RPL8 RNA-Seq in K562

General Information


RBP	RPL8
Cell_Line	K562
Method	CRISPR
Exp_Name	RPL8-BGKcLV48-K562
ENCODE_series_ID
Batch_ID	BGKcLV48
Pool ID	Pool-250822
Local_Set_Name	set79
ENCODE_KD_Exp_ID
ENCODE_CN_Exp_ID
Rep1	RPL8-BGKcLV48-63
Rep2	RPL8-BGKcLV48-64
CN1	NT-BGKcLV48-1
CN2	NT-BGKcLV48-2
Rep1_qPCR	69.6
Rep2_qPCR	70.3
Rep1_WB	78.1
Rep2_WB	60.8
Antibody Cat#	A305-059A
Antibody Lot#	LOT #1
Antibody DCC ID
Status	Submitted
Project	ENCORE2
ID	1680

Experiment Information (Status: Sequenced)

	BGKcLV48-63	BGKcLV48-64
idx	0	0
TRCN#_or_BGC#	BGC#0001373	BGC#0001373
shRNA_or_gRNA_sequence	GTGGATTTCGCTGAGCGGCA	GTGGATTTCGCTGAGCGGCA
PAM	CGG	CGG
Name	RPL8_93	RPL8_93
Sample_ID	BGKcLV48-63	BGKcLV48-64
transduction_Date	4/15/25	4/15/25
days	D6	D6
RBP_name	RPL8	RPL8
qPCR_result	69.6	70.3
Ave_qPCR	70.0
RT-qPCR_primer-F	ttgtgtattgcggcaagaag
RT-qPCR_primer-R	gattgtaccctcaggcatgg
protein_conc	1925	1912
WB_result	78.1	60.8
Ave_WB
WB_DONE_date	5/14/25
MW	28KD
IP
antibody_Cat#	A305-059A	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	6211	6212

Western Blot

RBP	Antibody Info	Primary-HepG2	Secondary-HepG2	Primary-K562	Secondary-K562	Primary-UBERON	Primary-Hela
RPL8	Product_ID: A305-059A Lot_ID: 1 Source: Bethyl Labs Target Name: RPL8-human

Experiment Status

	BGKcLV48-63	BGKcLV48-64
Sample_ID	BGKcLV48-63	BGKcLV48-64
Sample Name
Sample Name	RPL8-BGKcLV48-63	RPL8-BGKcLV48-64
RBP	RPL8	RPL8
Cell_Line	K562	K562
Exp UID
Status	Sequenced	Sequenced
Status_date	2025-10-02	2025-10-02
Project	ENCORE2	ENCORE2
Note
ID	14252	14253

Library-Prep
Sequencing

Library-Prep Information

	BGKcLV48-63	BGKcLV48-64
Sample #	15	16
Sample Name	RPL8-BGKcLV48-63	RPL8-BGKcLV48-64
Sample_Name_Alias
Index Well Position	G02	H02
Index_table	IDT_UniqueDualIndex_96_V2	IDT_UniqueDualIndex_96_V2
LibPrep_date	2025-08-18	2025-08-18
Lib_ID	Lib-250818	Lib-250818
Tecan_Location
Tecan
Tecan_date
Size_bp	264	262
Peak_Molarity	63.40	58.10
libSampleQC_DNA_Well	DNA_Library_set79/set1/G2.png	DNA_Library_set79/set1/H2.png
RIN	10.0	10.0
libSample_RNA_Well	RNA_Library_set79/set1/G11.png	RNA_Library_set79/set1/H11.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2025-08-19	2025-08-19
Sample_ID	BGKcLV48-63	BGKcLV48-64
RBP	RPL8	RPL8
Batch_ID	BGKcLV48	BGKcLV48
WB_result	78.100	60.800
Library Description	TruSeq mRNA	TruSeq mRNA
Repeat_Library_Suffix
Lib_Status	SendToSequence	SendToSequence
Project	ENCORE2	ENCORE2
ID	4760	4761

Sequencing Information

	BGKcLV48-63	BGKcLV48-64
Sample_ID	BGKcLV48-63	BGKcLV48-64
Sample Name	RPL8-BGKcLV48-63	RPL8-BGKcLV48-64
Pool ID	Pool-250822	Pool-250822
LocalServer_folder	set79	set79
total_reads	26,434,444	32,937,771
total_aligned_reads	23,169,891	27,246,839
unique_aligned_reads	21,329,280	25,105,169
percent_uniqueAligned	0.80687	0.76220
correlation_replicates	0.997289	0.997289
spikein_reads	67,268	78,258
percent_spikeins	0.00254	0.00238
original_ReadLength	151	151
QC_Status	ReadyToSubmit	ReadyToSubmit
ID	3463	3464

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
RPL8-BGKcLV48-63_S179_L002_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set79/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3463	NovaSeq6000	100	paired-ended	1				NT-BGKcLV48-1_S165_L002_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGKcLV48-2_S166_L002_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	32834
RPL8-BGKcLV48-63_S179_L002_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set79/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3463	NovaSeq6000	100	paired-ended	2				NT-BGKcLV48-1_S165_L002_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGKcLV48-2_S166_L002_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	32856
RPL8-BGKcLV48-63_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set79/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3463					GRCh38	V40	RPL8-BGKcLV48-63_S179_L002_R1_001.filtered.trimmed.paired.fastq.gz,RPL8-BGKcLV48-63_S179_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	32878
RPL8-BGKcLV48-63_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set79/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3463					GRCh38	V40	RPL8-BGKcLV48-63_Aligned.sortedByCoord.out.bam		ENCORE2	32900
RPL8-BGKcLV48-63_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set79/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3463					GRCh38	V40	RPL8-BGKcLV48-63_Aligned.sortedByCoord.out.bam		ENCORE2	32922
RPL8-BGKcLV48-63_Signal.Unique.strand-.bw	ENCODE_DATA/set79/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3463					GRCh38	V40	RPL8-BGKcLV48-63_Aligned.sortedByCoord.out.bam		ENCORE2	32944
RPL8-BGKcLV48-63_Signal.Unique.strand+.bw	ENCODE_DATA/set79/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3463					GRCh38	V40	RPL8-BGKcLV48-63_Aligned.sortedByCoord.out.bam		ENCORE2	32966
RPL8-BGKcLV48-64_S180_L002_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set79/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3464	NovaSeq6000	100	paired-ended	1				NT-BGKcLV48-1_S165_L002_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGKcLV48-2_S166_L002_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	32835
RPL8-BGKcLV48-64_S180_L002_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set79/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3464	NovaSeq6000	100	paired-ended	2				NT-BGKcLV48-1_S165_L002_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGKcLV48-2_S166_L002_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	32857
RPL8-BGKcLV48-64_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set79/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3464					GRCh38	V40	RPL8-BGKcLV48-64_S180_L002_R1_001.filtered.trimmed.paired.fastq.gz,RPL8-BGKcLV48-64_S180_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	32879
RPL8-BGKcLV48-64_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set79/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3464					GRCh38	V40	RPL8-BGKcLV48-64_Aligned.sortedByCoord.out.bam		ENCORE2	32901
RPL8-BGKcLV48-64_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set79/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3464					GRCh38	V40	RPL8-BGKcLV48-64_Aligned.sortedByCoord.out.bam		ENCORE2	32923
RPL8-BGKcLV48-64_Signal.Unique.strand-.bw	ENCODE_DATA/set79/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3464					GRCh38	V40	RPL8-BGKcLV48-64_Aligned.sortedByCoord.out.bam		ENCORE2	32945
RPL8-BGKcLV48-64_Signal.Unique.strand+.bw	ENCODE_DATA/set79/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3464					GRCh38	V40	RPL8-BGKcLV48-64_Aligned.sortedByCoord.out.bam		ENCORE2	32967