	50	HiSeq4000	eCLIP
755_02_KHSRP.R1.fastq.gz	755_02	fastq	reads	paired-ended	1	50	HiSeq4000	eCLIP
755_02_KHSRP.R2.fastq.gz	755_02	fastq	reads	paired-ended	2	50	HiSeq4000	eCLIP
755_INPUT_KHSRP.R1.fastq.gz	755_INPUT	fastq	reads	paired-ended	1	50	HiSeq4000	eCLIP
755_INPUT_KHSRP.R2.fastq.gz	755_INPUT	fastq	reads	paired-ended	2	50	HiSeq4000	eCLIP

GRCh38

file_name	Sample ID	file_format	output_type	assay_type	assembly
GRCh38/755.01v02.IDR.out.0102merged.bed.blacklist_removed.bed.narrowPeak.encode.bed.gz	755	final_peaks	peaks	eCLIP	GRCh38
GRCh38_755_01_KHSRP.merged.bam	755_01	bam	alignments	eCLIP	GRCh38
GRCh38_755_01_KHSRP.merged.r2.norm.neg.bw	755_01	bigWig-unique	minus strand signal of unique reads	eCLIP	GRCh38
GRCh38_755_01_KHSRP.merged.r2.norm.pos.bw	755_01	bigWig+unique	plus strand signal of unique reads	eCLIP	GRCh38
GRCh38/755_01.basedon_755_01.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.encode.bed.gz	755_01	bed_eCLIP	peaks	eCLIP	GRCh38
GRCh38/755_01.basedon_755_01.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.bed.bb	755_01	bigBed_eCLIP	peaks	eCLIP	GRCh38
GRCh38_755_02_KHSRP.merged.bam	755_02	bam	alignments	eCLIP	GRCh38
GRCh38_755_02_KHSRP.merged.r2.norm.neg.bw	755_02	bigWig-unique	minus strand signal of unique reads	eCLIP	GRCh38
GRCh38_755_02_KHSRP.merged.r2.norm.pos.bw	755_02	bigWig+unique	plus strand signal of unique reads	eCLIP	GRCh38
GRCh38/755_02.basedon_755_02.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.encode.bed.gz	755_02	bed_eCLIP	peaks	eCLIP	GRCh38
GRCh38/755_02.basedon_755_02.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.bed.bb	755_02	bigBed_eCLIP	peaks	eCLIP	GRCh38
GRCh38_755_INPUT_S56_L005_R1_001.unassigned.adapterTrim.round2.rmRep.rmDup.sorted.bam	755_INPUT	bam	alignments	eCLIP	GRCh38
GRCh38_755_INPUT_S56_L005_R1_001.unassigned.adapterTrim.round2.rmRep.rmDup.sorted.r2.norm.neg.bw	755_INPUT	bigWig-unique	minus strand signal of unique reads	eCLIP	GRCh38
GRCh38_755_INPUT_S56_L005_R1_001.unassigned.adapterTrim.round2.rmRep.rmDup.sorted.r2.norm.pos.bw	755_INPUT	bigWig+unique	plus strand signal of unique reads	eCLIP	GRCh38

hg19

file_name	Sample ID	file_format	output_type	assay_type	assembly
755.01v02.IDR.out.0102merged.bed.blacklist_removed.bed.narrowPeak.encode.bed.gz	755	final_peaks	peaks	eCLIP	hg19
755_01_KHSRP.merged.bam	755_01	bam	alignments	eCLIP	hg19
755_01_KHSRP.merged.r2.norm.neg.bw	755_01	bigWig-unique	minus strand signal of unique reads	eCLIP	hg19
755_01_KHSRP.merged.r2.norm.pos.bw	755_01	bigWig+unique	plus strand signal of unique reads	eCLIP	hg19
755_01.basedon_755_01.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.encode.bed.gz	755_01	bed_eCLIP	peaks	eCLIP	hg19
755_01.basedon_755_01.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.bed.bb	755_01	bigBed_eCLIP	peaks	eCLIP	hg19
755_02_KHSRP.merged.bam	755_02	bam	alignments	eCLIP	hg19
755_02_KHSRP.merged.r2.norm.neg.bw	755_02	bigWig-unique	minus strand signal of unique reads	eCLIP	hg19
755_02_KHSRP.merged.r2.norm.pos.bw	755_02	bigWig+unique	plus strand signal of unique reads	eCLIP	hg19
755_02.basedon_755_02.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.encode.bed.gz	755_02	bed_eCLIP	peaks	eCLIP	hg19
755_02.basedon_755_02.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.bed.bb	755_02	bigBed_eCLIP	peaks	eCLIP	hg19
755_INPUT_S56_L005_R1_001.unassigned.adapterTrim.round2.rmRep.rmDup.sorted.bam	755_INPUT	bam	alignments	eCLIP	hg19
755_INPUT_S56_L005_R1_001.unassigned.adapterTrim.round2.rmRep.rmDup.sorted.r2.norm.neg.bw	755_INPUT	bigWig-unique	minus strand signal of unique reads	eCLIP	hg19
755_INPUT_S56_L005_R1_001.unassigned.adapterTrim.round2.rmRep.rmDup.sorted.r2.norm.pos.bw	755_INPUT	bigWig+unique	plus strand signal of unique reads	eCLIP	hg19

Data Submission Information No DCC registered objects are available for eCLIP experiment (Exp_UID=755)