WDR6 RNA-Seq in 293T

Experiment Information (Status: Submitting)

	BG293LV05-93	BG293LV05-94
idx	0	0
TRCN#_or_BGC#	TRCN0000353745	TRCN0000353745
shRNA_or_gRNA_sequence	CCGGCAATCGGCATCGGATGGTTAACTCGAGTTAACCATCCGATGCCGATTGTTTTTG	CCGGCAATCGGCATCGGATGGTTAACTCGAGTTAACCATCCGATGCCGATTGTTTTTG
PAM
Name	WDR6	WDR6
Sample_ID	BG293LV05-93	BG293LV05-94
transduction_Date	12/18/23	12/18/23
days	D4	D4
RBP_name	WDR6	WDR6
qPCR_result	61.8	74.7
Ave_qPCR	68.25
RT-qPCR_primer-F	tcccaccggctagatgagta
RT-qPCR_primer-R	tcacacacagcaagggacat
protein_conc	0	0
WB_result
Ave_WB
WB_DONE_date
MW
IP
antibody_Cat#
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	10065	10066

Western Blot Western Blot info was not avaliable

Experiment Status

	BG293LV05-93	BG293LV05-94
Sample_ID	BG293LV05-93	BG293LV05-94
Sample Name
Sample Name	WDR6-BG293LV05-93	WDR6-BG293LV05-94
RBP	WDR6	WDR6
Cell_Line	293T	293T
Exp UID
Status	Submitting	Submitting
Status_date	2024-05-07	2024-05-07
Project	ENCORE2	ENCORE2
Note
ID	12872	12873

Library-Prep
Sequencing

Library-Prep Information

	BG293LV05-93	BG293LV05-94
Sample #	39	40
Sample Name	WDR6-BG293LV05-93	WDR6-BG293LV05-94
Sample_Name_Alias
Index Well Position	G11	H11
Index_table	IDT_UniqueDualIndex_96	IDT_UniqueDualIndex_96
LibPrep_date	2024-01-16	2024-01-16
Lib_ID	Lib-240116	Lib-240116
Tecan_Location
Tecan
Tecan_date
Size_bp	275	280
Peak_Molarity	83.90	74.10
libSampleQC_DNA_Well	DNA_Library_set69/set1/G5.png	DNA_Library_set69/set1/H5.png
RIN	9.8	9.8
libSample_RNA_Well	RNA_Library_set69/set1/A11.png	RNA_Library_set69/set1/B11.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2024-01-19	2024-01-19
Sample_ID	BG293LV05-93	BG293LV05-94
RBP	WDR6	WDR6
Batch_ID	BG293LV05	BG293LV05
WB_result	0.000	0.000
Library Description	TruSeq mRNA	TruSeq mRNA
Repeat_Library_Suffix
Lib_Status	SendToSequence	SendToSequence
Project	ENCORE2	ENCORE2
ID	4220	4221

Sequencing Information

	BG293LV05-93	BG293LV05-94
Sample_ID	BG293LV05-93	BG293LV05-94
Sample Name	WDR6-BG293LV05-93	WDR6-BG293LV05-94
Pool ID	Pool-240119	Pool-240119
LocalServer_folder	set69	set69
total_reads	27,139,072	24,649,198
total_aligned_reads	24,913,533	21,785,193
unique_aligned_reads	22,946,727	20,151,090
percent_uniqueAligned	0.84552	0.81752
correlation_replicates	0.990122	0.990122
spikein_reads	10,534	10,518
percent_spikeins	0.00039	0.00043
original_ReadLength	101	101
QC_Status	Submitting	Submitting
ID	2939	2940

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
WDR6-BG293LV05-93_S171_L002_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set69/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2939	NovaSeq6000	100	paired-ended	1				NT-BG293LV05-1_merged_R1_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV05-2_S134_L002_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	28529
WDR6-BG293LV05-93_S171_L002_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set69/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2939	NovaSeq6000	100	paired-ended	2				NT-BG293LV05-1_merged_R2_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV05-2_S134_L002_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	28573
WDR6-BG293LV05-93_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set69/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	2939					GRCh38	V40	WDR6-BG293LV05-93_S171_L002_R1_001.filtered.trimmed.paired.fastq.gz,WDR6-BG293LV05-93_S171_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	28617
WDR6-BG293LV05-93_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set69/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	2939					GRCh38	V40	WDR6-BG293LV05-93/Aligned.sortedByCoord.out.bam		ENCORE2	28661
WDR6-BG293LV05-93_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set69/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	2939					GRCh38	V40	WDR6-BG293LV05-93/Aligned.sortedByCoord.out.bam		ENCORE2	28705
WDR6-BG293LV05-93_Signal.Unique.strand-.bw	ENCODE_DATA/set69/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	2939					GRCh38	V40	WDR6-BG293LV05-93/Aligned.sortedByCoord.out.bam		ENCORE2	28749
WDR6-BG293LV05-93_Signal.Unique.strand+.bw	ENCODE_DATA/set69/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	2939					GRCh38	V40	WDR6-BG293LV05-93/Aligned.sortedByCoord.out.bam		ENCORE2	28793
WDR6-BG293LV05-93_quant.sf	ENCODE_DATA/set69/salmon_ENCORE2	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	2939					GRCh38	V40	WDR6-BG293LV05-93_S171_L002_R1_001.filtered.trimmed.paired.fastq.gz,WDR6-BG293LV05-93_S171_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	28837
WDR6-BG293LV05-94_S172_L002_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set69/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2940	NovaSeq6000	100	paired-ended	1				NT-BG293LV05-1_merged_R1_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV05-2_S134_L002_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	28530
WDR6-BG293LV05-94_S172_L002_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set69/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2940	NovaSeq6000	100	paired-ended	2				NT-BG293LV05-1_merged_R2_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV05-2_S134_L002_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	28574
WDR6-BG293LV05-94_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set69/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	2940					GRCh38	V40	WDR6-BG293LV05-94_S172_L002_R1_001.filtered.trimmed.paired.fastq.gz,WDR6-BG293LV05-94_S172_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	28618
WDR6-BG293LV05-94_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set69/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	2940					GRCh38	V40	WDR6-BG293LV05-94/Aligned.sortedByCoord.out.bam		ENCORE2	28662
WDR6-BG293LV05-94_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set69/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	2940					GRCh38	V40	WDR6-BG293LV05-94/Aligned.sortedByCoord.out.bam		ENCORE2	28706
WDR6-BG293LV05-94_Signal.Unique.strand-.bw	ENCODE_DATA/set69/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	2940					GRCh38	V40	WDR6-BG293LV05-94/Aligned.sortedByCoord.out.bam		ENCORE2	28750
WDR6-BG293LV05-94_Signal.Unique.strand+.bw	ENCODE_DATA/set69/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	2940					GRCh38	V40	WDR6-BG293LV05-94/Aligned.sortedByCoord.out.bam		ENCORE2	28794
WDR6-BG293LV05-94_quant.sf	ENCODE_DATA/set69/salmon_ENCORE2	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	2940					GRCh38	V40	WDR6-BG293LV05-94_S172_L002_R1_001.filtered.trimmed.paired.fastq.gz,WDR6-BG293LV05-94_S172_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	28838