NUDT21 RNA-Seq in 293T

Experiment Information (Status: Submitting)

	BG293LV04-39	BG293LV04-40
idx	0	0
TRCN#_or_BGC#	TRCN0000272630	TRCN0000272630
shRNA_or_gRNA_sequence	CCGGTGTACCCTCTTACCAATTATACTCGAGTATAATTGGTAAGAGGGTACATTTTTG	CCGGTGTACCCTCTTACCAATTATACTCGAGTATAATTGGTAAGAGGGTACATTTTTG
PAM
Name	NUDT21/CPSF5	NUDT21/CPSF5
Sample_ID	BG293LV04-39	BG293LV04-40
transduction_Date	9/7/23	9/7/23
days	D4	D4
RBP_name	NUDT21	NUDT21
qPCR_result	93.5	94.6
Ave_qPCR	94.0
RT-qPCR_primer-F
RT-qPCR_primer-R
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	9926	9927

Western Blot Western Blot info was not avaliable

Experiment Status

	BG293LV04-39	BG293LV04-40
Sample_ID	BG293LV04-39	BG293LV04-40
Sample Name
Sample Name	NUDT21-BG293LV04-39	NUDT21-BG293LV04-40
RBP	NUDT21	NUDT21
Cell_Line	293T	293T
Exp UID
Status	Submitting	Submitting
Status_date	2023-12-30	2023-12-30
Project	ENCORE2	ENCORE2
Note
ID	12526	12527

Library-Prep
Sequencing

Library-Prep Information

	BG293LV04-39	BG293LV04-40
Sample #	13	14
Sample Name	NUDT21-BG293LV04-39	NUDT21-BG293LV04-40
Sample_Name_Alias
Index Well Position	E02	F02
Index_table	IDT_UniqueDualIndex_96	IDT_UniqueDualIndex_96
LibPrep_date	2023-10-10	2023-10-10
Lib_ID	Lib-231010	Lib-231010
Tecan_Location
Tecan
Tecan_date
Size_bp	269	270
Peak_Molarity	80.40	80.20
libSampleQC_DNA_Well	DNA_Library_set64/set1/E10.png	DNA_Library_set64/set1/F10.png
RIN	9.8	9.9
libSample_RNA_Well	RNA_Library_set64/set1/E6.png	RNA_Library_set64/set1/F6.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2023-10-12	2023-10-12
Sample_ID	BG293LV04-39	BG293LV04-40
RBP	NUDT21	NUDT21
Batch_ID	BG293LV04	BG293LV04
WB_result	0.000	0.000
Library Description	TruSeq mRNA	TruSeq mRNA
Repeat_Library_Suffix
Lib_Status	SendToSequence	SendToSequence
Project	ENCORE2	ENCORE2
ID	4018	4019

Sequencing Information

	BG293LV04-39	BG293LV04-40
Sample_ID	BG293LV04-39	BG293LV04-40
Sample Name	NUDT21-BG293LV04-39	NUDT21-BG293LV04-40
Pool ID	Pool-231012	Pool-231012
LocalServer_folder	set64	set64
total_reads	21,714,157	17,439,911
total_aligned_reads	19,712,204	15,775,424
unique_aligned_reads	18,413,410	14,725,191
percent_uniqueAligned	0.84799	0.84434
correlation_replicates	0.997619	0.997619
spikein_reads	8,110	9,678
percent_spikeins	0.00037	0.00055
original_ReadLength	100	100
QC_Status	Submitting	Submitting
ID	2627	2628

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
NUDT21-BG293LV04-39_S13_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set64/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2627	NextSeq2000	100	paired-ended	1				NT-BG293LV04-1_S1_R1_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV04-2_S2_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	8692
NUDT21-BG293LV04-39_S13_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set64/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2627	NextSeq2000	100	paired-ended	2				NT-BG293LV04-1_S1_R2_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV04-2_S2_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	8720
NUDT21-BG293LV04-39_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set64/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	2627					GRCh38	V40	NUDT21-BG293LV04-39_S13_R1_001.filtered.trimmed.paired.fastq.gz,NUDT21-BG293LV04-39_S13_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	9769
NUDT21-BG293LV04-39_Signal.Unique.strand+.bw	ENCODE_DATA/set64/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	2627					GRCh38	V40	NUDT21-BG293LV04-39/Aligned.sortedByCoord.out.bam		ENCORE2	9797
NUDT21-BG293LV04-39_Signal.Unique.strand-.bw	ENCODE_DATA/set64/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	2627					GRCh38	V40	NUDT21-BG293LV04-39/Aligned.sortedByCoord.out.bam		ENCORE2	9825
NUDT21-BG293LV04-39_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set64/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	2627					GRCh38	V40	NUDT21-BG293LV04-39/Aligned.sortedByCoord.out.bam		ENCORE2	9853
NUDT21-BG293LV04-39_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set64/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	2627					GRCh38	V40	NUDT21-BG293LV04-39/Aligned.sortedByCoord.out.bam		ENCORE2	9881
NUDT21-BG293LV04-39_quant.sf	ENCODE_DATA/set64/salmon_ENCORE2	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	2627					GRCh38	V40	NUDT21-BG293LV04-39_S13_R1_001.filtered.trimmed.paired.fastq.gz,NUDT21-BG293LV04-39_S13_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	9909
NUDT21-BG293LV04-40_S14_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set64/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2628	NextSeq2000	100	paired-ended	1				NT-BG293LV04-1_S1_R1_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV04-2_S2_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	8693
NUDT21-BG293LV04-40_S14_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set64/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2628	NextSeq2000	100	paired-ended	2				NT-BG293LV04-1_S1_R2_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV04-2_S2_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	8721
NUDT21-BG293LV04-40_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set64/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	2628					GRCh38	V40	NUDT21-BG293LV04-40_S14_R1_001.filtered.trimmed.paired.fastq.gz,NUDT21-BG293LV04-40_S14_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	9770
NUDT21-BG293LV04-40_Signal.Unique.strand+.bw	ENCODE_DATA/set64/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	2628					GRCh38	V40	NUDT21-BG293LV04-40/Aligned.sortedByCoord.out.bam		ENCORE2	9798
NUDT21-BG293LV04-40_Signal.Unique.strand-.bw	ENCODE_DATA/set64/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	2628					GRCh38	V40	NUDT21-BG293LV04-40/Aligned.sortedByCoord.out.bam		ENCORE2	9826
NUDT21-BG293LV04-40_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set64/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	2628					GRCh38	V40	NUDT21-BG293LV04-40/Aligned.sortedByCoord.out.bam		ENCORE2	9854
NUDT21-BG293LV04-40_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set64/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	2628					GRCh38	V40	NUDT21-BG293LV04-40/Aligned.sortedByCoord.out.bam		ENCORE2	9882
NUDT21-BG293LV04-40_quant.sf	ENCODE_DATA/set64/salmon_ENCORE2	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	2628					GRCh38	V40	NUDT21-BG293LV04-40_S14_R1_001.filtered.trimmed.paired.fastq.gz,NUDT21-BG293LV04-40_S14_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	9910