ERAL1 RNA-Seq in K562

General Information


RBP	ERAL1
Cell_Line	K562
Method	CRISPR
Exp_Name	ERAL1-BGKcLV40-K562
ENCODE_series_ID
Batch_ID	BGKcLV40
Pool ID	Pool-231226
Local_Set_Name	set67
ENCODE_KD_Exp_ID
ENCODE_CN_Exp_ID
Rep1	ERAL1-BGKcLV40-27
Rep2	ERAL1-BGKcLV40-28
CN1	NT-BGKcLV40-1
CN2	NT-BGKcLV40-2
Rep1_qPCR
Rep2_qPCR
Rep1_WB	58.7
Rep2_WB	65.4
Antibody Cat#	A305-092A
Antibody Lot#	lot # 1
Antibody DCC ID
Status	Submitted
Project	ENCORE2
ID	1363

Experiment Information (Status: Submitting)

	BGKcLV40-27	BGKcLV40-28
idx	0	0
TRCN#_or_BGC#	BGC#0000993	BGC#0000993
shRNA_or_gRNA_sequence	CTCTGTTCATGGACACCGCG	CTCTGTTCATGGACACCGCG
PAM	GGG	GGG
Name	ERAL1_94	ERAL1_94
Sample_ID	BGKcLV40-27	BGKcLV40-28
transduction_Date	10/31/23	10/31/23
days	D6	D6
RBP_name	ERAL1	ERAL1
qPCR_result
Ave_qPCR
RT-qPCR_primer-F
RT-qPCR_primer-R
protein_conc	3636	3412
WB_result	58.7	65.4
Ave_WB	62.1
WB_DONE_date	11/15/23,11/17/23
MW	48kd
IP
antibody_Cat#	A305-092A	lot # 1
Antibody DCC ID
submitted_to_DCC_date
Rep1_TPM	0	0
Rep2_TPM	0	0
Action	Ready	Ready
Library_start_date
repeat_library
Note
ID	5702	5703

Western Blot Western Blot info was not avaliable

Experiment Status

	BGKcLV40-27	BGKcLV40-28
Sample_ID	BGKcLV40-27	BGKcLV40-28
Sample Name
Sample Name	ERAL1-BGKcLV40-27	ERAL1-BGKcLV40-28
RBP	ERAL1	ERAL1
Cell_Line	K562	K562
Exp UID
Status	Submitting	Submitting
Status_date	2024-02-16	2024-02-16
Project	ENCORE2	ENCORE2
Note
ID	12770	12771

Library-Prep
Sequencing

Library-Prep Information

	BGKcLV40-27	BGKcLV40-28
Sample #	17	18
Sample Name	ERAL1-BGKcLV40-27	ERAL1-BGKcLV40-28
Sample_Name_Alias
Index Well Position	A03	B03
Index_table	IDT_UniqueDualIndex_96	IDT_UniqueDualIndex_96
LibPrep_date	2023-12-19	2023-12-19
Lib_ID	Lib-231219	Lib-231219
Tecan_Location
Tecan
Tecan_date
Size_bp	288	285
Peak_Molarity	62.80	66.10
libSampleQC_DNA_Well	DNA_Library_set67/set1/A9.png	DNA_Library_set67/set1/B9.png
RIN	10.0	10.0
libSample_RNA_Well	RNA_Library_set67/set1/A3.png	RNA_Library_set67/set1/B3.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2023-12-26	2023-12-26
Sample_ID	BGKcLV40-27	BGKcLV40-28
RBP	ERAL1	ERAL1
Batch_ID	BGKcLV40	BGKcLV40
WB_result	58.700	65.400
Library Description	TruSeq mRNA	TruSeq mRNA
Repeat_Library_Suffix
Lib_Status	SendToSequence	SendToSequence
Project	ENCORE2	ENCORE2
ID	4154	4155

Sequencing Information

	BGKcLV40-27	BGKcLV40-28
Sample_ID	BGKcLV40-27	BGKcLV40-28
Sample Name	ERAL1-BGKcLV40-27	ERAL1-BGKcLV40-28
Pool ID	Pool-231226	Pool-231226
LocalServer_folder	set67	set67
total_reads	24,215,640	26,183,057
total_aligned_reads	19,244,256	22,858,046
unique_aligned_reads	17,662,671	21,012,764
percent_uniqueAligned	0.72939	0.80253
correlation_replicates	0.998504	0.998504
spikein_reads	5,016	1,652
percent_spikeins	0.00021	0.00006
original_ReadLength	151	151
QC_Status	Submitting	Submitting
ID	2809	2810

Data Submission Information DCC submission information was not avaliable

File Information

file_name	file_path	file_format	output_type	assay_type	lab	Sample ID	platform	read_length	run_type	paired_end	assembly	genome_annotation	derived_from	controlled_by	Project	FILE_ID
ERAL1-BGKcLV40-27_S17_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set67/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2809	NovaSeq6000	100	paired-ended	1				NT-BGKcLV40-1_S1_L001_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGKcLV40-2_S2_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	28155
ERAL1-BGKcLV40-27_S17_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set67/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2809	NovaSeq6000	100	paired-ended	2				NT-BGKcLV40-1_S1_L001_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGKcLV40-2_S2_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	28199
ERAL1-BGKcLV40-27_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set67/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	2809					GRCh38	V40	ERAL1-BGKcLV40-27_S17_L001_R1_001.filtered.trimmed.paired.fastq.gz,ERAL1-BGKcLV40-27_S17_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	28243
ERAL1-BGKcLV40-27_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set67/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	2809					GRCh38	V40	ERAL1-BGKcLV40-27/Aligned.sortedByCoord.out.bam		ENCORE2	28287
ERAL1-BGKcLV40-27_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set67/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	2809					GRCh38	V40	ERAL1-BGKcLV40-27/Aligned.sortedByCoord.out.bam		ENCORE2	28331
ERAL1-BGKcLV40-27_Signal.Unique.strand-.bw	ENCODE_DATA/set67/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	2809					GRCh38	V40	ERAL1-BGKcLV40-27/Aligned.sortedByCoord.out.bam		ENCORE2	28375
ERAL1-BGKcLV40-27_Signal.Unique.strand+.bw	ENCODE_DATA/set67/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	2809					GRCh38	V40	ERAL1-BGKcLV40-27/Aligned.sortedByCoord.out.bam		ENCORE2	28419
ERAL1-BGKcLV40-27_quant.sf	ENCODE_DATA/set67/salmon_ENCORE2	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	2809					GRCh38	V40	ERAL1-BGKcLV40-27_S17_L001_R1_001.filtered.trimmed.paired.fastq.gz,ERAL1-BGKcLV40-27_S17_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	28463
ERAL1-BGKcLV40-28_S18_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set67/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2810	NovaSeq6000	100	paired-ended	1				NT-BGKcLV40-1_S1_L001_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGKcLV40-2_S2_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	28156
ERAL1-BGKcLV40-28_S18_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set67/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2810	NovaSeq6000	100	paired-ended	2				NT-BGKcLV40-1_S1_L001_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGKcLV40-2_S2_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	28200
ERAL1-BGKcLV40-28_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set67/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	2810					GRCh38	V40	ERAL1-BGKcLV40-28_S18_L001_R1_001.filtered.trimmed.paired.fastq.gz,ERAL1-BGKcLV40-28_S18_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	28244
ERAL1-BGKcLV40-28_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set67/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	2810					GRCh38	V40	ERAL1-BGKcLV40-28/Aligned.sortedByCoord.out.bam		ENCORE2	28288
ERAL1-BGKcLV40-28_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set67/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	2810					GRCh38	V40	ERAL1-BGKcLV40-28/Aligned.sortedByCoord.out.bam		ENCORE2	28332
ERAL1-BGKcLV40-28_Signal.Unique.strand-.bw	ENCODE_DATA/set67/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	2810					GRCh38	V40	ERAL1-BGKcLV40-28/Aligned.sortedByCoord.out.bam		ENCORE2	28376
ERAL1-BGKcLV40-28_Signal.Unique.strand+.bw	ENCODE_DATA/set67/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	2810					GRCh38	V40	ERAL1-BGKcLV40-28/Aligned.sortedByCoord.out.bam		ENCORE2	28420
ERAL1-BGKcLV40-28_quant.sf	ENCODE_DATA/set67/salmon_ENCORE2	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	2810					GRCh38	V40	ERAL1-BGKcLV40-28_S18_L001_R1_001.filtered.trimmed.paired.fastq.gz,ERAL1-BGKcLV40-28_S18_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	28464