ENCORE eCLIP:285

TIA1 eCLIP in K562

Experiment Information (Status: Released)

	285	285-control
Exp_UID	285	285
RBPARK_Exp_name
ENCODE_ACCESSION	ENCSR057DWB	ENCSR356GCJ
ENCODE_alias	gene-yeo:285	gene-yeo:285-control
RBP	TIA1	TIA1
Cell_Line	K562	K562
Batch
Exp_type	eCLIP	control
ENCODE_Antibody_ID	ENCAB000BGC	ENCAB000BGC
Antibody	RN014P	RN014P
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	ENCODE3	ENCODE3
ID	333	356

Replicate Information


Rep_UID	285_01	285_02	285_INPUT	696_01	696_02	696_INPUT
Exp UID	285	285	285	285	285	285
Replicate_type	rep1	rep2	control	rep1	rep2	control
ENCODE_ACCESSION	ENCLB274AUW	ENCLB868TFN	ENCLB748FLS	ENCLB279NMT	ENCLB875HIL	ENCLB234DPJ
ENCODE_alias	gene-yeo:285_01	gene-yeo:285_02	gene-yeo:285_INPUT	gene-yeo:696_01	gene-yeo:696_02	gene-yeo:696_INPUT
Biosample Name	K562_110314A	K562_022315B	K562_110314A	HepG2_012016	HepG2_102015	HepG2_012016
Biosample_ENCODE_Accession	ENCBS126AJR	ENCBS549CIX	ENCBS126AJR	ENCBS074YUC	ENCBS575NGC	ENCBS074YUC
Biosample_ENCODE_Alias	gene-yeo:K562_110314A	gene-yeo:K562_022315B	gene-yeo:K562_110314A	gene-yeo:HepG2_012016	gene-yeo:HepG2_102015	gene-yeo:HepG2_012016
Cell_Line	K562	K562	K562	HepG2	HepG2	HepG2
Culture_Start_Date	2014-10-03	2015-02-23	2014-10-03	2016-01-20	2015-10-20	2016-01-20
Culture_End_Date	2014-11-03	2015-03-20	2014-11-03	2016-02-17	2015-11-17	2016-02-17
Passage	6	6	6	4	4	4

QC Stats

Experiment QC

	285	285-control
Self_consistency_hg38
rescue_GRCh38

Replicate QC


Rep_UID	285_01	285_02	285_INPUT	696_01	696_02	696_INPUT
eCT
Usable_reads
Entropy_hg38

Library-Prep
Sequencing

Library-Prep Information


Rep_UID	285_01	285_02	285_INPUT	696_01	696_02	696_INPUT
library_size_selection_method	agarose gel extraction	agarose gel extraction	agarose gel extraction	agarose gel extraction	agarose gel extraction	agarose gel extraction
strand_specificity	reverse	reverse	reverse	reverse	reverse	reverse
inline_barcode_1	A01	C01	none	X1A	X2A	none
inline_barcode_2	B06	D08fixed	none	X1B	X2B	none
i5_barcode	504	504	505	501	501	502
i7_barcode	705	705	705	706	706	705

Sequencing Information


Rep_UID	285_01	285_02	285_INPUT	696_01	696_02	696_INPUT
seq_read_type	paired-ended	paired-ended	paired-ended	paired-ended	paired-ended	paired-ended
read_length	50	50	50	50	50	50
machine
flowcell
lane

File Information

GRCh38

file_name	Sample ID	file_format	output_type	assay_type	assembly	genome_annotation	Note
GRCh38/285.01v02.IDR.out.0102merged.bed.blacklist_removed.bed.narrowPeak.encode.bed.gz	285	final_peaks	peaks	eCLIP	GRCh38

hg19

file_name	Sample ID	file_format	output_type	assay_type	assembly	genome_annotation	Note
285.01v02.IDR.out.0102merged.bed.blacklist_removed.bed.narrowPeak.encode.bed.gz	285	final_peaks	peaks	eCLIP	hg19

Data Submission Information

Files

ENCODE_alias	ENCODE_accession	object_type	assay_type	Sample_ID	Status	Project
gene-yeo:4203_CLIP1_rep1.vs.4203_CLIP2_rep2.sorted.nh.narrowPeak.gz	ENCFF515BJK	file_finalPeaks	eCLIP	4203	Released	ENCODE4
gene-yeo:4110_CLIP1_rep1.vs.4110_CLIP2_rep2.sorted.nh.bb	ENCFF530VDN	file_finalPeaks_bb	eCLIP	4203	Released	ENCODE4