ASS1 RNA-Seq in HepG2

Experiment Information (Status: Sequenced)

	BGHcLV47-3	BGHcLV47-4
idx	1607	1608
TRCN#_or_BGC#	BGC#0001111	BGC#0001111
shRNA_or_gRNA_sequence	CGTACTCCATCAGGTCATTG	CGTACTCCATCAGGTCATTG
PAM	CGG	CGG
Name	ASS1_72	ASS1_72
Sample_ID	BGHcLV47-3	BGHcLV47-4
transduction_Date	1/28/25	1/28/25
days	D6	D6
RBP_name	ASS1	ASS1
qPCR_result	58.9	48.8
Ave_qPCR	53.9
RT-qPCR_primer-F	gtggttctggcctacagtgg
RT-qPCR_primer-R	ggcttcctcgaagtcttcct
protein_conc	3075	3826
WB_result	63.2	67.3
Ave_WB
WB_DONE_date	2/6/25
MW	47kd	TUBULIN
IP
antibody_Cat#	70720S	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	9796	9797

Western Blot

RBP	Antibody Info	Primary-HepG2	Secondary-HepG2	Primary-K562	Secondary-K562	Primary-UBERON	Primary-Hela
ASS1	Product_ID: 70720S Lot_ID: 1 Source: Cell Signaling Technology Target Name: ASS1-human

Experiment Status

	BGHcLV47-3	BGHcLV47-4
Sample_ID	BGHcLV47-3	BGHcLV47-4
Sample Name
Sample Name	ASS1-BGHcLV47-3	ASS1-BGHcLV47-4
RBP	ASS1	ASS1
Cell_Line	HepG2	HepG2
Exp UID
Status	Sequenced	Sequenced
Status_date	2025-05-14	2025-05-14
Project	ENCORE2	ENCORE2
Note
ID	14150	14151

Library-Prep
Sequencing

Library-Prep Information

	BGHcLV47-3	BGHcLV47-4
Sample #	3	4
Sample Name	ASS1-BGHcLV47-3	ASS1-BGHcLV47-4
Sample_Name_Alias
Index Well Position	C08	D08
Index_table	IDT_UniqueDualIndex_96_V2	IDT_UniqueDualIndex_96_V2
LibPrep_date	2025-04-23	2025-04-23
Lib_ID	Lib-250423	Lib-250423
Tecan_Location
Tecan
Tecan_date
Size_bp	267	265
Peak_Molarity	49.00	49.40
libSampleQC_DNA_Well	DNA_Library_set78/set1/C6.png	DNA_Library_set78/set1/D6.png
RIN	10.0	10.0
libSample_RNA_Well	RNA_Library_set78/set1/C1.png	RNA_Library_set78/set1/D1.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2025-04-22	2025-04-22
Sample_ID	BGHcLV47-3	BGHcLV47-4
RBP	ASS1	ASS1
Batch_ID	BGHcLV47	BGHcLV47
WB_result	63.200	67.300
Library Description	TruSeq mRNA	TruSeq mRNA
Repeat_Library_Suffix
Lib_Status	SendToSequence	SendToSequence
Project	ENCORE2	ENCORE2
ID	4714	4715

Sequencing Information

	BGHcLV47-3	BGHcLV47-4
Sample_ID	BGHcLV47-3	BGHcLV47-4
Sample Name	ASS1-BGHcLV47-3	ASS1-BGHcLV47-4
Pool ID	Pool-250422	Pool-250422
LocalServer_folder	set78	set78
total_reads	17,779,813	15,636,242
total_aligned_reads	15,398,653	12,756,631
unique_aligned_reads	14,511,336	12,001,110
percent_uniqueAligned	0.81617	0.76752
correlation_replicates	0.997532	0.997532
spikein_reads	23,354	19,176
percent_spikeins	0.00131	0.00123
original_ReadLength	101	101
QC_Status	ReadyToSubmit	ReadyToSubmit
ID	3417	3418

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
ASS1-BGHcLV47-3_S44_L002_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set78/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3417	NovaSeq6000	100	paired-ended	1				NT-BGHcLV47-1_S42_L002_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV47-2_S43_L002_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	32548
ASS1-BGHcLV47-3_S44_L002_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set78/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3417	NovaSeq6000	100	paired-ended	2				NT-BGHcLV47-1_S42_L002_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV47-2_S43_L002_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	32582
ASS1-BGHcLV47-3_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set78/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3417					GRCh38	V40	ASS1-BGHcLV47-3_S44_L002_R1_001.filtered.trimmed.paired.fastq.gz,ASS1-BGHcLV47-3_S44_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	32616
ASS1-BGHcLV47-3_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set78/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3417					GRCh38	V40	ASS1-BGHcLV47-3_Aligned.sortedByCoord.out.bam		ENCORE2	32650
ASS1-BGHcLV47-3_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set78/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3417					GRCh38	V40	ASS1-BGHcLV47-3_Aligned.sortedByCoord.out.bam		ENCORE2	32684
ASS1-BGHcLV47-3_Signal.Unique.strand-.bw	ENCODE_DATA/set78/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3417					GRCh38	V40	ASS1-BGHcLV47-3_Aligned.sortedByCoord.out.bam		ENCORE2	32718
ASS1-BGHcLV47-3_Signal.Unique.strand+.bw	ENCODE_DATA/set78/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3417					GRCh38	V40	ASS1-BGHcLV47-3_Aligned.sortedByCoord.out.bam		ENCORE2	32752
ASS1-BGHcLV47-3_quant.sf	ENCODE_DATA/set78/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3417					GRCh38	V40	ASS1-BGHcLV47-3_S44_L002_R1_001.filtered.trimmed.paired.fastq.gz,ASS1-BGHcLV47-3_S44_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	32786
ASS1-BGHcLV47-4_S45_L002_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set78/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3418	NovaSeq6000	100	paired-ended	1				NT-BGHcLV47-1_S42_L002_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV47-2_S43_L002_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	32549
ASS1-BGHcLV47-4_S45_L002_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set78/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3418	NovaSeq6000	100	paired-ended	2				NT-BGHcLV47-1_S42_L002_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV47-2_S43_L002_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	32583
ASS1-BGHcLV47-4_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set78/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3418					GRCh38	V40	ASS1-BGHcLV47-4_S45_L002_R1_001.filtered.trimmed.paired.fastq.gz,ASS1-BGHcLV47-4_S45_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	32617
ASS1-BGHcLV47-4_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set78/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3418					GRCh38	V40	ASS1-BGHcLV47-4_Aligned.sortedByCoord.out.bam		ENCORE2	32651
ASS1-BGHcLV47-4_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set78/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3418					GRCh38	V40	ASS1-BGHcLV47-4_Aligned.sortedByCoord.out.bam		ENCORE2	32685
ASS1-BGHcLV47-4_Signal.Unique.strand-.bw	ENCODE_DATA/set78/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3418					GRCh38	V40	ASS1-BGHcLV47-4_Aligned.sortedByCoord.out.bam		ENCORE2	32719
ASS1-BGHcLV47-4_Signal.Unique.strand+.bw	ENCODE_DATA/set78/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3418					GRCh38	V40	ASS1-BGHcLV47-4_Aligned.sortedByCoord.out.bam		ENCORE2	32753
ASS1-BGHcLV47-4_quant.sf	ENCODE_DATA/set78/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3418					GRCh38	V40	ASS1-BGHcLV47-4_S45_L002_R1_001.filtered.trimmed.paired.fastq.gz,ASS1-BGHcLV47-4_S45_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	32787