ENCORE eCLIP:745

Experiment Information (Status: Released)

	745	745-control
Exp_UID	745	745
RBPARK_Exp_name
ENCODE_ACCESSION	ENCSR337XGI	ENCSR451BRX
ENCODE_alias	gene-yeo:745	gene-yeo:745-control
RBP	SAFB	SAFB
Cell_Line	HepG2	HepG2
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	427	482

Replicate Information


Rep_UID	745_01	745_02	745_INPUT
Exp UID	745	745	745
Replicate_type	rep1	rep2	control
ENCODE_ACCESSION	ENCLB573KAQ	ENCLB583JOA	ENCLB089INP
ENCODE_alias	gene-yeo:745_01	gene-yeo:745_02	gene-yeo:745_INPUT
Biosample Name	HepG2_012016	HepG2_062716	HepG2_012016
Biosample_ENCODE_Accession	ENCBS074YUC	ENCBS768GCL	ENCBS074YUC
Biosample_ENCODE_Alias	gene-yeo:HepG2_012016	gene-yeo:HepG2_062716	gene-yeo:HepG2_012016
Cell_Line	HepG2	HepG2	HepG2
Culture_Start_Date	2016-01-20	2016-06-27	2016-01-20
Culture_End_Date	2016-02-17	2016-07-25	2016-02-17
Passage	4	3	4

QC Stats

Experiment QC

	745	745-control
Self_consistency_hg38
rescue_GRCh38

Replicate QC


Rep_UID	745_01	745_02	745_INPUT
eCT
Usable_reads
Entropy_hg38

Library-Prep
Sequencing

Library-Prep Information


Rep_UID	745_01	745_02	745_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	504	504	503
i7_barcode	702	702	701

Sequencing Information


Rep_UID	745_01	745_02	745_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
745_01_SAFB.R1.fastq.gz	745_01	fastq	reads	paired-ended	1	50	HiSeq4000	eCLIP
745_01_SAFB.R2.fastq.gz	745_01	fastq	reads	paired-ended	2	50	HiSeq4000	eCLIP
745_02_SAFB.R1.fastq.gz	745_02	fastq	reads	paired-ended	1	50	HiSeq4000	eCLIP
745_02_SAFB.R2.fastq.gz	745_02	fastq	reads	paired-ended	2	50	HiSeq4000	eCLIP
745_INPUT_SAFB.R1.fastq.gz	745_INPUT	fastq	reads	paired-ended	1	50	HiSeq4000	eCLIP
745_INPUT_SAFB.R2.fastq.gz	745_INPUT	fastq	reads	paired-ended	2	50	HiSeq4000	eCLIP

GRCh38

file_name	Sample ID	file_format	output_type	assay_type	assembly
GRCh38/745.01v02.IDR.out.0102merged.bed.blacklist_removed.bed.narrowPeak.encode.bed.gz	745	final_peaks	peaks	eCLIP	GRCh38
GRCh38_745_01_SAFB.merged.bam	745_01	bam	alignments	eCLIP	GRCh38
GRCh38_745_01_SAFB.merged.r2.norm.neg.bw	745_01	bigWig-unique	minus strand signal of unique reads	eCLIP	GRCh38
GRCh38_745_01_SAFB.merged.r2.norm.pos.bw	745_01	bigWig+unique	plus strand signal of unique reads	eCLIP	GRCh38
GRCh38/745_01.basedon_745_01.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.encode.bed.gz	745_01	bed_eCLIP	peaks	eCLIP	GRCh38
GRCh38/745_01.basedon_745_01.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.bed.bb	745_01	bigBed_eCLIP	peaks	eCLIP	GRCh38
GRCh38_745_02_SAFB.merged.bam	745_02	bam	alignments	eCLIP	GRCh38
GRCh38_745_02_SAFB.merged.r2.norm.neg.bw	745_02	bigWig-unique	minus strand signal of unique reads	eCLIP	GRCh38
GRCh38_745_02_SAFB.merged.r2.norm.pos.bw	745_02	bigWig+unique	plus strand signal of unique reads	eCLIP	GRCh38
GRCh38/745_02.basedon_745_02.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.encode.bed.gz	745_02	bed_eCLIP	peaks	eCLIP	GRCh38
GRCh38/745_02.basedon_745_02.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.bed.bb	745_02	bigBed_eCLIP	peaks	eCLIP	GRCh38
GRCh38_745_INPUT_S34_L003_R1_001.unassigned.adapterTrim.round2.rmRep.rmDup.sorted.bam	745_INPUT	bam	alignments	eCLIP	GRCh38
GRCh38_745_INPUT_S34_L003_R1_001.unassigned.adapterTrim.round2.rmRep.rmDup.sorted.r2.norm.neg.bw	745_INPUT	bigWig-unique	minus strand signal of unique reads	eCLIP	GRCh38
GRCh38_745_INPUT_S34_L003_R1_001.unassigned.adapterTrim.round2.rmRep.rmDup.sorted.r2.norm.pos.bw	745_INPUT	bigWig+unique	plus strand signal of unique reads	eCLIP	GRCh38

hg19

file_name	Sample ID	file_format	output_type	assay_type	assembly
745.01v02.IDR.out.0102merged.bed.blacklist_removed.bed.narrowPeak.encode.bed.gz	745	final_peaks	peaks	eCLIP	hg19
745_01_SAFB.merged.bam	745_01	bam	alignments	eCLIP	hg19
745_01_SAFB.merged.r2.norm.neg.bw	745_01	bigWig-unique	minus strand signal of unique reads	eCLIP	hg19
745_01_SAFB.merged.r2.norm.pos.bw	745_01	bigWig+unique	plus strand signal of unique reads	eCLIP	hg19
745_01.basedon_745_01.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.encode.bed.gz	745_01	bed_eCLIP	peaks	eCLIP	hg19
745_01.basedon_745_01.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.bed.bb	745_01	bigBed_eCLIP	peaks	eCLIP	hg19
745_02_SAFB.merged.bam	745_02	bam	alignments	eCLIP	hg19
745_02_SAFB.merged.r2.norm.neg.bw	745_02	bigWig-unique	minus strand signal of unique reads	eCLIP	hg19
745_02_SAFB.merged.r2.norm.pos.bw	745_02	bigWig+unique	plus strand signal of unique reads	eCLIP	hg19
745_02.basedon_745_02.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.encode.bed.gz	745_02	bed_eCLIP	peaks	eCLIP	hg19
745_02.basedon_745_02.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.bed.bb	745_02	bigBed_eCLIP	peaks	eCLIP	hg19
745_INPUT_S34_L003_R1_001.unassigned.adapterTrim.round2.rmRep.rmDup.sorted.bam	745_INPUT	bam	alignments	eCLIP	hg19
745_INPUT_S34_L003_R1_001.unassigned.adapterTrim.round2.rmRep.rmDup.sorted.r2.norm.neg.bw	745_INPUT	bigWig-unique	minus strand signal of unique reads	eCLIP	hg19
745_INPUT_S34_L003_R1_001.unassigned.adapterTrim.round2.rmRep.rmDup.sorted.r2.norm.pos.bw	745_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=745)