WDR77 RNA-Seq in HepG2

General Information


RBP	WDR77
Cell_Line	HepG2
Method	CRISPR
Exp_Name	WDR77-BGHcLV47-HepG2
ENCODE_series_ID
Batch_ID	BGHcLV47
Pool ID	Pool-250422
Local_Set_Name	set78
ENCODE_KD_Exp_ID
ENCODE_CN_Exp_ID
Rep1	WDR77-BGHcLV47-89
Rep2	WDR77-BGHcLV47-90
CN1	NT-BGHcLV47-1
CN2	NT-BGHcLV47-2
Rep1_qPCR	7.4
Rep2_qPCR	27.1
Rep1_WB	62.4
Rep2_WB	65.6
Antibody Cat#	2018S
Antibody Lot#	lot # 1
Antibody DCC ID
Status	Submitted
Project	ENCORE2
ID	1673

Experiment Information (Status: Submitting)

	BGHcLV47-89	BGHcLV47-90
idx	1695	1696
TRCN#_or_BGC#	BGC#0001208	BGC#0001208
shRNA_or_gRNA_sequence	CAACGTGGTGGACGACCTGA	CAACGTGGTGGACGACCTGA
PAM	TGG	TGG
Name	WDR77_91	WDR77_91
Sample_ID	BGHcLV47-89	BGHcLV47-90
transduction_Date	1/28/25	1/28/25
days	D6	D6
RBP_name	WDR77	WDR77
qPCR_result	7.4	27.1
Ave_qPCR	17.2
RT-qPCR_primer-F	ctgcctctcctcacaaggac
RT-qPCR_primer-R	cagcgggtatcccagagtaa
protein_conc	4093	4473
WB_result	62.4	65.6
Ave_WB
WB_DONE_date	2/6/25
MW	42kd
IP
antibody_Cat#	2018S	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	9884	9885

Western Blot

RBP	Antibody Info	Primary-HepG2	Secondary-HepG2	Primary-K562	Secondary-K562	Primary-UBERON	Primary-Hela
WDR77	Product_ID: 2018S Lot_ID: 1 Source: Cell Signaling Technology Target Name: WDR77-human

Experiment Status

	BGHcLV47-89	BGHcLV47-90
Sample_ID	BGHcLV47-89	BGHcLV47-90
Sample Name
Sample Name	WDR77-BGHcLV47-89	WDR77-BGHcLV47-90
RBP	WDR77	WDR77
Cell_Line	HepG2	HepG2
Exp UID
Status	Submitting	Submitting
Status_date	2026-10-30	2026-10-30
Project	ENCORE2	ENCORE2
Note
ID	14180	14181

Library-Prep
Sequencing

Library-Prep Information

	BGHcLV47-89	BGHcLV47-90
Sample #	33	34
Sample Name	WDR77-BGHcLV47-89	WDR77-BGHcLV47-90
Sample_Name_Alias
Index Well Position	A12	B12
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	257	260
Peak_Molarity	66.90	83.10
libSampleQC_DNA_Well	DNA_Library_set78/set1/A10.png	DNA_Library_set78/set1/B10.png
RIN	10.0	10.0
libSample_RNA_Well	RNA_Library_set78/set1/A5.png	RNA_Library_set78/set1/B5.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2025-04-22	2025-04-22
Sample_ID	BGHcLV47-89	BGHcLV47-90
RBP	WDR77	WDR77
Batch_ID	BGHcLV47	BGHcLV47
WB_result	62.400	65.600
Library Description	TruSeq mRNA	TruSeq mRNA
Repeat_Library_Suffix
Lib_Status	SendToSequence	SendToSequence
Project	ENCORE2	ENCORE2
ID	4744	4745

Sequencing Information

	BGHcLV47-89	BGHcLV47-90
Sample_ID	BGHcLV47-89	BGHcLV47-90
Sample Name	WDR77-BGHcLV47-89	WDR77-BGHcLV47-90
Pool ID	Pool-250422	Pool-250422
LocalServer_folder	set78	set78
total_reads	15,143,100	14,794,670
total_aligned_reads	12,313,096	12,856,571
unique_aligned_reads	11,546,870	12,112,454
percent_uniqueAligned	0.76252	0.81870
correlation_replicates	0.997737	0.997737
spikein_reads	21,162	20,316
percent_spikeins	0.00140	0.00137
original_ReadLength	101	101
QC_Status	Submitting	Submitting
ID	3447	3448

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
WDR77-BGHcLV47-89_S74_L002_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set78/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3447	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	32580
WDR77-BGHcLV47-89_S74_L002_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set78/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3447	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	32614
WDR77-BGHcLV47-89_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set78/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3447					GRCh38	V40	WDR77-BGHcLV47-89_S74_L002_R1_001.filtered.trimmed.paired.fastq.gz,WDR77-BGHcLV47-89_S74_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	32648
WDR77-BGHcLV47-89_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	3447					GRCh38	V40	WDR77-BGHcLV47-89_Aligned.sortedByCoord.out.bam		ENCORE2	32682
WDR77-BGHcLV47-89_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	3447					GRCh38	V40	WDR77-BGHcLV47-89_Aligned.sortedByCoord.out.bam		ENCORE2	32716
WDR77-BGHcLV47-89_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	3447					GRCh38	V40	WDR77-BGHcLV47-89_Aligned.sortedByCoord.out.bam		ENCORE2	32750
WDR77-BGHcLV47-89_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	3447					GRCh38	V40	WDR77-BGHcLV47-89_Aligned.sortedByCoord.out.bam		ENCORE2	32784
WDR77-BGHcLV47-89_quant.sf	ENCODE_DATA/set78/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3447					GRCh38	V40	WDR77-BGHcLV47-89_S74_L002_R1_001.filtered.trimmed.paired.fastq.gz,WDR77-BGHcLV47-89_S74_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	32818
WDR77-BGHcLV47-90_S75_L002_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set78/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3448	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	32581
WDR77-BGHcLV47-90_S75_L002_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set78/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3448	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	32615
WDR77-BGHcLV47-90_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set78/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3448					GRCh38	V40	WDR77-BGHcLV47-90_S75_L002_R1_001.filtered.trimmed.paired.fastq.gz,WDR77-BGHcLV47-90_S75_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	32649
WDR77-BGHcLV47-90_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	3448					GRCh38	V40	WDR77-BGHcLV47-90_Aligned.sortedByCoord.out.bam		ENCORE2	32683
WDR77-BGHcLV47-90_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	3448					GRCh38	V40	WDR77-BGHcLV47-90_Aligned.sortedByCoord.out.bam		ENCORE2	32717
WDR77-BGHcLV47-90_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	3448					GRCh38	V40	WDR77-BGHcLV47-90_Aligned.sortedByCoord.out.bam		ENCORE2	32751
WDR77-BGHcLV47-90_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	3448					GRCh38	V40	WDR77-BGHcLV47-90_Aligned.sortedByCoord.out.bam		ENCORE2	32785
WDR77-BGHcLV47-90_quant.sf	ENCODE_DATA/set78/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3448					GRCh38	V40	WDR77-BGHcLV47-90_S75_L002_R1_001.filtered.trimmed.paired.fastq.gz,WDR77-BGHcLV47-90_S75_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	32819