SUPV3L1      eCLIP in K562

Experiment Information (Status: Released)
663663-control
Exp_UID663663
RBPARK_Exp_name
ENCODE_ACCESSIONENCSR580OFIENCSR328KKB
ENCODE_aliasgene-yeo:663gene-yeo:663-control
RBPSUPV3L1SUPV3L1
Cell_LineK562K562
Batch
Exp_typeeCLIPcontrol
ENCODE_Antibody_IDENCAB067CNBENCAB067CNB
AntibodyA303-056AA303-056A
Lot_num11
crosslinking_methodultraviolet irradiationultraviolet irradiation
queried_RNP_size_range175-300175-300
Self_consistency_hg38
rescue_GRCh38
StatusReleasedReleased
ProjectENCODE4ENCODE4
ID396451




Replicate Information
Rep_UID663_01663_02663_INPUT
Exp UID663663663
Replicate_typerep1rep2control
ENCODE_ACCESSIONENCLB211FRCENCLB466NAHENCLB647BQI
ENCODE_aliasgene-yeo:663_01gene-yeo:663_02gene-yeo:663_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
663663-control
Self_consistency_hg38
rescue_GRCh38


Replicate QC
Rep_UID663_01663_02663_INPUT
eCT
Usable_reads
Entropy_hg38




Library-Prep Information
Rep_UID663_01663_02663_INPUT
library_size_selection_methodagarose gel extractionagarose gel extractionagarose gel extraction
strand_specificityreversereversereverse
inline_barcode_1A03A04none
inline_barcode_2G07F05none
i5_barcode501501502
i7_barcode702702701




Sequencing Information
Rep_UID663_01663_02663_INPUT
seq_read_typepaired-endedpaired-endedpaired-ended
read_length505050
machine
flowcell
lane




File Information

FASTQ

file_nameSample IDfile_formatoutput_typerun_typepaired_endread_lengthplatformassay_type
663_01_SUPV3L1.R1.fastq.gz663_01fastqreadspaired-ended150HiSeq4000eCLIP
663_01_SUPV3L1.R2.fastq.gz663_01fastqreadspaired-ended250HiSeq4000eCLIP
663_02_SUPV3L1.R1.fastq.gz663_02fastqreadspaired-ended150HiSeq4000eCLIP
663_02_SUPV3L1.R2.fastq.gz663_02fastqreadspaired-ended250HiSeq4000eCLIP
663_INPUT_SUPV3L1.R1.fastq.gz663_INPUTfastqreadspaired-ended150HiSeq4000eCLIP
663_INPUT_SUPV3L1.R2.fastq.gz663_INPUTfastqreadspaired-ended250HiSeq4000eCLIP


GRCh38

file_nameSample IDfile_formatoutput_typeassay_typeassemblygenome_annotationNote
GRCh38/663.01v02.IDR.out.0102merged.bed.blacklist_removed.bed.narrowPeak.encode.bed.gz663final_peakspeakseCLIPGRCh38
GRCh38_663_01_SUPV3L1.merged.bam663_01bamalignmentseCLIPGRCh38
GRCh38_663_01_SUPV3L1.merged.r2.norm.neg.bw663_01bigWig-uniqueminus strand signal of unique readseCLIPGRCh38
GRCh38_663_01_SUPV3L1.merged.r2.norm.pos.bw663_01bigWig+uniqueplus strand signal of unique readseCLIPGRCh38
GRCh38/663_01.basedon_663_01.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.encode.bed.gz663_01bed_eCLIPpeakseCLIPGRCh38
GRCh38/663_01.basedon_663_01.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.bed.bb663_01bigBed_eCLIPpeakseCLIPGRCh38
GRCh38_663_02_SUPV3L1.merged.bam663_02bamalignmentseCLIPGRCh38
GRCh38_663_02_SUPV3L1.merged.r2.norm.neg.bw663_02bigWig-uniqueminus strand signal of unique readseCLIPGRCh38
GRCh38_663_02_SUPV3L1.merged.r2.norm.pos.bw663_02bigWig+uniqueplus strand signal of unique readseCLIPGRCh38
GRCh38/663_02.basedon_663_02.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.encode.bed.gz663_02bed_eCLIPpeakseCLIPGRCh38
GRCh38/663_02.basedon_663_02.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.bed.bb663_02bigBed_eCLIPpeakseCLIPGRCh38
GRCh38_663_INPUT_S38_L004_R1_001.unassigned.adapterTrim.round2.rmRep.rmDup.sorted.bam663_INPUTbamalignmentseCLIPGRCh38
GRCh38_663_INPUT_S38_L004_R1_001.unassigned.adapterTrim.round2.rmRep.rmDup.sorted.r2.norm.neg.bw663_INPUTbigWig-uniqueminus strand signal of unique readseCLIPGRCh38
GRCh38_663_INPUT_S38_L004_R1_001.unassigned.adapterTrim.round2.rmRep.rmDup.sorted.r2.norm.pos.bw663_INPUTbigWig+uniqueplus strand signal of unique readseCLIPGRCh38


hg19

file_nameSample IDfile_formatoutput_typeassay_typeassemblygenome_annotationNote
663.01v02.IDR.out.0102merged.bed.blacklist_removed.bed.narrowPeak.encode.bed.gz663final_peakspeakseCLIPhg19
663_01_SUPV3L1.merged.bam663_01bamalignmentseCLIPhg19
663_01_SUPV3L1.merged.r2.norm.neg.bw663_01bigWig-uniqueminus strand signal of unique readseCLIPhg19
663_01_SUPV3L1.merged.r2.norm.pos.bw663_01bigWig+uniqueplus strand signal of unique readseCLIPhg19
663_01.basedon_663_01.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.encode.bed.gz663_01bed_eCLIPpeakseCLIPhg19
663_01.basedon_663_01.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.bed.bb663_01bigBed_eCLIPpeakseCLIPhg19
663_02_SUPV3L1.merged.bam663_02bamalignmentseCLIPhg19
663_02_SUPV3L1.merged.r2.norm.neg.bw663_02bigWig-uniqueminus strand signal of unique readseCLIPhg19
663_02_SUPV3L1.merged.r2.norm.pos.bw663_02bigWig+uniqueplus strand signal of unique readseCLIPhg19
663_02.basedon_663_02.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.encode.bed.gz663_02bed_eCLIPpeakseCLIPhg19
663_02.basedon_663_02.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.bed.bb663_02bigBed_eCLIPpeakseCLIPhg19
663_INPUT_S38_L004_R1_001.unassigned.adapterTrim.round2.rmRep.rmDup.sorted.bam663_INPUTbamalignmentseCLIPhg19
663_INPUT_S38_L004_R1_001.unassigned.adapterTrim.round2.rmRep.rmDup.sorted.r2.norm.neg.bw663_INPUTbigWig-uniqueminus strand signal of unique readseCLIPhg19
663_INPUT_S38_L004_R1_001.unassigned.adapterTrim.round2.rmRep.rmDup.sorted.r2.norm.pos.bw663_INPUTbigWig+uniqueplus strand signal of unique readseCLIPhg19






Data Submission Information

Files

ENCODE_aliasENCODE_accessionobject_typeassay_typeSample_IDStatusProject
gene-yeo:4037_CLIP1_rep1.vs.4037_CLIP2_rep2.sorted.nh.narrowPeak.gzENCFF781RUKfile_finalPeakseCLIP4037ReleasedENCODE4
gene-yeo:4217_CLIP1_rep1.vs.4217_CLIP2_rep2.sorted.nh.bbENCFF759WDVfile_finalPeaks_bbeCLIP4037ReleasedENCODE4