RPS12 RNA-Seq in HepG2

Experiment Information (Status: Sequenced)

	BGHcLV47-57	BGHcLV47-58
idx	1661	1662
TRCN#_or_BGC#	BGC#0001262	BGC#0001262
shRNA_or_gRNA_sequence	TCACCCTTCCTCGGCCATGG	TCACCCTTCCTCGGCCATGG
PAM	CGG	CGG
Name	RPS12_78U	RPS12_78U
Sample_ID	BGHcLV47-57	BGHcLV47-58
transduction_Date	1/28/25	1/28/25
days	D6	D6
RBP_name	RPS12	RPS12
qPCR_result	51.7	42.6
Ave_qPCR	47.2
RT-qPCR_primer-F	ttgctgctggaggtgtaatg
RT-qPCR_primer-R	atgcaagcacacaaagatgg
protein_conc	3035	4260
WB_result	89.4	93.8
Ave_WB
WB_DONE_date	2/5/25
MW	15KD
IP
antibody_Cat#	A305-037A	LOT #1
Antibody DCC ID	ENCAB450FMJ
submitted_to_DCC_date
Rep1_TPM	0	0
Rep2_TPM	0	0
Action	Ready	Ready
Library_start_date
repeat_library
Note
ID	9850	9851

Western Blot

RBP	Antibody Info	Primary-HepG2	Secondary-HepG2	Primary-K562	Secondary-K562	Primary-UBERON	Primary-Hela
RPS12	Product_ID: A305-037A Lot_ID: 1 Source: Bethyl Labs Target Name: RPS12-human

Experiment Status

	BGHcLV47-57	BGHcLV47-58
Sample_ID	BGHcLV47-57	BGHcLV47-58
Sample Name
Sample Name	RPS12-BGHcLV47-57	RPS12-BGHcLV47-58
RBP	RPS12	RPS12
Cell_Line	HepG2	HepG2
Exp UID
Status	Sequenced	Sequenced
Status_date	2025-05-14	2025-05-14
Project	ENCORE2	ENCORE2
Note
ID	14172	14173

Library-Prep
Sequencing

Library-Prep Information

	BGHcLV47-57	BGHcLV47-58
Sample #	25	26
Sample Name	RPS12-BGHcLV47-57	RPS12-BGHcLV47-58
Sample_Name_Alias
Index Well Position	A11	B11
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	262	257
Peak_Molarity	66.20	21.50
libSampleQC_DNA_Well	DNA_Library_set78/set1/A9.png	DNA_Library_set78/set1/B9.png
RIN	9.9	9.9
libSample_RNA_Well	RNA_Library_set78/set1/A4.png	RNA_Library_set78/set1/B4.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2025-04-22	2025-04-22
Sample_ID	BGHcLV47-57	BGHcLV47-58
RBP	RPS12	RPS12
Batch_ID	BGHcLV47	BGHcLV47
WB_result	89.400	93.800
Library Description	TruSeq mRNA	TruSeq mRNA
Repeat_Library_Suffix
Lib_Status	SendToSequence	SendToSequence
Project	ENCORE2	ENCORE2
ID	4736	4737

Sequencing Information

	BGHcLV47-57	BGHcLV47-58
Sample_ID	BGHcLV47-57	BGHcLV47-58
Sample Name	RPS12-BGHcLV47-57	RPS12-BGHcLV47-58
Pool ID	Pool-250422	Pool-250422
LocalServer_folder	set78	set78
total_reads	17,418,743	17,299,075
total_aligned_reads	15,020,404	11,869,478
unique_aligned_reads	14,120,138	11,182,573
percent_uniqueAligned	0.81063	0.64643
correlation_replicates	0.981506	0.981506
spikein_reads	1,482	38,974
percent_spikeins	0.00009	0.00225
original_ReadLength	101	101
QC_Status	ReadyToSubmit	ReadyToSubmit
ID	3439	3440

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
RPS12-BGHcLV47-57_S66_L002_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set78/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3439	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	32572
RPS12-BGHcLV47-57_S66_L002_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set78/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3439	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	32606
RPS12-BGHcLV47-57_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set78/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3439					GRCh38	V40	RPS12-BGHcLV47-57_S66_L002_R1_001.filtered.trimmed.paired.fastq.gz,RPS12-BGHcLV47-57_S66_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	32640
RPS12-BGHcLV47-57_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	3439					GRCh38	V40	RPS12-BGHcLV47-57_Aligned.sortedByCoord.out.bam		ENCORE2	32674
RPS12-BGHcLV47-57_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	3439					GRCh38	V40	RPS12-BGHcLV47-57_Aligned.sortedByCoord.out.bam		ENCORE2	32708
RPS12-BGHcLV47-57_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	3439					GRCh38	V40	RPS12-BGHcLV47-57_Aligned.sortedByCoord.out.bam		ENCORE2	32742
RPS12-BGHcLV47-57_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	3439					GRCh38	V40	RPS12-BGHcLV47-57_Aligned.sortedByCoord.out.bam		ENCORE2	32776
RPS12-BGHcLV47-57_quant.sf	ENCODE_DATA/set78/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3439					GRCh38	V40	RPS12-BGHcLV47-57_S66_L002_R1_001.filtered.trimmed.paired.fastq.gz,RPS12-BGHcLV47-57_S66_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	32810
RPS12-BGHcLV47-58_S67_L002_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set78/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3440	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	32573
RPS12-BGHcLV47-58_S67_L002_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set78/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3440	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	32607
RPS12-BGHcLV47-58_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set78/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3440					GRCh38	V40	RPS12-BGHcLV47-58_S67_L002_R1_001.filtered.trimmed.paired.fastq.gz,RPS12-BGHcLV47-58_S67_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	32641
RPS12-BGHcLV47-58_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	3440					GRCh38	V40	RPS12-BGHcLV47-58_Aligned.sortedByCoord.out.bam		ENCORE2	32675
RPS12-BGHcLV47-58_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	3440					GRCh38	V40	RPS12-BGHcLV47-58_Aligned.sortedByCoord.out.bam		ENCORE2	32709
RPS12-BGHcLV47-58_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	3440					GRCh38	V40	RPS12-BGHcLV47-58_Aligned.sortedByCoord.out.bam		ENCORE2	32743
RPS12-BGHcLV47-58_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	3440					GRCh38	V40	RPS12-BGHcLV47-58_Aligned.sortedByCoord.out.bam		ENCORE2	32777
RPS12-BGHcLV47-58_quant.sf	ENCODE_DATA/set78/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3440					GRCh38	V40	RPS12-BGHcLV47-58_S67_L002_R1_001.filtered.trimmed.paired.fastq.gz,RPS12-BGHcLV47-58_S67_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	32811