EIF2B5 RNA-Seq in HepG2

Experiment Information (Status: Sequenced)

	BGHcLV49-53	BGHcLV49-54
idx	1752	1753
TRCN#_or_BGC#	BGC#0000960	BGC#0000960
shRNA_or_gRNA_sequence	GAAGCGGCGATCGAAGCTAT	GAAGCGGCGATCGAAGCTAT
PAM	CGG	CGG
Name	EIF2B5_98	EIF2B5_98
Sample_ID	BGHcLV49-53	BGHcLV49-54
transduction_Date	6/6/25	6/6/25
days	D6	D6
RBP_name	EIF2B5	EIF2B5
qPCR_result	65.4	61.6
Ave_qPCR	63.5
RT-qPCR_primer-F	gctggaaagctgctcaaatc
RT-qPCR_primer-R	aggacatctcccagtgatcg
protein_conc	3598	4458
WB_result	59.7	76.6
Ave_WB
WB_DONE_date	7/15/25
MW	80KD
IP
antibody_Cat#	A302-556A	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	9941	9942

Western Blot

RBP	Antibody Info	Primary-HepG2	Secondary-HepG2	Primary-K562	Secondary-K562	Primary-UBERON	Primary-Hela
EIF2B5	Product_ID: A302-556A Lot_ID: 1 Source: Bethyl Labs Target Name: EIF2B5-human

Experiment Status

	BGHcLV49-53	BGHcLV49-54
Sample_ID	BGHcLV49-53	BGHcLV49-54
Sample Name
Sample Name	EIF2B5-BGHcLV49-53	EIF2B5-BGHcLV49-54
RBP	EIF2B5	EIF2B5
Cell_Line	HepG2	HepG2
Exp UID
Status	Sequenced	Sequenced
Status_date	2025-10-30	2025-10-30
Project	ENCORE2	ENCORE2
Note
ID	14348	14349

Library-Prep
Sequencing

Library-Prep Information

	BGHcLV49-53	BGHcLV49-54
Sample #	45	46
Sample Name	EIF2B5-BGHcLV49-53	EIF2B5-BGHcLV49-54
Sample_Name_Alias
Index Well Position	G06	H06
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	265	257
Peak_Molarity	72.20	44.80
libSampleQC_DNA_Well	DNA_Library_set81/set1/G3.png	DNA_Library_set81/set1/H3.png
RIN	9.9	10.0
libSample_RNA_Well	RNA_Library_set81/set1/G6.png	RNA_Library_set81/set1/H6.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2025-09-10	2025-09-10
Sample_ID	BGHcLV49-53	BGHcLV49-54
RBP	EIF2B5	EIF2B5
Batch_ID	BGHcLV49	BGHcLV49
WB_result	59.700	76.600
Library Description	TruSeq mRNA	TruSeq mRNA
Repeat_Library_Suffix
Lib_Status	SendToSequence	SendToSequence
Project	ENCORE2	ENCORE2
ID	4790	4791

Sequencing Information

	BGHcLV49-53	BGHcLV49-54
Sample_ID	BGHcLV49-53	BGHcLV49-54
Sample Name	EIF2B5-BGHcLV49-53	EIF2B5-BGHcLV49-54
Pool ID	Pool-250916	Pool-250916
LocalServer_folder	set81	set81
total_reads	24,313,075	22,725,375
total_aligned_reads	20,605,265	17,790,239
unique_aligned_reads	19,376,540	16,715,773
percent_uniqueAligned	0.79696	0.73556
correlation_replicates	0.998536	0.998536
spikein_reads	66,590	72,044
percent_spikeins	0.00274	0.00317
original_ReadLength	151	151
QC_Status	ReadyToSubmit	ReadyToSubmit
ID	3517	3518

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
EIF2B5-BGHcLV49-53_S132_L008_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set81/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3517	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	33186
EIF2B5-BGHcLV49-53_S132_L008_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set81/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3517	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	33232
EIF2B5-BGHcLV49-53_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set81/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3517					GRCh38	V40	EIF2B5-BGHcLV49-53_S132_L008_R1_001.filtered.trimmed.paired.fastq.gz,EIF2B5-BGHcLV49-53_S132_L008_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	33278
EIF2B5-BGHcLV49-53_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	3517					GRCh38	V40	EIF2B5-BGHcLV49-53_Aligned.sortedByCoord.out.bam		ENCORE2	33324
EIF2B5-BGHcLV49-53_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	3517					GRCh38	V40	EIF2B5-BGHcLV49-53_Aligned.sortedByCoord.out.bam		ENCORE2	33370
EIF2B5-BGHcLV49-53_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	3517					GRCh38	V40	EIF2B5-BGHcLV49-53_Aligned.sortedByCoord.out.bam		ENCORE2	33416
EIF2B5-BGHcLV49-53_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	3517					GRCh38	V40	EIF2B5-BGHcLV49-53_Aligned.sortedByCoord.out.bam		ENCORE2	33462
EIF2B5-BGHcLV49-53_quant.sf	ENCODE_DATA/set81/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3517					GRCh38	V40	EIF2B5-BGHcLV49-53_S132_L008_R1_001.filtered.trimmed.paired.fastq.gz,EIF2B5-BGHcLV49-53_S132_L008_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	33508
EIF2B5-BGHcLV49-54_S143_L008_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set81/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3518	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	33187
EIF2B5-BGHcLV49-54_S143_L008_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set81/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3518	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	33233
EIF2B5-BGHcLV49-54_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set81/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3518					GRCh38	V40	EIF2B5-BGHcLV49-54_S143_L008_R1_001.filtered.trimmed.paired.fastq.gz,EIF2B5-BGHcLV49-54_S143_L008_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	33279
EIF2B5-BGHcLV49-54_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	3518					GRCh38	V40	EIF2B5-BGHcLV49-54_Aligned.sortedByCoord.out.bam		ENCORE2	33325
EIF2B5-BGHcLV49-54_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	3518					GRCh38	V40	EIF2B5-BGHcLV49-54_Aligned.sortedByCoord.out.bam		ENCORE2	33371
EIF2B5-BGHcLV49-54_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	3518					GRCh38	V40	EIF2B5-BGHcLV49-54_Aligned.sortedByCoord.out.bam		ENCORE2	33417
EIF2B5-BGHcLV49-54_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	3518					GRCh38	V40	EIF2B5-BGHcLV49-54_Aligned.sortedByCoord.out.bam		ENCORE2	33463
EIF2B5-BGHcLV49-54_quant.sf	ENCODE_DATA/set81/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3518					GRCh38	V40	EIF2B5-BGHcLV49-54_S143_L008_R1_001.filtered.trimmed.paired.fastq.gz,EIF2B5-BGHcLV49-54_S143_L008_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	33509