ENCORE eCLIP:746

Experiment Information (Status: Released)

	746	746-control
Exp_UID	746	746
RBPARK_Exp_name
ENCODE_ACCESSION	ENCSR484LAB	ENCSR111USM
ENCODE_alias	gene-yeo:746	gene-yeo:746-control
RBP	SAFB	SAFB
Cell_Line	K562	K562
Batch
Exp_type	eCLIP	control
ENCODE_Antibody_ID	ENCAB180KRZ	ENCAB180KRZ
Antibody	Zen bioscience 200580	Zen bioscience 200580
Lot_num
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	428	483

Replicate Information


Rep_UID	746_01	746_02	746_INPUT
Exp UID	746	746	746
Replicate_type	rep1	rep2	control
ENCODE_ACCESSION	ENCLB544WSP	ENCLB693IZD	ENCLB282ZSM
ENCODE_alias	gene-yeo:746_01	gene-yeo:746_02	gene-yeo:746_INPUT
Biosample Name	K562_081815	K562_012016	K562_081815
Biosample_ENCODE_Accession	ENCBS175JIH	ENCBS039CVO	ENCBS175JIH
Biosample_ENCODE_Alias	gene-yeo:K562_081815	gene-yeo:K562_012016	gene-yeo:K562_081815
Cell_Line	K562	K562	K562
Culture_Start_Date	2015-08-18	2016-01-20	2015-08-18
Culture_End_Date	2015-09-08	2016-02-17	2015-09-08
Passage	5	5	5

QC Stats

Experiment QC

	746	746-control
Self_consistency_hg38
rescue_GRCh38

Replicate QC


Rep_UID	746_01	746_02	746_INPUT
eCT
Usable_reads
Entropy_hg38

Library-Prep
Sequencing

Library-Prep Information


Rep_UID	746_01	746_02	746_INPUT
library_size_selection_method	agarose gel extraction	agarose gel extraction	agarose gel extraction
strand_specificity	reverse	reverse	reverse
inline_barcode_1	A01	C01	none
inline_barcode_2	B06	D08fixed	none
i5_barcode	503	503	504
i7_barcode	702	702	701

Sequencing Information


Rep_UID	746_01	746_02	746_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
746_01_SAFB.R1.fastq.gz	746_01	fastq	reads	paired-ended	1	50	HiSeq4000	eCLIP
746_01_SAFB.R2.fastq.gz	746_01	fastq	reads	paired-ended	2	50	HiSeq4000	eCLIP
746_02_SAFB.R1.fastq.gz	746_02	fastq	reads	paired-ended	1	50	HiSeq4000	eCLIP
746_02_SAFB.R2.fastq.gz	746_02	fastq	reads	paired-ended	2	50	HiSeq4000	eCLIP
746_INPUT_SAFB.R1.fastq.gz	746_INPUT	fastq	reads	paired-ended	1	50	HiSeq4000	eCLIP
746_INPUT_SAFB.R2.fastq.gz	746_INPUT	fastq	reads	paired-ended	2	50	HiSeq4000	eCLIP

GRCh38

file_name	Sample ID	file_format	output_type	assay_type	assembly
GRCh38/746.01v02.IDR.out.0102merged.bed.blacklist_removed.bed.narrowPeak.encode.bed.gz	746	final_peaks	peaks	eCLIP	GRCh38
GRCh38_746_01_SAFB.merged.bam	746_01	bam	alignments	eCLIP	GRCh38
GRCh38_746_01_SAFB.merged.r2.norm.neg.bw	746_01	bigWig-unique	minus strand signal of unique reads	eCLIP	GRCh38
GRCh38_746_01_SAFB.merged.r2.norm.pos.bw	746_01	bigWig+unique	plus strand signal of unique reads	eCLIP	GRCh38
GRCh38/746_01.basedon_746_01.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.encode.bed.gz	746_01	bed_eCLIP	peaks	eCLIP	GRCh38
GRCh38/746_01.basedon_746_01.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.bed.bb	746_01	bigBed_eCLIP	peaks	eCLIP	GRCh38
GRCh38_746_02_SAFB.merged.bam	746_02	bam	alignments	eCLIP	GRCh38
GRCh38_746_02_SAFB.merged.r2.norm.neg.bw	746_02	bigWig-unique	minus strand signal of unique reads	eCLIP	GRCh38
GRCh38_746_02_SAFB.merged.r2.norm.pos.bw	746_02	bigWig+unique	plus strand signal of unique reads	eCLIP	GRCh38
GRCh38/746_02.basedon_746_02.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.encode.bed.gz	746_02	bed_eCLIP	peaks	eCLIP	GRCh38
GRCh38/746_02.basedon_746_02.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.bed.bb	746_02	bigBed_eCLIP	peaks	eCLIP	GRCh38
GRCh38_746_INPUT_S22_L002_R1_001.unassigned.adapterTrim.round2.rmRep.rmDup.sorted.bam	746_INPUT	bam	alignments	eCLIP	GRCh38
GRCh38_746_INPUT_S22_L002_R1_001.unassigned.adapterTrim.round2.rmRep.rmDup.sorted.r2.norm.neg.bw	746_INPUT	bigWig-unique	minus strand signal of unique reads	eCLIP	GRCh38
GRCh38_746_INPUT_S22_L002_R1_001.unassigned.adapterTrim.round2.rmRep.rmDup.sorted.r2.norm.pos.bw	746_INPUT	bigWig+unique	plus strand signal of unique reads	eCLIP	GRCh38

hg19

file_name	Sample ID	file_format	output_type	assay_type	assembly
746.01v02.IDR.out.0102merged.bed.blacklist_removed.bed.narrowPeak.encode.bed.gz	746	final_peaks	peaks	eCLIP	hg19
746_01_SAFB.merged.bam	746_01	bam	alignments	eCLIP	hg19
746_01_SAFB.merged.r2.norm.neg.bw	746_01	bigWig-unique	minus strand signal of unique reads	eCLIP	hg19
746_01_SAFB.merged.r2.norm.pos.bw	746_01	bigWig+unique	plus strand signal of unique reads	eCLIP	hg19
746_01.basedon_746_01.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.encode.bed.gz	746_01	bed_eCLIP	peaks	eCLIP	hg19
746_01.basedon_746_01.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.bed.bb	746_01	bigBed_eCLIP	peaks	eCLIP	hg19
746_02_SAFB.merged.bam	746_02	bam	alignments	eCLIP	hg19
746_02_SAFB.merged.r2.norm.neg.bw	746_02	bigWig-unique	minus strand signal of unique reads	eCLIP	hg19
746_02_SAFB.merged.r2.norm.pos.bw	746_02	bigWig+unique	plus strand signal of unique reads	eCLIP	hg19
746_02.basedon_746_02.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.encode.bed.gz	746_02	bed_eCLIP	peaks	eCLIP	hg19
746_02.basedon_746_02.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.bed.bb	746_02	bigBed_eCLIP	peaks	eCLIP	hg19
746_INPUT_S22_L002_R1_001.unassigned.adapterTrim.round2.rmRep.rmDup.sorted.bam	746_INPUT	bam	alignments	eCLIP	hg19
746_INPUT_S22_L002_R1_001.unassigned.adapterTrim.round2.rmRep.rmDup.sorted.r2.norm.neg.bw	746_INPUT	bigWig-unique	minus strand signal of unique reads	eCLIP	hg19
746_INPUT_S22_L002_R1_001.unassigned.adapterTrim.round2.rmRep.rmDup.sorted.r2.norm.pos.bw	746_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=746)