RPS6 RNA-Seq in HepG2

Experiment Information (Status: Sequenced)

	BGHcLV52-59	BGHcLV52-60
idx	2007	2008
TRCN#_or_BGC#	BGC#0001303	BGC#0001303
shRNA_or_gRNA_sequence	CTGACGCTCTGGGTGAAGAA	CTGACGCTCTGGGTGAAGAA
PAM	TGG	TGG
Name	RPS6_64	RPS6_64
Sample_ID	BGHcLV52-59	BGHcLV52-60
transduction_Date	1/8/26	1/8/26
days	D6	D6
RBP_name	RPS6	RPS6
qPCR_result	66.8	72.0
Ave_qPCR	69.4
RT-qPCR_primer-F	tctgagcgttctcaacttgg
RT-qPCR_primer-R	tgcggattctgctagctctt
protein_conc	2384	1799
WB_result	61.4	63.1
Ave_WB
WB_DONE_date	2/5/26
MW
IP	29kD	fu's
antibody_Cat#	A300-556A	lot# 2
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	10196	10197

Western Blot

RBP	Antibody Info	Primary-HepG2	Secondary-HepG2	Primary-K562	Secondary-K562	Primary-UBERON	Primary-Hela
RPS6	Product_ID: A300-556A Lot_ID: 2 Source: Bethyl Labs Target Name: RPS6-human

Experiment Status

	BGHcLV52-59	BGHcLV52-60
Sample_ID	BGHcLV52-59	BGHcLV52-60
Sample Name
Sample Name	RPS6-BGHcLV52-59	RPS6-BGHcLV52-60
RBP	RPS6	RPS6
Cell_Line	HepG2	HepG2
Exp UID
Status	Sequenced	Sequenced
Status_date	2026-09-16	2026-09-16
Project	ENCORE2	ENCORE2
Note
ID	14696	14697

Library-Prep
Sequencing

Library-Prep Information

	BGHcLV52-59	BGHcLV52-60
Sample #	29	30
Sample Name	RPS6-BGHcLV52-59	RPS6-BGHcLV52-60
Sample_Name_Alias
Index Well Position	E04	F04
Index_table	IDT_UniqueDualIndex_96_V2	IDT_UniqueDualIndex_96_V2
LibPrep_date	2026-05-18	2026-05-18
Lib_ID	Lib-260518	Lib-260518
Tecan_Location
Tecan
Tecan_date
Size_bp	306	290
Peak_Molarity	60.80	57.20
libSampleQC_DNA_Well	DNA_Library_set82/set1/E11.png	DNA_Library_set82/set1/F11.png
RIN	9.8	9.7
libSample_RNA_Well	RNA_Library_set82/set1/E4.png	RNA_Library_set82/set1/F4.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2026-05-21	2026-05-21
Sample_ID	BGHcLV52-59	BGHcLV52-60
RBP	RPS6	RPS6
Batch_ID	BGHcLV52	BGHcLV52
WB_result	61.400	63.100
Library Description	TruSeq mRNA	TruSeq mRNA
Repeat_Library_Suffix
Lib_Status	SendToSequence	SendToSequence
Project	ENCORE2	ENCORE2
ID	4868	4869

Sequencing Information

	BGHcLV52-59	BGHcLV52-60
Sample_ID	BGHcLV52-59	BGHcLV52-60
Sample Name	RPS6-BGHcLV52-59	RPS6-BGHcLV52-60
Pool ID	Pool-260528	Pool-260528
LocalServer_folder	set82	set82
total_reads	51,699,884	31,066,577
total_aligned_reads	45,227,291	25,636,979
unique_aligned_reads	43,059,354	24,442,015
percent_uniqueAligned	0.83287	0.78676
correlation_replicates	0.993950	0.993950
spikein_reads	63,596	45,136
percent_spikeins	0.00123	0.00145
original_ReadLength	151	151
QC_Status	ReadyToSubmit	ReadyToSubmit
ID	3569	3570

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
RPS6-BGHcLV52-59_R1.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set82/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3569	NovaSeq6000	100	paired-ended	1				NT-BGHcLV52-1_R1.filtered.trimmed.paired.fastq.gz,NT-BGHcLV52-2_R1.filtered.trimmed.paired.fastq.gz	ENCORE2	33692
RPS6-BGHcLV52-59_R2.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set82/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3569	NovaSeq6000	100	paired-ended	2				NT-BGHcLV52-1_R2.filtered.trimmed.paired.fastq.gz,NT-BGHcLV52-2_R2.filtered.trimmed.paired.fastq.gz	ENCORE2	33750
RPS6-BGHcLV52-59_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set82/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3569					GRCh38	V40	RPS6-BGHcLV52-59_R1.filtered.trimmed.paired.fastq.gz,RPS6-BGHcLV52-59_R2.filtered.trimmed.paired.fastq.gz		ENCORE2	33810
RPS6-BGHcLV52-59_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	3569					GRCh38	V40	RPS6-BGHcLV52-59_Aligned.sortedByCoord.out.bam		ENCORE2	33868
RPS6-BGHcLV52-59_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	3569					GRCh38	V40	RPS6-BGHcLV52-59_Aligned.sortedByCoord.out.bam		ENCORE2	33926
RPS6-BGHcLV52-59_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	3569					GRCh38	V40	RPS6-BGHcLV52-59_Aligned.sortedByCoord.out.bam		ENCORE2	33984
RPS6-BGHcLV52-59_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	3569					GRCh38	V40	RPS6-BGHcLV52-59_Aligned.sortedByCoord.out.bam		ENCORE2	34042
RPS6-BGHcLV52-59_quant.sf	ENCODE_DATA/set82/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3569					GRCh38	V40	RPS6-BGHcLV52-59_R1.filtered.trimmed.paired.fastq.gz,RPS6-BGHcLV52-59_R2.filtered.trimmed.paired.fastq.gz		ENCORE2	34100
RPS6-BGHcLV52-60_R1.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set82/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3570	NovaSeq6000	100	paired-ended	1				NT-BGHcLV52-1_R1.filtered.trimmed.paired.fastq.gz,NT-BGHcLV52-2_R1.filtered.trimmed.paired.fastq.gz	ENCORE2	33693
RPS6-BGHcLV52-60_R2.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set82/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3570	NovaSeq6000	100	paired-ended	2				NT-BGHcLV52-1_R2.filtered.trimmed.paired.fastq.gz,NT-BGHcLV52-2_R2.filtered.trimmed.paired.fastq.gz	ENCORE2	33751
RPS6-BGHcLV52-60_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set82/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3570					GRCh38	V40	RPS6-BGHcLV52-60_R1.filtered.trimmed.paired.fastq.gz,RPS6-BGHcLV52-60_R2.filtered.trimmed.paired.fastq.gz		ENCORE2	33811
RPS6-BGHcLV52-60_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	3570					GRCh38	V40	RPS6-BGHcLV52-60_Aligned.sortedByCoord.out.bam		ENCORE2	33869
RPS6-BGHcLV52-60_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	3570					GRCh38	V40	RPS6-BGHcLV52-60_Aligned.sortedByCoord.out.bam		ENCORE2	33927
RPS6-BGHcLV52-60_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	3570					GRCh38	V40	RPS6-BGHcLV52-60_Aligned.sortedByCoord.out.bam		ENCORE2	33985
RPS6-BGHcLV52-60_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	3570					GRCh38	V40	RPS6-BGHcLV52-60_Aligned.sortedByCoord.out.bam		ENCORE2	34043
RPS6-BGHcLV52-60_quant.sf	ENCODE_DATA/set82/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3570					GRCh38	V40	RPS6-BGHcLV52-60_R1.filtered.trimmed.paired.fastq.gz,RPS6-BGHcLV52-60_R2.filtered.trimmed.paired.fastq.gz		ENCORE2	34101