ARPC1B RNA-Seq in K562

Experiment Information (Status: Sequenced)

	BGKcLV53-15	BGKcLV53-15	BGKcLV53-16	BGKcLV53-16
idx	0	0	0	0
TRCN#_or_BGC#	BGC#0001496	BGC#0001496	BGC#0001496	BGC#0001496
shRNA_or_gRNA_sequence	ATCCGCAGGATGACCAGCGT	ATCCGCAGGATGACCAGCGT	ATCCGCAGGATGACCAGCGT	ATCCGCAGGATGACCAGCGT
PAM	GGG	GGG	GGG	GGG
Name	ARPC1B_91	ARPC1B_91	ARPC1B_91	ARPC1B_91
Sample_ID	BGKcLV53-15	BGKcLV53-15	BGKcLV53-16	BGKcLV53-16
transduction_Date	2/24/26	2/24/26	2/24/26	2/24/26
days	D6	D6	D6	D6
RBP_name	ARPC1B	ARPC1B	ARPC1B	ARPC1B
qPCR_result	61.0		63.6
Ave_qPCR	62.3
RT-qPCR_primer-F	cgctgaccttcatcacagac
RT-qPCR_primer-R	gcgtcataggtgaacagcac
protein_conc	4130	4130	5038	5038
WB_result	58.9		68.4
Ave_WB
WB_DONE_date	3/10/26	5/5/26		no clear band on the
MW	42kDa	42kDa
IP
antibody_Cat#	A302-780A	A302-781A	lot# 3	lot# 3
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	6373	6375	6374	6376

Western Blot

RBP	Antibody Info	Primary-HepG2	Secondary-HepG2	Primary-K562	Secondary-K562	Primary-UBERON	Primary-Hela
ARPC1B	Product_ID: A302-780A Lot_ID: 3 Source: Bethyl Labs Target Name: ARPC1B-human

Experiment Status

	BGKcLV53-15	BGKcLV53-15	BGKcLV53-16	BGKcLV53-16
Sample_ID	BGKcLV53-15	BGKcLV53-15	BGKcLV53-16	BGKcLV53-16
Sample Name
Sample Name	ARPC1B-BGKcLV53-15		ARPC1B-BGKcLV53-16
RBP	ARPC1B	ARPC1B	ARPC1B	ARPC1B
Cell_Line	K562	K562	K562	K562
Exp UID
Status	Sequenced	NotSatisfied	Sequenced	NotSatisfied
Status_date	2026-09-16	2026-05-18	2026-09-16	2026-05-18
Project	ENCORE2	ENCORE2	ENCORE2	ENCORE2
Note
ID	14788	14818	14789	14819

Library-Prep
Sequencing

Library-Prep Information

	BGKcLV53-15	BGKcLV53-16
Sample #	39	40
Sample Name	ARPC1B-BGKcLV53-15	ARPC1B-BGKcLV53-16
Sample_Name_Alias
Index Well Position	E06	F06
Index_table	IDT_UniqueDualIndex_96_V2	IDT_UniqueDualIndex_96_V2
LibPrep_date	2026-05-26	2026-05-26
Lib_ID	Lib-260526	Lib-260526
Tecan_Location
Tecan
Tecan_date
Size_bp	287	286
Peak_Molarity	71.80	45.00
libSampleQC_DNA_Well	DNA_Library_set82/set2/E9.png	DNA_Library_set82/set2/F9.png
RIN	10.0	10.0
libSample_RNA_Well	RNA_Library_set82/set2/E6.png	RNA_Library_set82/set2/F6.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2026-05-27	2026-05-27
Sample_ID	BGKcLV53-15	BGKcLV53-16
RBP	ARPC1B	ARPC1B
Batch_ID	BGKcLV53	BGKcLV53
WB_result	58.900	68.400
Library Description	TruSeq mRNA	TruSeq mRNA
Repeat_Library_Suffix
Lib_Status	SendToSequence	SendToSequence
Project	ENCORE2	ENCORE2
ID	4878	4879

Sequencing Information

	BGKcLV53-15	BGKcLV53-16
Sample_ID	BGKcLV53-15	BGKcLV53-16
Sample Name	ARPC1B-BGKcLV53-15	ARPC1B-BGKcLV53-16
Pool ID	Pool-260528	Pool-260528
LocalServer_folder	set82	set82
total_reads	42,030,121	33,823,186
total_aligned_reads	35,027,092	27,611,149
unique_aligned_reads	32,388,139	25,512,796
percent_uniqueAligned	0.77059	0.75430
correlation_replicates	0.994584	0.994584
spikein_reads	58,596	55,008
percent_spikeins	0.00139	0.00163
original_ReadLength	151	151
QC_Status	ReadyToSubmit	ReadyToSubmit
ID	3579	3580

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
ARPC1B-BGKcLV53-15_R1.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set82/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3579	NovaSeq6000	100	paired-ended	1				NT-BGKcLV53-1_R1.filtered.trimmed.paired.fastq.gz,NT-BGKcLV53-2_R1.filtered.trimmed.paired.fastq.gz	ENCORE2	33654
ARPC1B-BGKcLV53-15_R2.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set82/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3579	NovaSeq6000	100	paired-ended	2				NT-BGKcLV53-1_R2.filtered.trimmed.paired.fastq.gz,NT-BGKcLV53-2_R2.filtered.trimmed.paired.fastq.gz	ENCORE2	33712
ARPC1B-BGKcLV53-15_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set82/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3579					GRCh38	V40	ARPC1B-BGKcLV53-15_R1.filtered.trimmed.paired.fastq.gz,ARPC1B-BGKcLV53-15_R2.filtered.trimmed.paired.fastq.gz		ENCORE2	33770
ARPC1B-BGKcLV53-15_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set82/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3579					GRCh38	V40	ARPC1B-BGKcLV53-15_Aligned.sortedByCoord.out.bam		ENCORE2	33828
ARPC1B-BGKcLV53-15_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set82/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3579					GRCh38	V40	ARPC1B-BGKcLV53-15_Aligned.sortedByCoord.out.bam		ENCORE2	33886
ARPC1B-BGKcLV53-15_Signal.Unique.strand-.bw	ENCODE_DATA/set82/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3579					GRCh38	V40	ARPC1B-BGKcLV53-15_Aligned.sortedByCoord.out.bam		ENCORE2	33944
ARPC1B-BGKcLV53-15_Signal.Unique.strand+.bw	ENCODE_DATA/set82/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3579					GRCh38	V40	ARPC1B-BGKcLV53-15_Aligned.sortedByCoord.out.bam		ENCORE2	34002
ARPC1B-BGKcLV53-15_quant.sf	ENCODE_DATA/set82/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3579					GRCh38	V40	ARPC1B-BGKcLV53-15_R1.filtered.trimmed.paired.fastq.gz,ARPC1B-BGKcLV53-15_R2.filtered.trimmed.paired.fastq.gz		ENCORE2	34060
ARPC1B-BGKcLV53-16_R1.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set82/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3580	NovaSeq6000	100	paired-ended	1				NT-BGKcLV53-1_R1.filtered.trimmed.paired.fastq.gz,NT-BGKcLV53-2_R1.filtered.trimmed.paired.fastq.gz	ENCORE2	33655
ARPC1B-BGKcLV53-16_R2.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set82/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3580	NovaSeq6000	100	paired-ended	2				NT-BGKcLV53-1_R2.filtered.trimmed.paired.fastq.gz,NT-BGKcLV53-2_R2.filtered.trimmed.paired.fastq.gz	ENCORE2	33713
ARPC1B-BGKcLV53-16_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set82/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3580					GRCh38	V40	ARPC1B-BGKcLV53-16_R1.filtered.trimmed.paired.fastq.gz,ARPC1B-BGKcLV53-16_R2.filtered.trimmed.paired.fastq.gz		ENCORE2	33771
ARPC1B-BGKcLV53-16_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set82/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3580					GRCh38	V40	ARPC1B-BGKcLV53-16_Aligned.sortedByCoord.out.bam		ENCORE2	33829
ARPC1B-BGKcLV53-16_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set82/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3580					GRCh38	V40	ARPC1B-BGKcLV53-16_Aligned.sortedByCoord.out.bam		ENCORE2	33887
ARPC1B-BGKcLV53-16_Signal.Unique.strand-.bw	ENCODE_DATA/set82/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3580					GRCh38	V40	ARPC1B-BGKcLV53-16_Aligned.sortedByCoord.out.bam		ENCORE2	33945
ARPC1B-BGKcLV53-16_Signal.Unique.strand+.bw	ENCODE_DATA/set82/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3580					GRCh38	V40	ARPC1B-BGKcLV53-16_Aligned.sortedByCoord.out.bam		ENCORE2	34003
ARPC1B-BGKcLV53-16_quant.sf	ENCODE_DATA/set82/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3580					GRCh38	V40	ARPC1B-BGKcLV53-16_R1.filtered.trimmed.paired.fastq.gz,ARPC1B-BGKcLV53-16_R2.filtered.trimmed.paired.fastq.gz		ENCORE2	34061