EIF3E RNA-Seq in HepG2

EIF3E CRISPR in HepG2 Control: NT-BGHcLV41-1,NT-BGHcLV41-2

General Information


RBP	EIF3E
Cell_Line	HepG2
Method	CRISPR
Exp_Name	EIF3E-BGHcLV41-HepG2
ENCODE_series_ID
Batch_ID	BGHcLV41
Pool ID	Pool-240314
Local_Set_Name	set70
ENCODE_KD_Exp_ID
ENCODE_CN_Exp_ID
Rep1	EIF3E-BGHcLV41-29
Rep2	EIF3E-BGHcLV41-30
CN1	NT-BGHcLV41-1
CN2	NT-BGHcLV41-2
Rep1_qPCR	69.4
Rep2_qPCR	70.5
Rep1_WB	59.8
Rep2_WB	53.6
Antibody Cat#	A302-985A
Antibody Lot#	lot # 1
Antibody DCC ID
Status	Submitted
Project	ENCORE2
ID	1450

Experiment Information (Status: Submitting)

	BGHcLV41-29	BGHcLV41-29	BGHcLV41-30	BGHcLV41-30
idx	1298	1298	1299	1299
TRCN#_or_BGC#	BGC#0000968	BGC#0000968	BGC#0000968	BGC#0000968
shRNA_or_gRNA_sequence	CAAAATTCCAGTACGAATGT	CAAAATTCCAGTACGAATGT	CAAAATTCCAGTACGAATGT	CAAAATTCCAGTACGAATGT
PAM	GGG	GGG	GGG	GGG
Name	EIF3E_79	EIF3E_79	EIF3E_79	EIF3E_79
Sample_ID	BGHcLV41-29	BGHcLV41-29	BGHcLV41-30	BGHcLV41-30
transduction_Date	1/12/24	1/12/24	1/12/24	1/12/24
days	D6	D6	D6	D6
RBP_name	EIF3E	EIF3E	EIF3E	EIF3E
qPCR_result	69.4	69.4	70.5	70.5
Ave_qPCR	70.0	70.0
RT-qPCR_primer-F	tcaggcagaaacagaaccaa	tcaggcagaaacagaaccaa
RT-qPCR_primer-R	gtccgccaggtagtcaaaga	gtccgccaggtagtcaaaga
protein_conc	3478	3478	3545	3545
WB_result	59.8	54.7	53.6	52.1497
Ave_WB	56.7
WB_DONE_date	1/29/24	11/7/24
MW	52kd	52kd
IP
antibody_Cat#	A302-985A	A302-984A	lot # 1	lot # 1
Antibody DCC ID
submitted_to_DCC_date
Rep1_TPM	0	0	0	0
Rep2_TPM	0	0	0	0
Action	Ready		Ready
Library_start_date
repeat_library
Note
ID	9537	9539	9538	9540

Western Blot

RBP	Antibody Info	Primary-HepG2	Secondary-HepG2	Primary-K562	Secondary-K562	Primary-UBERON	Primary-Hela
EIF3E	Product_ID: A302-985A Lot_ID: 1 Source: Bethyl Labs Target Name: EIF3E-human

Experiment Status

	BGHcLV41-29	BGHcLV41-30
Sample_ID	BGHcLV41-29	BGHcLV41-30
Sample Name
Sample Name	EIF3E-BGHcLV41-29	EIF3E-BGHcLV41-30
RBP	EIF3E	EIF3E
Cell_Line	HepG2	HepG2
Exp UID
Status	Submitting	Submitting
Status_date	2024-09-20	2024-09-20
Project	ENCORE2	ENCORE2
Note
ID	12960	12961

Library-Prep
Sequencing

Library-Prep Information

	BGHcLV41-29	BGHcLV41-30
Sample #	13	14
Sample Name	EIF3E-BGHcLV41-29	EIF3E-BGHcLV41-30
Sample_Name_Alias
Index Well Position	E02	F02
Index_table	IDT_UniqueDualIndex_96	IDT_UniqueDualIndex_96
LibPrep_date	2024-03-01	2024-03-01
Lib_ID	Lib-240301	Lib-240301
Tecan_Location
Tecan
Tecan_date
Size_bp	294	299
Peak_Molarity	92.50	94.70
libSampleQC_DNA_Well	DNA_Library_set70/set1/E2.png	DNA_Library_set70/set1/F2.png
RIN	9.9	9.9
libSample_RNA_Well	RNA_Library_set70/set1/A8.png	RNA_Library_set70/set1/B8.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2024-03-14	2024-03-14
Sample_ID	BGHcLV41-29	BGHcLV41-30
RBP	EIF3E	EIF3E
Batch_ID	BGHcLV41	BGHcLV41
WB_result	59.800	53.600
Library Description	TruSeq mRNA	TruSeq mRNA
Repeat_Library_Suffix
Lib_Status	SendToSequence	SendToSequence
Project	ENCORE2	ENCORE2
ID	4238	4239

Sequencing Information

	BGHcLV41-29	BGHcLV41-30
Sample_ID	BGHcLV41-29	BGHcLV41-30
Sample Name	EIF3E-BGHcLV41-29	EIF3E-BGHcLV41-30
Pool ID	Pool-240314	Pool-240314
LocalServer_folder	set70	set70
total_reads	35,997,028	42,179,093
total_aligned_reads	32,559,220	38,080,701
unique_aligned_reads	30,709,438	35,894,943
percent_uniqueAligned	0.85311	0.85101
correlation_replicates	0.998400	0.998400
spikein_reads	3,204	6,186
percent_spikeins	0.00009	0.00015
original_ReadLength	151	151
QC_Status	Submitting	Submitting
ID	2957	2958

Data Submission Information DCC submission information was not avaliable

File Information Files of the experiment was not avaliable in the database