ENCORE eCLIP:744

Experiment Information (Status: Released)

	744	744-control
Exp_UID	744	744
RBPARK_Exp_name
ENCODE_ACCESSION	ENCSR050BDZ	ENCSR130ZDS
ENCODE_alias	gene-yeo:744	gene-yeo:744-control
RBP	SDAD1	SDAD1
Cell_Line	HepG2	HepG2
Batch
Exp_type	eCLIP	control
ENCODE_Antibody_ID	ENCAB322LZP	ENCAB322LZP
Antibody	A304-692A	A304-692A
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	426	481

Replicate Information


Rep_UID	744_01	744_02	744_INPUT
Exp UID	744	744	744
Replicate_type	rep1	rep2	control
ENCODE_ACCESSION	ENCLB394JGD	ENCLB908LJX	ENCLB311GKF
ENCODE_alias	gene-yeo:744_01	gene-yeo:744_02	gene-yeo:744_INPUT
Biosample Name	HepG2_102015	HepG2_062716	HepG2_102015
Biosample_ENCODE_Accession	ENCBS575NGC	ENCBS768GCL	ENCBS575NGC
Biosample_ENCODE_Alias	gene-yeo:HepG2_102015	gene-yeo:HepG2_062716	gene-yeo:HepG2_102015
Cell_Line	HepG2	HepG2	HepG2
Culture_Start_Date	2015-10-20	2016-06-27	2015-10-20
Culture_End_Date	2015-11-17	2016-07-25	2015-11-17
Passage	4	3	4

QC Stats

Experiment QC

	744	744-control
Self_consistency_hg38
rescue_GRCh38

Replicate QC


Rep_UID	744_01	744_02	744_INPUT
eCT
Usable_reads
Entropy_hg38

Library-Prep
Sequencing

Library-Prep Information


Rep_UID	744_01	744_02	744_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	505	505	506
i7_barcode	704	704	703

Sequencing Information


Rep_UID	744_01	744_02	744_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
744_01_SDAD1.R1.fastq.gz	744_01	fastq	reads	paired-ended	1	50	HiSeq4000	eCLIP
744_01_SDAD1.R2.fastq.gz	744_01	fastq	reads	paired-ended	2	50	HiSeq4000	eCLIP
744_02_SDAD1.R1.fastq.gz	744_02	fastq	reads	paired-ended	1	50	HiSeq4000	eCLIP
744_02_SDAD1.R2.fastq.gz	744_02	fastq	reads	paired-ended	2	50	HiSeq4000	eCLIP
744_INPUT_SDAD1.R1.fastq.gz	744_INPUT	fastq	reads	paired-ended	1	50	HiSeq4000	eCLIP
744_INPUT_SDAD1.R2.fastq.gz	744_INPUT	fastq	reads	paired-ended	2	50	HiSeq4000	eCLIP

GRCh38

file_name	Sample ID	file_format	output_type	assay_type	assembly
GRCh38/744.01v02.IDR.out.0102merged.bed.blacklist_removed.bed.narrowPeak.encode.bed.gz	744	final_peaks	peaks	eCLIP	GRCh38
GRCh38_744_01_SDAD1.merged.bam	744_01	bam	alignments	eCLIP	GRCh38
GRCh38_744_01_SDAD1.merged.r2.norm.neg.bw	744_01	bigWig-unique	minus strand signal of unique reads	eCLIP	GRCh38
GRCh38_744_01_SDAD1.merged.r2.norm.pos.bw	744_01	bigWig+unique	plus strand signal of unique reads	eCLIP	GRCh38
GRCh38/744_01.basedon_744_01.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.encode.bed.gz	744_01	bed_eCLIP	peaks	eCLIP	GRCh38
GRCh38/744_01.basedon_744_01.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.bed.bb	744_01	bigBed_eCLIP	peaks	eCLIP	GRCh38
GRCh38_744_02_SDAD1.merged.bam	744_02	bam	alignments	eCLIP	GRCh38
GRCh38_744_02_SDAD1.merged.r2.norm.neg.bw	744_02	bigWig-unique	minus strand signal of unique reads	eCLIP	GRCh38
GRCh38_744_02_SDAD1.merged.r2.norm.pos.bw	744_02	bigWig+unique	plus strand signal of unique reads	eCLIP	GRCh38
GRCh38/744_02.basedon_744_02.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.encode.bed.gz	744_02	bed_eCLIP	peaks	eCLIP	GRCh38
GRCh38/744_02.basedon_744_02.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.bed.bb	744_02	bigBed_eCLIP	peaks	eCLIP	GRCh38
GRCh38_744_INPUT_S26_L003_R1_001.unassigned.adapterTrim.round2.rmRep.rmDup.sorted.bam	744_INPUT	bam	alignments	eCLIP	GRCh38
GRCh38_744_INPUT_S26_L003_R1_001.unassigned.adapterTrim.round2.rmRep.rmDup.sorted.r2.norm.neg.bw	744_INPUT	bigWig-unique	minus strand signal of unique reads	eCLIP	GRCh38
GRCh38_744_INPUT_S26_L003_R1_001.unassigned.adapterTrim.round2.rmRep.rmDup.sorted.r2.norm.pos.bw	744_INPUT	bigWig+unique	plus strand signal of unique reads	eCLIP	GRCh38

hg19

file_name	Sample ID	file_format	output_type	assay_type	assembly
744.01v02.IDR.out.0102merged.bed.blacklist_removed.bed.narrowPeak.encode.bed.gz	744	final_peaks	peaks	eCLIP	hg19
744_01_SDAD1.merged.bam	744_01	bam	alignments	eCLIP	hg19
744_01_SDAD1.merged.r2.norm.neg.bw	744_01	bigWig-unique	minus strand signal of unique reads	eCLIP	hg19
744_01_SDAD1.merged.r2.norm.pos.bw	744_01	bigWig+unique	plus strand signal of unique reads	eCLIP	hg19
744_01.basedon_744_01.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.encode.bed.gz	744_01	bed_eCLIP	peaks	eCLIP	hg19
744_01.basedon_744_01.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.bed.bb	744_01	bigBed_eCLIP	peaks	eCLIP	hg19
744_02_SDAD1.merged.bam	744_02	bam	alignments	eCLIP	hg19
744_02_SDAD1.merged.r2.norm.neg.bw	744_02	bigWig-unique	minus strand signal of unique reads	eCLIP	hg19
744_02_SDAD1.merged.r2.norm.pos.bw	744_02	bigWig+unique	plus strand signal of unique reads	eCLIP	hg19
744_02.basedon_744_02.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.encode.bed.gz	744_02	bed_eCLIP	peaks	eCLIP	hg19
744_02.basedon_744_02.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.bed.bb	744_02	bigBed_eCLIP	peaks	eCLIP	hg19
744_INPUT_S26_L003_R1_001.unassigned.adapterTrim.round2.rmRep.rmDup.sorted.bam	744_INPUT	bam	alignments	eCLIP	hg19
744_INPUT_S26_L003_R1_001.unassigned.adapterTrim.round2.rmRep.rmDup.sorted.r2.norm.neg.bw	744_INPUT	bigWig-unique	minus strand signal of unique reads	eCLIP	hg19
744_INPUT_S26_L003_R1_001.unassigned.adapterTrim.round2.rmRep.rmDup.sorted.r2.norm.pos.bw	744_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=744)