DDX51      eCLIP in K562

Experiment Information (Status: Released)
586586-control
Exp_UID586586
RBPARK_Exp_name
ENCODE_ACCESSIONENCSR145NLRENCSR268SKI
ENCODE_aliasgene-yeo:586gene-yeo:586-control
RBPDDX51DDX51
Cell_LineK562K562
Batch
Exp_typeeCLIPcontrol
ENCODE_Antibody_IDENCAB820ZVZENCAB820ZVZ
AntibodyA301-089AA301-089A
Lot_num11
crosslinking_methodultraviolet irradiationultraviolet irradiation
queried_RNP_size_range175-300175-300
Self_consistency_hg38
rescue_GRCh38
StatusReleasedReleased
ProjectENCODE4ENCODE4
ID387442




Replicate Information
Rep_UID586_01586_02586_INPUT
Exp UID586586586
Replicate_typerep1rep2control
ENCODE_ACCESSIONENCLB040QNYENCLB448MTRENCLB749DJU
ENCODE_aliasgene-yeo:586_01gene-yeo:586_02gene-yeo:586_INPUT
Biosample NameK562_081815K562_091615K562_081815
Biosample_ENCODE_AccessionENCBS175JIHENCBS505ILKENCBS175JIH
Biosample_ENCODE_Aliasgene-yeo:K562_081815gene-yeo:K562_091615gene-yeo:K562_081815
Cell_LineK562K562K562
Culture_Start_Date2015-08-182015-09-162015-08-18
Culture_End_Date2015-09-082015-10-142015-09-08
Passage545




QC Stats
Experiment QC
586586-control
Self_consistency_hg38
rescue_GRCh38


Replicate QC
Rep_UID586_01586_02586_INPUT
eCT
Usable_reads
Entropy_hg38




Library-Prep Information
Rep_UID586_01586_02586_INPUT
library_size_selection_methodagarose gel extractionagarose gel extractionagarose gel extraction
strand_specificityreversereversereverse
inline_barcode_1X1AX2Anone
inline_barcode_2X1BX2Bnone
i5_barcode503503504
i7_barcode702702701




Sequencing Information
Rep_UID586_01586_02586_INPUT
seq_read_typepaired-endedpaired-endedpaired-ended
read_length505050
machine
flowcell
lane




File Information

FASTQ

file_nameSample IDfile_formatoutput_typerun_typepaired_endread_lengthplatformassay_type
586_01_DDX51.R1.fastq.gz586_01fastqreadspaired-ended150HiSeq4000eCLIP
586_01_DDX51.R2.fastq.gz586_01fastqreadspaired-ended250HiSeq4000eCLIP
586_02_DDX51.R1.fastq.gz586_02fastqreadspaired-ended150HiSeq4000eCLIP
586_02_DDX51.R2.fastq.gz586_02fastqreadspaired-ended250HiSeq4000eCLIP
586_INPUT_DDX51.R1.fastq.gz586_INPUTfastqreadspaired-ended150HiSeq4000eCLIP
586_INPUT_DDX51.R2.fastq.gz586_INPUTfastqreadspaired-ended250HiSeq4000eCLIP


GRCh38

file_nameSample IDfile_formatoutput_typeassay_typeassemblygenome_annotationNote
GRCh38/586.01v02.IDR.out.0102merged.bed.blacklist_removed.bed.narrowPeak.encode.bed.gz586final_peakspeakseCLIPGRCh38
GRCh38_586_01_DDX51.merged.bam586_01bamalignmentseCLIPGRCh38
GRCh38_586_01_DDX51.merged.r2.norm.neg.bw586_01bigWig-uniqueminus strand signal of unique readseCLIPGRCh38
GRCh38_586_01_DDX51.merged.r2.norm.pos.bw586_01bigWig+uniqueplus strand signal of unique readseCLIPGRCh38
GRCh38/586_01.basedon_586_01.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.encode.bed.gz586_01bed_eCLIPpeakseCLIPGRCh38
GRCh38/586_01.basedon_586_01.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.bed.bb586_01bigBed_eCLIPpeakseCLIPGRCh38
GRCh38_586_02_DDX51.merged.bam586_02bamalignmentseCLIPGRCh38
GRCh38_586_02_DDX51.merged.r2.norm.neg.bw586_02bigWig-uniqueminus strand signal of unique readseCLIPGRCh38
GRCh38_586_02_DDX51.merged.r2.norm.pos.bw586_02bigWig+uniqueplus strand signal of unique readseCLIPGRCh38
GRCh38/586_02.basedon_586_02.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.encode.bed.gz586_02bed_eCLIPpeakseCLIPGRCh38
GRCh38/586_02.basedon_586_02.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.bed.bb586_02bigBed_eCLIPpeakseCLIPGRCh38
GRCh38_586_INPUT_S10_L004_R1_001.unassigned.adapterTrim.round2.rmRep.rmDup.sorted.bam586_INPUTbamalignmentseCLIPGRCh38
GRCh38_586_INPUT_S10_L004_R1_001.unassigned.adapterTrim.round2.rmRep.rmDup.sorted.r2.norm.neg.bw586_INPUTbigWig-uniqueminus strand signal of unique readseCLIPGRCh38
GRCh38_586_INPUT_S10_L004_R1_001.unassigned.adapterTrim.round2.rmRep.rmDup.sorted.r2.norm.pos.bw586_INPUTbigWig+uniqueplus strand signal of unique readseCLIPGRCh38


hg19

file_nameSample IDfile_formatoutput_typeassay_typeassemblygenome_annotationNote
586.01v02.IDR.out.0102merged.bed.blacklist_removed.bed.narrowPeak.encode.bed.gz586final_peakspeakseCLIPhg19
586_01_DDX51.merged.bam586_01bamalignmentseCLIPhg19
586_01_DDX51.merged.r2.norm.neg.bw586_01bigWig-uniqueminus strand signal of unique readseCLIPhg19
586_01_DDX51.merged.r2.norm.pos.bw586_01bigWig+uniqueplus strand signal of unique readseCLIPhg19
586_01.basedon_586_01.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.encode.bed.gz586_01bed_eCLIPpeakseCLIPhg19
586_01.basedon_586_01.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.bed.bb586_01bigBed_eCLIPpeakseCLIPhg19
586_02_DDX51.merged.bam586_02bamalignmentseCLIPhg19
586_02_DDX51.merged.r2.norm.neg.bw586_02bigWig-uniqueminus strand signal of unique readseCLIPhg19
586_02_DDX51.merged.r2.norm.pos.bw586_02bigWig+uniqueplus strand signal of unique readseCLIPhg19
586_02.basedon_586_02.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.encode.bed.gz586_02bed_eCLIPpeakseCLIPhg19
586_02.basedon_586_02.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.bed.bb586_02bigBed_eCLIPpeakseCLIPhg19
586_INPUT_S10_L004_R1_001.unassigned.adapterTrim.round2.rmRep.rmDup.sorted.bam586_INPUTbamalignmentseCLIPhg19
586_INPUT_S10_L004_R1_001.unassigned.adapterTrim.round2.rmRep.rmDup.sorted.r2.norm.neg.bw586_INPUTbigWig-uniqueminus strand signal of unique readseCLIPhg19
586_INPUT_S10_L004_R1_001.unassigned.adapterTrim.round2.rmRep.rmDup.sorted.r2.norm.pos.bw586_INPUTbigWig+uniqueplus strand signal of unique readseCLIPhg19






Data Submission Information

Files

ENCODE_aliasENCODE_accessionobject_typeassay_typeSample_IDStatusProject
gene-yeo:4114_CLIP1_rep1.vs.4114_CLIP2_rep2.sorted.nh.narrowPeak.gzENCFF649IRCfile_finalPeakseCLIP4114ReleasedENCODE4
gene-yeo:4155_CLIP1_rep1.vs.4155_CLIP2_rep2.sorted.nh.bbENCFF078LDGfile_finalPeaks_bbeCLIP4114ReleasedENCODE4
gene-yeo:4117_CLIP1_rep1.vs.4117_CLIP2_rep2.sorted.nh.narrowPeak.gzENCFF662DZHfile_finalPeakseCLIP4117ReleasedENCODE4
gene-yeo:4158_CLIP1_rep1.vs.4158_CLIP2_rep2.sorted.nh.bbENCFF008BDGfile_finalPeaks_bbeCLIP4117ReleasedENCODE4