TRNAU1AP RNA-Seq in 293T

Experiment Information (Status: Submitting)

	BG293LV03-25	BG293LV03-26
idx	0	0
TRCN#_or_BGC#	TRCN0000160495	TRCN0000160495
shRNA_or_gRNA_sequence	CCGGCAACCAGTATTATCAGCAGTACTCGAGTACTGCTGATAATACTGGTTGTTTTTTG	CCGGCAACCAGTATTATCAGCAGTACTCGAGTACTGCTGATAATACTGGTTGTTTTTTG
PAM
Name	TRNAU1AP	TRNAU1AP
Sample_ID	BG293LV03-25	BG293LV03-26
transduction_Date	4/10/23	4/10/23
days	D4	D4
RBP_name	TRNAU1AP	TRNAU1AP
qPCR_result	82.5	81.6
Ave_qPCR	82.1
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	9875	9876

Western Blot Western Blot info was not avaliable

Experiment Status

	BG293LV03-25	BG293LV03-26
Sample_ID	BG293LV03-25	BG293LV03-26
Sample Name
Sample Name	TRNAU1AP-BG293LV03-25	TRNAU1AP-BG293LV03-26
RBP	TRNAU1AP	TRNAU1AP
Cell_Line	293T	293T
Exp UID
Status	Submitting	Submitting
Status_date	2023-09-20	2023-09-20
Project	ENCORE2	ENCORE2
Note
ID	11746	11747

Library-Prep
Sequencing

Library-Prep Information

	BG293LV03-25	BG293LV03-26
Sample #	11	12
Sample Name	TRNAU1AP-BG293LV03-25	TRNAU1AP-BG293LV03-26
Sample_Name_Alias
Index Well Position	C02	D02
Index_table	IDT_UniqueDualIndex_96	IDT_UniqueDualIndex_96
LibPrep_date	2023-05-02	2023-05-02
Lib_ID	Lib-230502	Lib-230502
Tecan_Location
Tecan
Tecan_date
Size_bp	298	307
Peak_Molarity	78.90	85.50
libSampleQC_DNA_Well	DNA_Library_set60-62/set4/C2.png	DNA_Library_set60-62/set4/D2.png
RIN	10.0	10.0
libSample_RNA_Well	RNA_Library_set60-62/set2/C2.png	RNA_Library_set60-62/set2/D2.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2023-05-04	2023-05-04
Sample_ID	BG293LV03-25	BG293LV03-26
RBP	TRNAU1AP	TRNAU1AP
Batch_ID	BG293LV03	BG293LV03
WB_result	0.000	0.000
Library Description	TruSeq mRNA	TruSeq mRNA
Repeat_Library_Suffix
Lib_Status	SendToSequence	SendToSequence
Project	ENCORE2	ENCORE2
ID	3694	3695

Sequencing Information

	BG293LV03-25	BG293LV03-26
Sample_ID	BG293LV03-25	BG293LV03-26
Sample Name	TRNAU1AP-BG293LV03-25	TRNAU1AP-BG293LV03-26
Pool ID	Pool-230504	Pool-230504
LocalServer_folder	set62_W	set62_W
total_reads	29,626,640	28,686,774
total_aligned_reads	25,892,487	23,930,607
unique_aligned_reads	24,189,261	22,413,269
percent_uniqueAligned	0.81647	0.78131
correlation_replicates	0.994254	0.994254
spikein_reads	73,306	41,562
percent_spikeins	0.00247	0.00145
original_ReadLength	101	101
QC_Status	Submitting	Submitting
ID	2565	2566

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
TRNAU1AP-BG293LV03-25_S11_L003_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set62_W/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2565	NovaSeq6000	100	paired-ended	1				NT-BG293LV03-1_S1_L003_R1_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV03-2_S2_L003_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	7852
TRNAU1AP-BG293LV03-25_S11_L003_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set62_W/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2565	NovaSeq6000	100	paired-ended	2				NT-BG293LV03-1_S1_L003_R2_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV03-2_S2_L003_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	7868
TRNAU1AP-BG293LV03-25_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set62_W/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	2565					GRCh38	V40	TRNAU1AP-BG293LV03-25_S11_L003_R1_001.filtered.trimmed.paired.fastq.gz,TRNAU1AP-BG293LV03-25_S11_L003_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	10093
TRNAU1AP-BG293LV03-25_Signal.Unique.strand+.bw	ENCODE_DATA/set62_W/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	2565					GRCh38	V40	TRNAU1AP-BG293LV03-25/Aligned.sortedByCoord.out.bam		ENCORE2	10109
TRNAU1AP-BG293LV03-25_Signal.Unique.strand-.bw	ENCODE_DATA/set62_W/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	2565					GRCh38	V40	TRNAU1AP-BG293LV03-25/Aligned.sortedByCoord.out.bam		ENCORE2	10125
TRNAU1AP-BG293LV03-25_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set62_W/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	2565					GRCh38	V40	TRNAU1AP-BG293LV03-25/Aligned.sortedByCoord.out.bam		ENCORE2	10141
TRNAU1AP-BG293LV03-25_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set62_W/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	2565					GRCh38	V40	TRNAU1AP-BG293LV03-25/Aligned.sortedByCoord.out.bam		ENCORE2	10157
TRNAU1AP-BG293LV03-25_quant.sf	ENCODE_DATA/set62_W/salmon_ENCORE2	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	2565					GRCh38	V40	TRNAU1AP-BG293LV03-25_S11_L003_R1_001.filtered.trimmed.paired.fastq.gz,TRNAU1AP-BG293LV03-25_S11_L003_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	10173
TRNAU1AP-BG293LV03-26_S12_L003_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set62_W/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2566	NovaSeq6000	100	paired-ended	1				NT-BG293LV03-1_S1_L003_R1_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV03-2_S2_L003_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	7853
TRNAU1AP-BG293LV03-26_S12_L003_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set62_W/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2566	NovaSeq6000	100	paired-ended	2				NT-BG293LV03-1_S1_L003_R2_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV03-2_S2_L003_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	7869
TRNAU1AP-BG293LV03-26_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set62_W/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	2566					GRCh38	V40	TRNAU1AP-BG293LV03-26_S12_L003_R1_001.filtered.trimmed.paired.fastq.gz,TRNAU1AP-BG293LV03-26_S12_L003_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	10094
TRNAU1AP-BG293LV03-26_Signal.Unique.strand+.bw	ENCODE_DATA/set62_W/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	2566					GRCh38	V40	TRNAU1AP-BG293LV03-26/Aligned.sortedByCoord.out.bam		ENCORE2	10110
TRNAU1AP-BG293LV03-26_Signal.Unique.strand-.bw	ENCODE_DATA/set62_W/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	2566					GRCh38	V40	TRNAU1AP-BG293LV03-26/Aligned.sortedByCoord.out.bam		ENCORE2	10126
TRNAU1AP-BG293LV03-26_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set62_W/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	2566					GRCh38	V40	TRNAU1AP-BG293LV03-26/Aligned.sortedByCoord.out.bam		ENCORE2	10142
TRNAU1AP-BG293LV03-26_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set62_W/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	2566					GRCh38	V40	TRNAU1AP-BG293LV03-26/Aligned.sortedByCoord.out.bam		ENCORE2	10158
TRNAU1AP-BG293LV03-26_quant.sf	ENCODE_DATA/set62_W/salmon_ENCORE2	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	2566					GRCh38	V40	TRNAU1AP-BG293LV03-26_S12_L003_R1_001.filtered.trimmed.paired.fastq.gz,TRNAU1AP-BG293LV03-26_S12_L003_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	10174