ENCORE eCLIP:683

Experiment Information (Status: Released)

	683	683-control
Exp_UID	683	683
RBPARK_Exp_name
ENCODE_ACCESSION	ENCSR181NRW	ENCSR716DGM
ENCODE_alias	gene-yeo:683	gene-yeo:683-control
RBP	ZC3H8	ZC3H8
Cell_Line	K562	K562
Batch
Exp_type	eCLIP	control
ENCODE_Antibody_ID	ENCAB192ZJZ	ENCAB192ZJZ
Antibody	A303-089A	A303-089A
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	400	455

Replicate Information


Rep_UID	683_01	683_02	683_INPUT
Exp UID	683	683	683
Replicate_type	rep1	rep2	control
ENCODE_ACCESSION	ENCLB991KCZ	ENCLB850GSZ	ENCLB567GTS
ENCODE_alias	gene-yeo:683_01	gene-yeo:683_02	gene-yeo:683_INPUT
Biosample Name	K562_091615	K562_012016	K562_091615
Biosample_ENCODE_Accession	ENCBS505ILK	ENCBS039CVO	ENCBS505ILK
Biosample_ENCODE_Alias	gene-yeo:K562_091615	gene-yeo:K562_012016	gene-yeo:K562_091615
Cell_Line	K562	K562	K562
Culture_Start_Date	2015-09-16	2016-01-20	2015-09-16
Culture_End_Date	2015-10-14	2016-02-17	2015-10-14
Passage	4	5	4

QC Stats

Experiment QC

	683	683-control
Self_consistency_hg38
rescue_GRCh38

Replicate QC


Rep_UID	683_01	683_02	683_INPUT
eCT
Usable_reads
Entropy_hg38

Library-Prep
Sequencing

Library-Prep Information


Rep_UID	683_01	683_02	683_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	702	702	701

Sequencing Information


Rep_UID	683_01	683_02	683_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
683_01_ZC3H8.R1.fastq.gz	683_01	fastq	reads	paired-ended	1	50	HiSeq4000	eCLIP
683_01_ZC3H8.R2.fastq.gz	683_01	fastq	reads	paired-ended	2	50	HiSeq4000	eCLIP
683_02_ZC3H8.R1.fastq.gz	683_02	fastq	reads	paired-ended	1	50	HiSeq4000	eCLIP
683_02_ZC3H8.R2.fastq.gz	683_02	fastq	reads	paired-ended	2	50	HiSeq4000	eCLIP
683_INPUT_ZC3H8.R1.fastq.gz	683_INPUT	fastq	reads	paired-ended	1	50	HiSeq4000	eCLIP
683_INPUT_ZC3H8.R2.fastq.gz	683_INPUT	fastq	reads	paired-ended	2	50	HiSeq4000	eCLIP

GRCh38

file_name	Sample ID	file_format	output_type	assay_type	assembly
GRCh38/683.01v02.IDR.out.0102merged.bed.blacklist_removed.bed.narrowPeak.encode.bed.gz	683	final_peaks	peaks	eCLIP	GRCh38
GRCh38_683_01_ZC3H8.merged.bam	683_01	bam	alignments	eCLIP	GRCh38
GRCh38_683_01_ZC3H8.merged.r2.norm.neg.bw	683_01	bigWig-unique	minus strand signal of unique reads	eCLIP	GRCh38
GRCh38_683_01_ZC3H8.merged.r2.norm.pos.bw	683_01	bigWig+unique	plus strand signal of unique reads	eCLIP	GRCh38
GRCh38/683_01.basedon_683_01.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.encode.bed.gz	683_01	bed_eCLIP	peaks	eCLIP	GRCh38
GRCh38/683_01.basedon_683_01.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.bed.bb	683_01	bigBed_eCLIP	peaks	eCLIP	GRCh38
GRCh38_683_02_ZC3H8.merged.bam	683_02	bam	alignments	eCLIP	GRCh38
GRCh38_683_02_ZC3H8.merged.r2.norm.neg.bw	683_02	bigWig-unique	minus strand signal of unique reads	eCLIP	GRCh38
GRCh38_683_02_ZC3H8.merged.r2.norm.pos.bw	683_02	bigWig+unique	plus strand signal of unique reads	eCLIP	GRCh38
GRCh38/683_02.basedon_683_02.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.encode.bed.gz	683_02	bed_eCLIP	peaks	eCLIP	GRCh38
GRCh38/683_02.basedon_683_02.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.bed.bb	683_02	bigBed_eCLIP	peaks	eCLIP	GRCh38
GRCh38_683_INPUT_S67_L006_R1_001.unassigned.adapterTrim.round2.rmRep.rmDup.sorted.bam	683_INPUT	bam	alignments	eCLIP	GRCh38
GRCh38_683_INPUT_S67_L006_R1_001.unassigned.adapterTrim.round2.rmRep.rmDup.sorted.r2.norm.neg.bw	683_INPUT	bigWig-unique	minus strand signal of unique reads	eCLIP	GRCh38
GRCh38_683_INPUT_S67_L006_R1_001.unassigned.adapterTrim.round2.rmRep.rmDup.sorted.r2.norm.pos.bw	683_INPUT	bigWig+unique	plus strand signal of unique reads	eCLIP	GRCh38

hg19

file_name	Sample ID	file_format	output_type	assay_type	assembly
683.01v02.IDR.out.0102merged.bed.blacklist_removed.bed.narrowPeak.encode.bed.gz	683	final_peaks	peaks	eCLIP	hg19
683_01_ZC3H8.merged.bam	683_01	bam	alignments	eCLIP	hg19
683_01_ZC3H8.merged.r2.norm.neg.bw	683_01	bigWig-unique	minus strand signal of unique reads	eCLIP	hg19
683_01_ZC3H8.merged.r2.norm.pos.bw	683_01	bigWig+unique	plus strand signal of unique reads	eCLIP	hg19
683_01.basedon_683_01.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.encode.bed.gz	683_01	bed_eCLIP	peaks	eCLIP	hg19
683_01.basedon_683_01.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.bed.bb	683_01	bigBed_eCLIP	peaks	eCLIP	hg19
683_02_ZC3H8.merged.bam	683_02	bam	alignments	eCLIP	hg19
683_02_ZC3H8.merged.r2.norm.neg.bw	683_02	bigWig-unique	minus strand signal of unique reads	eCLIP	hg19
683_02_ZC3H8.merged.r2.norm.pos.bw	683_02	bigWig+unique	plus strand signal of unique reads	eCLIP	hg19
683_02.basedon_683_02.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.encode.bed.gz	683_02	bed_eCLIP	peaks	eCLIP	hg19
683_02.basedon_683_02.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.bed.bb	683_02	bigBed_eCLIP	peaks	eCLIP	hg19
683_INPUT_S67_L006_R1_001.unassigned.adapterTrim.round2.rmRep.rmDup.sorted.bam	683_INPUT	bam	alignments	eCLIP	hg19
683_INPUT_S67_L006_R1_001.unassigned.adapterTrim.round2.rmRep.rmDup.sorted.r2.norm.neg.bw	683_INPUT	bigWig-unique	minus strand signal of unique reads	eCLIP	hg19
683_INPUT_S67_L006_R1_001.unassigned.adapterTrim.round2.rmRep.rmDup.sorted.r2.norm.pos.bw	683_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=683)