CWC15 RNA-Seq in HepG2

Experiment Information (Status: Sequenced)

	BGHcLV49-19	BGHcLV49-20
idx	1718	1719
TRCN#_or_BGC#	BGC#0000730	BGC#0000730
shRNA_or_gRNA_sequence	GCAGGAATCTGGTCTAACCG	GCAGGAATCTGGTCTAACCG
PAM	TGG	TGG
Name	CWC15_97	CWC15_97
Sample_ID	BGHcLV49-19	BGHcLV49-20
transduction_Date	6/6/25	6/6/25
days	D6	D6
RBP_name	CWC15	CWC15
qPCR_result	66.7	70.2
Ave_qPCR	68.5
RT-qPCR_primer-F	cgtccaacccgagaacatac
RT-qPCR_primer-R	gggtcatctgcatcaaggtt
protein_conc	4791	4525
WB_result	67.4	59.8
Ave_WB
WB_DONE_date	6/17/25
MW	27KD
IP	Rabbit / I
antibody_Cat#	A304-900A	LOT #1
Antibody DCC ID	ENCAB616CRG
submitted_to_DCC_date
Rep1_TPM	0	0
Rep2_TPM	0	0
Action	Ready	Ready
Library_start_date
repeat_library
Note
ID	9907	9908

Western Blot

RBP	Antibody Info	Primary-HepG2	Secondary-HepG2	Primary-K562	Secondary-K562	Primary-UBERON	Primary-Hela
CWC15	Product_ID: A304-900A Lot_ID: 1 Source: Bethyl Labs Target Name: CWC15-human

Experiment Status

	BGHcLV49-19	BGHcLV49-20
Sample_ID	BGHcLV49-19	BGHcLV49-20
Sample Name
Sample Name	CWC15-BGHcLV49-19	CWC15-BGHcLV49-20
RBP	CWC15	CWC15
Cell_Line	HepG2	HepG2
Exp UID
Status	Sequenced	Sequenced
Status_date	2025-10-30	2025-10-30
Project	ENCORE2	ENCORE2
Note
ID	14338	14339

Library-Prep
Sequencing

Library-Prep Information

	BGHcLV49-19	BGHcLV49-20
Sample #	35	36
Sample Name	CWC15-BGHcLV49-19	CWC15-BGHcLV49-20
Sample_Name_Alias
Index Well Position	E05	F05
Index_table	IDT_UniqueDualIndex_96_V2	IDT_UniqueDualIndex_96_V2
LibPrep_date	2025-08-20	2025-08-20
Lib_ID	Lib-250820	Lib-250820
Tecan_Location
Tecan
Tecan_date
Size_bp	262	252
Peak_Molarity	89.40	75.40
libSampleQC_DNA_Well	DNA_Library_set81/set1/E2.png	DNA_Library_set81/set1/F2.png
RIN	10.0	10.0
libSample_RNA_Well	RNA_Library_set81/set1/E5.png	RNA_Library_set81/set1/F5.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2025-09-10	2025-09-10
Sample_ID	BGHcLV49-19	BGHcLV49-20
RBP	CWC15	CWC15
Batch_ID	BGHcLV49	BGHcLV49
WB_result	67.400	59.800
Library Description	TruSeq mRNA	TruSeq mRNA
Repeat_Library_Suffix
Lib_Status	SendToSequence	SendToSequence
Project	ENCORE2	ENCORE2
ID	4780	4781

Sequencing Information

	BGHcLV49-19	BGHcLV49-20
Sample_ID	BGHcLV49-19	BGHcLV49-20
Sample Name	CWC15-BGHcLV49-19	CWC15-BGHcLV49-20
Pool ID	Pool-250916	Pool-250916
LocalServer_folder	set81	set81
total_reads	25,885,004	23,745,697
total_aligned_reads	21,866,355	18,510,207
unique_aligned_reads	20,608,530	17,440,045
percent_uniqueAligned	0.79616	0.73445
correlation_replicates	0.996046	0.996046
spikein_reads	64,010	54,364
percent_spikeins	0.00247	0.00229
original_ReadLength	151	151
QC_Status	ReadyToSubmit	ReadyToSubmit
ID	3507	3508

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
CWC15-BGHcLV49-19_S117_L008_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set81/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3507	NovaSeq6000	100	paired-ended	1				NT-BGHcLV49-1_S111_L008_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV49-2_S136_L008_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	33176
CWC15-BGHcLV49-19_S117_L008_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set81/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3507	NovaSeq6000	100	paired-ended	2				NT-BGHcLV49-1_S111_L008_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV49-2_S136_L008_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	33222
CWC15-BGHcLV49-19_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set81/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3507					GRCh38	V40	CWC15-BGHcLV49-19_S117_L008_R1_001.filtered.trimmed.paired.fastq.gz,CWC15-BGHcLV49-19_S117_L008_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	33268
CWC15-BGHcLV49-19_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set81/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3507					GRCh38	V40	CWC15-BGHcLV49-19_Aligned.sortedByCoord.out.bam		ENCORE2	33314
CWC15-BGHcLV49-19_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set81/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3507					GRCh38	V40	CWC15-BGHcLV49-19_Aligned.sortedByCoord.out.bam		ENCORE2	33360
CWC15-BGHcLV49-19_Signal.Unique.strand-.bw	ENCODE_DATA/set81/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3507					GRCh38	V40	CWC15-BGHcLV49-19_Aligned.sortedByCoord.out.bam		ENCORE2	33406
CWC15-BGHcLV49-19_Signal.Unique.strand+.bw	ENCODE_DATA/set81/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3507					GRCh38	V40	CWC15-BGHcLV49-19_Aligned.sortedByCoord.out.bam		ENCORE2	33452
CWC15-BGHcLV49-19_quant.sf	ENCODE_DATA/set81/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3507					GRCh38	V40	CWC15-BGHcLV49-19_S117_L008_R1_001.filtered.trimmed.paired.fastq.gz,CWC15-BGHcLV49-19_S117_L008_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	33498
CWC15-BGHcLV49-20_S130_L008_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set81/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3508	NovaSeq6000	100	paired-ended	1				NT-BGHcLV49-1_S111_L008_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV49-2_S136_L008_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	33177
CWC15-BGHcLV49-20_S130_L008_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set81/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3508	NovaSeq6000	100	paired-ended	2				NT-BGHcLV49-1_S111_L008_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV49-2_S136_L008_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	33223
CWC15-BGHcLV49-20_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set81/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3508					GRCh38	V40	CWC15-BGHcLV49-20_S130_L008_R1_001.filtered.trimmed.paired.fastq.gz,CWC15-BGHcLV49-20_S130_L008_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	33269
CWC15-BGHcLV49-20_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set81/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3508					GRCh38	V40	CWC15-BGHcLV49-20_Aligned.sortedByCoord.out.bam		ENCORE2	33315
CWC15-BGHcLV49-20_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set81/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3508					GRCh38	V40	CWC15-BGHcLV49-20_Aligned.sortedByCoord.out.bam		ENCORE2	33361
CWC15-BGHcLV49-20_Signal.Unique.strand-.bw	ENCODE_DATA/set81/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3508					GRCh38	V40	CWC15-BGHcLV49-20_Aligned.sortedByCoord.out.bam		ENCORE2	33407
CWC15-BGHcLV49-20_Signal.Unique.strand+.bw	ENCODE_DATA/set81/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3508					GRCh38	V40	CWC15-BGHcLV49-20_Aligned.sortedByCoord.out.bam		ENCORE2	33453
CWC15-BGHcLV49-20_quant.sf	ENCODE_DATA/set81/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3508					GRCh38	V40	CWC15-BGHcLV49-20_S130_L008_R1_001.filtered.trimmed.paired.fastq.gz,CWC15-BGHcLV49-20_S130_L008_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	33499