NAA10 RNA-Seq in HepG2

General Information


RBP	NAA10
Cell_Line	HepG2
Method	CRISPR
Exp_Name	NAA10-BGHcLV43-HepG2
ENCODE_series_ID
Batch_ID	BGHcLV43
Pool ID	Pool-240723
Local_Set_Name	set74
ENCODE_KD_Exp_ID
ENCODE_CN_Exp_ID
Rep1	NAA10-BGHcLV43-31
Rep2	NAA10-BGHcLV43-32
CN1	NT-BGHcLV43-1
CN2	NT-BGHcLV43-2
Rep1_qPCR	87.5
Rep2_qPCR	90.1
Rep1_WB	58.7
Rep2_WB	54.1
Antibody Cat#	13357S
Antibody Lot#	lot # 1
Antibody DCC ID
Status	Submitted
Project	ENCORE2
ID	1580

Experiment Information (Status: Submitting)

	BGHcLV43-31	BGHcLV43-32
idx	1399	1400
TRCN#_or_BGC#	BGC#0001158	BGC#0001158
shRNA_or_gRNA_sequence	ACATTGCTGAGGACGAGAAT	ACATTGCTGAGGACGAGAAT
PAM	GGG	GGG
Name	NAA10_87	NAA10_87
Sample_ID	BGHcLV43-31	BGHcLV43-32
transduction_Date	6/6/24	6/6/24
days	D6	D6
RBP_name	NAA10	NAA10
qPCR_result	87.5	90.1
Ave_qPCR	88.8
RT-qPCR_primer-F	ttctaccatggcctttcctg
RT-qPCR_primer-R	ccaggacataccccacaatc
protein_conc	3627	3898
WB_result	58.7	54.1
Ave_WB	56.4
WB_DONE_date	6/17/24
MW	28kd
IP
antibody_Cat#	13357S	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	9652	9653

Western Blot

RBP	Antibody Info	Primary-HepG2	Secondary-HepG2	Primary-K562	Secondary-K562	Primary-UBERON	Primary-Hela
NAA10	Product_ID: 13357S Lot_ID: 1 Source: Cell Signaling Technology Target Name: NAA10-human

Experiment Status

	BGHcLV43-31	BGHcLV43-32
Sample_ID	BGHcLV43-31	BGHcLV43-32
Sample Name
Sample Name	NAA10-BGHcLV43-31	NAA10-BGHcLV43-32
RBP	NAA10	NAA10
Cell_Line	HepG2	HepG2
Exp UID
Status	Submitting	Submitting
Status_date	2025-02-11	2025-02-11
Project	ENCORE2	ENCORE2
Note
ID	13250	13251

Library-Prep
Sequencing

Library-Prep Information

	BGHcLV43-31	BGHcLV43-32
Sample #	23	24
Sample Name	NAA10-BGHcLV43-31	NAA10-BGHcLV43-32
Sample_Name_Alias
Index Well Position	G08	H08
Index_table	IDT_UniqueDualIndex_96	IDT_UniqueDualIndex_96
LibPrep_date	2024-07-22	2024-07-22
Lib_ID	Lib-240722	Lib-240722
Tecan_Location
Tecan
Tecan_date
Size_bp	289	286
Peak_Molarity	82.00	63.40
libSampleQC_DNA_Well	DNA_Library_set74/set1/G3.png	DNA_Library_set74/set1/H3.png
RIN	10.0	10.0
libSample_RNA_Well	RNA_Library_set74/set1/C9.png	RNA_Library_set74/set1/D9.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2024-07-23	2024-07-23
Sample_ID	BGHcLV43-31	BGHcLV43-32
RBP	NAA10	NAA10
Batch_ID	BGHcLV43	BGHcLV43
WB_result	58.700	54.100
Library Description	TruSeq mRNA	TruSeq mRNA
Repeat_Library_Suffix
Lib_Status	SendToSequence	SendToSequence
Project	ENCORE2	ENCORE2
ID	4382	4383

Sequencing Information

	BGHcLV43-31	BGHcLV43-32
Sample_ID	BGHcLV43-31	BGHcLV43-32
Sample Name	NAA10-BGHcLV43-31	NAA10-BGHcLV43-32
Pool ID	Pool-240723	Pool-240723
LocalServer_folder	set74	set74
total_reads	43,449,232	31,297,960
total_aligned_reads	39,547,299	28,357,678
unique_aligned_reads	37,209,341	26,683,246
percent_uniqueAligned	0.85639	0.85256
correlation_replicates	0.998197	0.998197
spikein_reads	26,170	15,818
percent_spikeins	0.00060	0.00051
original_ReadLength	101	101
QC_Status	Submitting	Submitting
ID	3249	3250

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
NAA10-BGHcLV43-31_S113_L003_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set74/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3249	NovaSeq6000	100	paired-ended	1				NT-BGHcLV43-1_S91_L003_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV43-2_S92_L003_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	30540
NAA10-BGHcLV43-31_S113_L003_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set74/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3249	NovaSeq6000	100	paired-ended	2				NT-BGHcLV43-1_S91_L003_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV43-2_S92_L003_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	30592
NAA10-BGHcLV43-31_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set74/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3249					GRCh38	V40	NAA10-BGHcLV43-31_S113_L003_R1_001.filtered.trimmed.paired.fastq.gz,NAA10-BGHcLV43-31_S113_L003_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	30644
NAA10-BGHcLV43-31_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set74/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3249					GRCh38	V40	NAA10-BGHcLV43-31_Aligned.sortedByCoord.out.bam		ENCORE2	30696
NAA10-BGHcLV43-31_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set74/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3249					GRCh38	V40	NAA10-BGHcLV43-31_Aligned.sortedByCoord.out.bam		ENCORE2	30748
NAA10-BGHcLV43-31_Signal.Unique.strand-.bw	ENCODE_DATA/set74/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3249					GRCh38	V40	NAA10-BGHcLV43-31_Aligned.sortedByCoord.out.bam		ENCORE2	30800
NAA10-BGHcLV43-31_Signal.Unique.strand+.bw	ENCODE_DATA/set74/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3249					GRCh38	V40	NAA10-BGHcLV43-31_Aligned.sortedByCoord.out.bam		ENCORE2	30852
NAA10-BGHcLV43-31_quant.sf	ENCODE_DATA/set74/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3249					GRCh38	V40	NAA10-BGHcLV43-31_S113_L003_R1_001.filtered.trimmed.paired.fastq.gz,NAA10-BGHcLV43-31_S113_L003_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	30904
NAA10-BGHcLV43-32_S114_L003_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set74/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3250	NovaSeq6000	100	paired-ended	1				NT-BGHcLV43-1_S91_L003_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV43-2_S92_L003_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	30541
NAA10-BGHcLV43-32_S114_L003_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set74/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3250	NovaSeq6000	100	paired-ended	2				NT-BGHcLV43-1_S91_L003_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV43-2_S92_L003_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	30593
NAA10-BGHcLV43-32_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set74/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3250					GRCh38	V40	NAA10-BGHcLV43-32_S114_L003_R1_001.filtered.trimmed.paired.fastq.gz,NAA10-BGHcLV43-32_S114_L003_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	30645
NAA10-BGHcLV43-32_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set74/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3250					GRCh38	V40	NAA10-BGHcLV43-32_Aligned.sortedByCoord.out.bam		ENCORE2	30697
NAA10-BGHcLV43-32_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set74/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3250					GRCh38	V40	NAA10-BGHcLV43-32_Aligned.sortedByCoord.out.bam		ENCORE2	30749
NAA10-BGHcLV43-32_Signal.Unique.strand-.bw	ENCODE_DATA/set74/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3250					GRCh38	V40	NAA10-BGHcLV43-32_Aligned.sortedByCoord.out.bam		ENCORE2	30801
NAA10-BGHcLV43-32_Signal.Unique.strand+.bw	ENCODE_DATA/set74/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3250					GRCh38	V40	NAA10-BGHcLV43-32_Aligned.sortedByCoord.out.bam		ENCORE2	30853
NAA10-BGHcLV43-32_quant.sf	ENCODE_DATA/set74/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3250					GRCh38	V40	NAA10-BGHcLV43-32_S114_L003_R1_001.filtered.trimmed.paired.fastq.gz,NAA10-BGHcLV43-32_S114_L003_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	30905