HLTF      eCLIP in HepG2

Experiment Information (Status: Released)
651651-control
Exp_UID651651
RBPARK_Exp_name
ENCODE_ACCESSIONENCSR647HOXENCSR705DCQ
ENCODE_aliasgene-yeo:651gene-yeo:651-control
RBPHLTFHLTF
Cell_LineHepG2HepG2
Batch
Exp_typeeCLIPcontrol
ENCODE_Antibody_IDENCAB902OZZENCAB902OZZ
AntibodyA300-230AA300-230A
Lot_num22
crosslinking_methodultraviolet irradiationultraviolet irradiation
queried_RNP_size_range175-300175-300
Self_consistency_hg38
rescue_GRCh38
StatusReleasedReleased
ProjectENCODE4ENCODE4
ID395450




Replicate Information
Rep_UID651_01651_02651_INPUT
Exp UID651651651
Replicate_typerep1rep2control
ENCODE_ACCESSIONENCLB792EAFENCLB485JLLENCLB789BRX
ENCODE_aliasgene-yeo:651_01gene-yeo:651_02gene-yeo:651_INPUT
Biosample NameHepG2_091615HepG2_012016HepG2_091615
Biosample_ENCODE_AccessionENCBS621TABENCBS074YUCENCBS621TAB
Biosample_ENCODE_Aliasgene-yeo:HepG2_091615gene-yeo:HepG2_012016gene-yeo:HepG2_091615
Cell_LineHepG2HepG2HepG2
Culture_Start_Date2015-09-162016-01-202015-09-16
Culture_End_Date2015-10-092016-02-172015-10-09
Passage343




QC Stats
Experiment QC
651651-control
Self_consistency_hg38
rescue_GRCh38


Replicate QC
Rep_UID651_01651_02651_INPUT
eCT
Usable_reads
Entropy_hg38




Library-Prep Information
Rep_UID651_01651_02651_INPUT
library_size_selection_methodagarose gel extractionagarose gel extractionagarose gel extraction
strand_specificityreversereversereverse
inline_barcode_1A04A03none
inline_barcode_2F05G07none
i5_barcode504504503
i7_barcode706706705




Sequencing Information
Rep_UID651_01651_02651_INPUT
seq_read_typepaired-endedpaired-endedpaired-ended
read_length505050
machine
flowcell
lane




File Information

FASTQ

file_nameSample IDfile_formatoutput_typerun_typepaired_endread_lengthplatformassay_type
651_01_HLTF.R1.fastq.gz651_01fastqreadspaired-ended150HiSeq4000eCLIP
651_01_HLTF.R2.fastq.gz651_01fastqreadspaired-ended250HiSeq4000eCLIP
651_02_HLTF.R1.fastq.gz651_02fastqreadspaired-ended150HiSeq4000eCLIP
651_02_HLTF.R2.fastq.gz651_02fastqreadspaired-ended250HiSeq4000eCLIP
651_INPUT_HLTF.R1.fastq.gz651_INPUTfastqreadspaired-ended150HiSeq4000eCLIP
651_INPUT_HLTF.R2.fastq.gz651_INPUTfastqreadspaired-ended250HiSeq4000eCLIP


GRCh38

file_nameSample IDfile_formatoutput_typeassay_typeassemblygenome_annotationNote
GRCh38/651.01v02.IDR.out.0102merged.bed.blacklist_removed.bed.narrowPeak.encode.bed.gz651final_peakspeakseCLIPGRCh38
GRCh38_651_01_HLTF.merged.bam651_01bamalignmentseCLIPGRCh38
GRCh38_651_01_HLTF.merged.r2.norm.neg.bw651_01bigWig-uniqueminus strand signal of unique readseCLIPGRCh38
GRCh38_651_01_HLTF.merged.r2.norm.pos.bw651_01bigWig+uniqueplus strand signal of unique readseCLIPGRCh38
GRCh38/651_01.basedon_651_01.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.encode.bed.gz651_01bed_eCLIPpeakseCLIPGRCh38
GRCh38/651_01.basedon_651_01.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.bed.bb651_01bigBed_eCLIPpeakseCLIPGRCh38
GRCh38_651_02_HLTF.merged.bam651_02bamalignmentseCLIPGRCh38
GRCh38_651_02_HLTF.merged.r2.norm.neg.bw651_02bigWig-uniqueminus strand signal of unique readseCLIPGRCh38
GRCh38_651_02_HLTF.merged.r2.norm.pos.bw651_02bigWig+uniqueplus strand signal of unique readseCLIPGRCh38
GRCh38/651_02.basedon_651_02.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.encode.bed.gz651_02bed_eCLIPpeakseCLIPGRCh38
GRCh38/651_02.basedon_651_02.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.bed.bb651_02bigBed_eCLIPpeakseCLIPGRCh38
GRCh38_651_INPUT_S74_L007_R1_001.unassigned.adapterTrim.round2.rmRep.rmDup.sorted.bam651_INPUTbamalignmentseCLIPGRCh38
GRCh38_651_INPUT_S74_L007_R1_001.unassigned.adapterTrim.round2.rmRep.rmDup.sorted.r2.norm.neg.bw651_INPUTbigWig-uniqueminus strand signal of unique readseCLIPGRCh38
GRCh38_651_INPUT_S74_L007_R1_001.unassigned.adapterTrim.round2.rmRep.rmDup.sorted.r2.norm.pos.bw651_INPUTbigWig+uniqueplus strand signal of unique readseCLIPGRCh38


hg19

file_nameSample IDfile_formatoutput_typeassay_typeassemblygenome_annotationNote
651.01v02.IDR.out.0102merged.bed.blacklist_removed.bed.narrowPeak.encode.bed.gz651final_peakspeakseCLIPhg19
651_01_HLTF.merged.bam651_01bamalignmentseCLIPhg19
651_01_HLTF.merged.r2.norm.neg.bw651_01bigWig-uniqueminus strand signal of unique readseCLIPhg19
651_01_HLTF.merged.r2.norm.pos.bw651_01bigWig+uniqueplus strand signal of unique readseCLIPhg19
651_01.basedon_651_01.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.encode.bed.gz651_01bed_eCLIPpeakseCLIPhg19
651_01.basedon_651_01.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.bed.bb651_01bigBed_eCLIPpeakseCLIPhg19
651_02_HLTF.merged.bam651_02bamalignmentseCLIPhg19
651_02_HLTF.merged.r2.norm.neg.bw651_02bigWig-uniqueminus strand signal of unique readseCLIPhg19
651_02_HLTF.merged.r2.norm.pos.bw651_02bigWig+uniqueplus strand signal of unique readseCLIPhg19
651_02.basedon_651_02.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.encode.bed.gz651_02bed_eCLIPpeakseCLIPhg19
651_02.basedon_651_02.peaks.l2inputnormnew.bed.compressed.bed.narrowPeak.bed.bb651_02bigBed_eCLIPpeakseCLIPhg19
651_INPUT_S74_L007_R1_001.unassigned.adapterTrim.round2.rmRep.rmDup.sorted.bam651_INPUTbamalignmentseCLIPhg19
651_INPUT_S74_L007_R1_001.unassigned.adapterTrim.round2.rmRep.rmDup.sorted.r2.norm.neg.bw651_INPUTbigWig-uniqueminus strand signal of unique readseCLIPhg19
651_INPUT_S74_L007_R1_001.unassigned.adapterTrim.round2.rmRep.rmDup.sorted.r2.norm.pos.bw651_INPUTbigWig+uniqueplus strand signal of unique readseCLIPhg19






Data Submission Information

Files

ENCODE_aliasENCODE_accessionobject_typeassay_typeSample_IDStatusProject
gene-yeo:4045_CLIP1_rep1.vs.4045_CLIP2_rep2.sorted.nh.narrowPeak.gzENCFF223KVRfile_finalPeakseCLIP4045ReleasedENCODE4
gene-yeo:4214_CLIP1_rep1.vs.4214_CLIP2_rep2.sorted.nh.bbENCFF401PRGfile_finalPeaks_bbeCLIP4045ReleasedENCODE4
gene-yeo:4058_CLIP1_rep1.vs.4058_CLIP2_rep2.sorted.nh.narrowPeak.gzENCFF203YHAfile_finalPeakseCLIP4058ReleasedENCODE4
gene-yeo:4215_CLIP1_rep1.vs.4215_CLIP2_rep2.sorted.nh.bbENCFF115XAGfile_finalPeaks_bbeCLIP4058ReleasedENCODE4