ENCORE eCLIP:750

Experiment Information (Status: Released)

	750	750-control
Exp_UID	750	750
RBPARK_Exp_name
ENCODE_ACCESSION	ENCSR820UYE	ENCSR310WYE
ENCODE_alias	gene-yeo:750	gene-yeo:750-control
RBP	PABPN1	PABPN1
Cell_Line	HepG2	HepG2
Batch
Exp_type	eCLIP	control
ENCODE_Antibody_ID	ENCAB032ZZR	ENCAB032ZZR
Antibody	RN023PW	RN023PW
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	429	484

Replicate Information


Rep_UID	750_01	750_02	750_INPUT
Exp UID	750	750	750
Replicate_type	rep1	rep2	control
ENCODE_ACCESSION	ENCLB646INW	ENCLB995NHC	ENCLB473HYJ
ENCODE_alias	gene-yeo:750_01	gene-yeo:750_02	gene-yeo:750_INPUT
Biosample Name	HepG2_062716	HepG2_102015	HepG2_062716
Biosample_ENCODE_Accession	ENCBS768GCL	ENCBS575NGC	ENCBS768GCL
Biosample_ENCODE_Alias	gene-yeo:HepG2_062716	gene-yeo:HepG2_102015	gene-yeo:HepG2_062716
Cell_Line	HepG2	HepG2	HepG2
Culture_Start_Date	2016-06-27	2015-10-20	2016-06-27
Culture_End_Date	2016-07-25	2015-11-17	2016-07-25
Passage	3	4	3

QC Stats

Experiment QC

	750	750-control
Self_consistency_hg38
rescue_GRCh38

Replicate QC


Rep_UID	750_01	750_02	750_INPUT
eCT
Usable_reads
Entropy_hg38

Library-Prep
Sequencing

Library-Prep Information


Rep_UID	750_01	750_02	750_INPUT
library_size_selection_method	agarose gel extraction	agarose gel extraction	agarose gel extraction
strand_specificity	reverse	reverse	reverse
inline_barcode_1	X1A	X2A	none
inline_barcode_2	X1B	X2B	none
i5_barcode	504	504	503
i7_barcode	706	706	705

Sequencing Information


Rep_UID	750_01	750_02	750_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
750_01_PABPN1.R1.fastq.gz	750_01	fastq	reads	paired-ended	1	50	HiSeq4000	eCLIP
750_01_PABPN1.R2.fastq.gz	750_01	fastq	reads	paired-ended	2	50	HiSeq4000	eCLIP
750_02_PABPN1.R1.fastq.gz	750_02	fastq	reads	paired-ended	1	50	HiSeq4000	eCLIP
750_02_PABPN1.R2.fastq.gz	750_02	fastq	reads	paired-ended	2	50	HiSeq4000	eCLIP
750_INPUT_PABPN1.R1.fastq.gz	750_INPUT	fastq	reads	paired-ended	1	50	HiSeq4000	eCLIP
750_INPUT_PABPN1.R2.fastq.gz	750_INPUT	fastq	reads	paired-ended	2	50	HiSeq4000	eCLIP

GRCh38

file_name	Sample ID	file_format	output_type	assay_type	assembly
GRCh38/750.01v02.IDR.out.0102merged.bed.blacklist_removed.bed.narrowPeak.encode.bed.gz	750	final_peaks	peaks	eCLIP	GRCh38
GRCh38_750_01_PABPN1.merged.bam	750_01	bam	alignments	eCLIP	GRCh38
GRCh38_750_01_PABPN1.merged.r2.norm.neg.bw	750_01	bigWig-unique	minus strand signal of unique reads	eCLIP	GRCh38
GRCh38_750_01_PABPN1.merged.r2.norm.pos.bw	750_01	bigWig+unique	plus strand signal of unique reads	eCLIP	GRCh38
GRCh38/750_01.basedon_750_01.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.encode.bed.gz	750_01	bed_eCLIP	peaks	eCLIP	GRCh38
GRCh38/750_01.basedon_750_01.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.bed.bb	750_01	bigBed_eCLIP	peaks	eCLIP	GRCh38
GRCh38_750_02_PABPN1.merged.bam	750_02	bam	alignments	eCLIP	GRCh38
GRCh38_750_02_PABPN1.merged.r2.norm.neg.bw	750_02	bigWig-unique	minus strand signal of unique reads	eCLIP	GRCh38
GRCh38_750_02_PABPN1.merged.r2.norm.pos.bw	750_02	bigWig+unique	plus strand signal of unique reads	eCLIP	GRCh38
GRCh38/750_02.basedon_750_02.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.encode.bed.gz	750_02	bed_eCLIP	peaks	eCLIP	GRCh38
GRCh38/750_02.basedon_750_02.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.bed.bb	750_02	bigBed_eCLIP	peaks	eCLIP	GRCh38
GRCh38_750_INPUT_S91_L008_R1_001.unassigned.adapterTrim.round2.rmRep.rmDup.sorted.bam	750_INPUT	bam	alignments	eCLIP	GRCh38
GRCh38_750_INPUT_S91_L008_R1_001.unassigned.adapterTrim.round2.rmRep.rmDup.sorted.r2.norm.neg.bw	750_INPUT	bigWig-unique	minus strand signal of unique reads	eCLIP	GRCh38
GRCh38_750_INPUT_S91_L008_R1_001.unassigned.adapterTrim.round2.rmRep.rmDup.sorted.r2.norm.pos.bw	750_INPUT	bigWig+unique	plus strand signal of unique reads	eCLIP	GRCh38

hg19

file_name	Sample ID	file_format	output_type	assay_type	assembly
750.01v02.IDR.out.0102merged.bed.blacklist_removed.bed.narrowPeak.encode.bed.gz	750	final_peaks	peaks	eCLIP	hg19
750_01_PABPN1.merged.bam	750_01	bam	alignments	eCLIP	hg19
750_01_PABPN1.merged.r2.norm.neg.bw	750_01	bigWig-unique	minus strand signal of unique reads	eCLIP	hg19
750_01_PABPN1.merged.r2.norm.pos.bw	750_01	bigWig+unique	plus strand signal of unique reads	eCLIP	hg19
750_01.basedon_750_01.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.encode.bed.gz	750_01	bed_eCLIP	peaks	eCLIP	hg19
750_01.basedon_750_01.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.bed.bb	750_01	bigBed_eCLIP	peaks	eCLIP	hg19
750_02_PABPN1.merged.bam	750_02	bam	alignments	eCLIP	hg19
750_02_PABPN1.merged.r2.norm.neg.bw	750_02	bigWig-unique	minus strand signal of unique reads	eCLIP	hg19
750_02_PABPN1.merged.r2.norm.pos.bw	750_02	bigWig+unique	plus strand signal of unique reads	eCLIP	hg19
750_02.basedon_750_02.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.encode.bed.gz	750_02	bed_eCLIP	peaks	eCLIP	hg19
750_02.basedon_750_02.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.bed.bb	750_02	bigBed_eCLIP	peaks	eCLIP	hg19
750_INPUT_S91_L008_R1_001.unassigned.adapterTrim.round2.rmRep.rmDup.sorted.bam	750_INPUT	bam	alignments	eCLIP	hg19
750_INPUT_S91_L008_R1_001.unassigned.adapterTrim.round2.rmRep.rmDup.sorted.r2.norm.neg.bw	750_INPUT	bigWig-unique	minus strand signal of unique reads	eCLIP	hg19
750_INPUT_S91_L008_R1_001.unassigned.adapterTrim.round2.rmRep.rmDup.sorted.r2.norm.pos.bw	750_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=750)