EPRS RNA-Seq in HepG2

Experiment Information (Status: Sequenced)

	BGHcLV49-59	BGHcLV49-60
idx	1758	1759
TRCN#_or_BGC#	BGC#0000990	BGC#0000990
shRNA_or_gRNA_sequence	TCAGCATTTCCGTTGAAGAA	TCAGCATTTCCGTTGAAGAA
PAM	GGG	GGG
Name	EPRS_81	EPRS_81
Sample_ID	BGHcLV49-59	BGHcLV49-60
transduction_Date	6/6/25	6/6/25
days	D6	D6
RBP_name	EPRS	EPRS
qPCR_result	80.5	74.6
Ave_qPCR	77.5
RT-qPCR_primer-F	tgtcagcatttccgttgaag
RT-qPCR_primer-R	ccatataacccagctgtagttgc
protein_conc	4372	4633
WB_result	68.7	55.8
Ave_WB
WB_DONE_date	6/24/25
MW	171kd
IP
antibody_Cat#	A303-958A	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	9947	9948

Western Blot

RBP	Antibody Info	Primary-HepG2	Secondary-HepG2	Primary-K562	Secondary-K562	Primary-UBERON	Primary-Hela
EPRS	Product_ID: A303-958A Lot_ID: 1 Source: Bethyl Labs Target Name: EPRS-human

Experiment Status

	BGHcLV49-59	BGHcLV49-60
Sample_ID	BGHcLV49-59	BGHcLV49-60
Sample Name
Sample Name	EPRS-BGHcLV49-59	EPRS-BGHcLV49-60
RBP	EPRS	EPRS
Cell_Line	HepG2	HepG2
Exp UID
Status	Sequenced	Sequenced
Status_date	2025-10-30	2025-10-30
Project	ENCORE2	ENCORE2
Note
ID	14350	14351

Library-Prep
Sequencing

Library-Prep Information

	BGHcLV49-59	BGHcLV49-60
Sample #	47	48
Sample Name	EPRS-BGHcLV49-59	EPRS-BGHcLV49-60
Sample_Name_Alias
Index Well Position	A07	B07
Index_table	IDT_UniqueDualIndex_96_V2	IDT_UniqueDualIndex_96_V2
LibPrep_date	2025-08-20	2025-08-20
Lib_ID	Lib-250820	Lib-250820
Tecan_Location
Tecan
Tecan_date
Size_bp	264	272
Peak_Molarity	58.10	93.00
libSampleQC_DNA_Well	DNA_Library_set81/set1/A4.png	DNA_Library_set81/set1/B4.png
RIN	10.0	9.9
libSample_RNA_Well	RNA_Library_set81/set1/A7.png	RNA_Library_set81/set1/B7.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2025-09-10	2025-09-10
Sample_ID	BGHcLV49-59	BGHcLV49-60
RBP	EPRS	EPRS
Batch_ID	BGHcLV49	BGHcLV49
WB_result	68.700	55.800
Library Description	TruSeq mRNA	TruSeq mRNA
Repeat_Library_Suffix
Lib_Status	SendToSequence	SendToSequence
Project	ENCORE2	ENCORE2
ID	4792	4793

Sequencing Information

	BGHcLV49-59	BGHcLV49-60
Sample_ID	BGHcLV49-59	BGHcLV49-60
Sample Name	EPRS-BGHcLV49-59	EPRS-BGHcLV49-60
Pool ID	Pool-250916	Pool-250916
LocalServer_folder	set81	set81
total_reads	30,384,984	31,471,054
total_aligned_reads	22,929,745	27,690,986
unique_aligned_reads	21,589,941	26,158,283
percent_uniqueAligned	0.71055	0.83119
correlation_replicates	0.997295	0.997295
spikein_reads	139,146	113,742
percent_spikeins	0.00458	0.00361
original_ReadLength	151	151
QC_Status	ReadyToSubmit	ReadyToSubmit
ID	3519	3520

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
EPRS-BGHcLV49-59_S141_L008_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set81/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3519	NovaSeq6000	100	paired-ended	1				NT-BGHcLV49-1_S111_L008_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV49-2_S136_L008_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	33188
EPRS-BGHcLV49-59_S141_L008_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set81/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3519	NovaSeq6000	100	paired-ended	2				NT-BGHcLV49-1_S111_L008_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV49-2_S136_L008_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	33234
EPRS-BGHcLV49-59_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set81/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3519					GRCh38	V40	EPRS-BGHcLV49-59_S141_L008_R1_001.filtered.trimmed.paired.fastq.gz,EPRS-BGHcLV49-59_S141_L008_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	33280
EPRS-BGHcLV49-59_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set81/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3519					GRCh38	V40	EPRS-BGHcLV49-59_Aligned.sortedByCoord.out.bam		ENCORE2	33326
EPRS-BGHcLV49-59_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set81/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3519					GRCh38	V40	EPRS-BGHcLV49-59_Aligned.sortedByCoord.out.bam		ENCORE2	33372
EPRS-BGHcLV49-59_Signal.Unique.strand-.bw	ENCODE_DATA/set81/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3519					GRCh38	V40	EPRS-BGHcLV49-59_Aligned.sortedByCoord.out.bam		ENCORE2	33418
EPRS-BGHcLV49-59_Signal.Unique.strand+.bw	ENCODE_DATA/set81/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3519					GRCh38	V40	EPRS-BGHcLV49-59_Aligned.sortedByCoord.out.bam		ENCORE2	33464
EPRS-BGHcLV49-59_quant.sf	ENCODE_DATA/set81/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3519					GRCh38	V40	EPRS-BGHcLV49-59_S141_L008_R1_001.filtered.trimmed.paired.fastq.gz,EPRS-BGHcLV49-59_S141_L008_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	33510
EPRS-BGHcLV49-60_S155_L008_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set81/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3520	NovaSeq6000	100	paired-ended	1				NT-BGHcLV49-1_S111_L008_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV49-2_S136_L008_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	33189
EPRS-BGHcLV49-60_S155_L008_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set81/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3520	NovaSeq6000	100	paired-ended	2				NT-BGHcLV49-1_S111_L008_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV49-2_S136_L008_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	33235
EPRS-BGHcLV49-60_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set81/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3520					GRCh38	V40	EPRS-BGHcLV49-60_S155_L008_R1_001.filtered.trimmed.paired.fastq.gz,EPRS-BGHcLV49-60_S155_L008_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	33281
EPRS-BGHcLV49-60_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set81/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3520					GRCh38	V40	EPRS-BGHcLV49-60_Aligned.sortedByCoord.out.bam		ENCORE2	33327
EPRS-BGHcLV49-60_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set81/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3520					GRCh38	V40	EPRS-BGHcLV49-60_Aligned.sortedByCoord.out.bam		ENCORE2	33373
EPRS-BGHcLV49-60_Signal.Unique.strand-.bw	ENCODE_DATA/set81/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3520					GRCh38	V40	EPRS-BGHcLV49-60_Aligned.sortedByCoord.out.bam		ENCORE2	33419
EPRS-BGHcLV49-60_Signal.Unique.strand+.bw	ENCODE_DATA/set81/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3520					GRCh38	V40	EPRS-BGHcLV49-60_Aligned.sortedByCoord.out.bam		ENCORE2	33465
EPRS-BGHcLV49-60_quant.sf	ENCODE_DATA/set81/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3520					GRCh38	V40	EPRS-BGHcLV49-60_S155_L008_R1_001.filtered.trimmed.paired.fastq.gz,EPRS-BGHcLV49-60_S155_L008_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	33511