RPS19BP1 RNA-Seq in 293T

Experiment Information (Status: Submitting)

	BG293LV05-81	BG293LV05-82
idx	0	0
TRCN#_or_BGC#	TRCN0000172981	TRCN0000172981
shRNA_or_gRNA_sequence	CCGGGCCAAGACCAAGAAGAAGAAGCTCGAGCTTCTTCTTCTTGGTCTTGGCTTTTTTG	CCGGGCCAAGACCAAGAAGAAGAAGCTCGAGCTTCTTCTTCTTGGTCTTGGCTTTTTTG
PAM
Name	RPS19BP1	RPS19BP1
Sample_ID	BG293LV05-81	BG293LV05-82
transduction_Date	12/18/23	12/18/23
days	D4	D4
RBP_name	RPS19BP1	RPS19BP1
qPCR_result	96.8	95.6
Ave_qPCR	96.2
RT-qPCR_primer-F	gaagacgaaggcaattcagg
RT-qPCR_primer-R	cactctcgcttccggtactc
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	10053	10054

Western Blot Western Blot info was not avaliable

Experiment Status

	BG293LV05-81	BG293LV05-82
Sample_ID	BG293LV05-81	BG293LV05-82
Sample Name
Sample Name	RPS19BP1-BG293LV05-81	RPS19BP1-BG293LV05-82
RBP	RPS19BP1	RPS19BP1
Cell_Line	293T	293T
Exp UID
Status	Submitting	Submitting
Status_date	2024-05-07	2024-05-07
Project	ENCORE2	ENCORE2
Note
ID	12870	12871

Library-Prep
Sequencing

Library-Prep Information

	BG293LV05-81	BG293LV05-82
Sample #	37	38
Sample Name	RPS19BP1-BG293LV05-81	RPS19BP1-BG293LV05-82
Sample_Name_Alias
Index Well Position	E11	F11
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	275
Peak_Molarity	72.10	80.40
libSampleQC_DNA_Well	DNA_Library_set69/set1/E5.png	DNA_Library_set69/set1/F5.png
RIN	9.4	9.6
libSample_RNA_Well	RNA_Library_set69/set1/G10.png	RNA_Library_set69/set1/H10.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2024-01-19	2024-01-19
Sample_ID	BG293LV05-81	BG293LV05-82
RBP	RPS19BP1	RPS19BP1
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	4218	4219

Sequencing Information

	BG293LV05-81	BG293LV05-82
Sample_ID	BG293LV05-81	BG293LV05-82
Sample Name	RPS19BP1-BG293LV05-81	RPS19BP1-BG293LV05-82
Pool ID	Pool-240119	Pool-240119
LocalServer_folder	set69	set69
total_reads	22,648,736	21,863,612
total_aligned_reads	19,386,979	19,622,577
unique_aligned_reads	18,000,592	18,281,182
percent_uniqueAligned	0.79477	0.83615
correlation_replicates	0.977037	0.977037
spikein_reads	3,100	3,172
percent_spikeins	0.00014	0.00015
original_ReadLength	101	101
QC_Status	Submitting	Submitting
ID	2937	2938

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
RPS19BP1-BG293LV05-81_S169_L002_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set69/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2937	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	28521
RPS19BP1-BG293LV05-81_S169_L002_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set69/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2937	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	28565
RPS19BP1-BG293LV05-81_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set69/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	2937					GRCh38	V40	RPS19BP1-BG293LV05-81_S169_L002_R1_001.filtered.trimmed.paired.fastq.gz,RPS19BP1-BG293LV05-81_S169_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	28609
RPS19BP1-BG293LV05-81_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	2937					GRCh38	V40	RPS19BP1-BG293LV05-81/Aligned.sortedByCoord.out.bam		ENCORE2	28653
RPS19BP1-BG293LV05-81_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	2937					GRCh38	V40	RPS19BP1-BG293LV05-81/Aligned.sortedByCoord.out.bam		ENCORE2	28697
RPS19BP1-BG293LV05-81_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	2937					GRCh38	V40	RPS19BP1-BG293LV05-81/Aligned.sortedByCoord.out.bam		ENCORE2	28741
RPS19BP1-BG293LV05-81_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	2937					GRCh38	V40	RPS19BP1-BG293LV05-81/Aligned.sortedByCoord.out.bam		ENCORE2	28785
RPS19BP1-BG293LV05-81_quant.sf	ENCODE_DATA/set69/salmon_ENCORE2	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	2937					GRCh38	V40	RPS19BP1-BG293LV05-81_S169_L002_R1_001.filtered.trimmed.paired.fastq.gz,RPS19BP1-BG293LV05-81_S169_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	28829
RPS19BP1-BG293LV05-82_S170_L002_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set69/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2938	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	28522
RPS19BP1-BG293LV05-82_S170_L002_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set69/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2938	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	28566
RPS19BP1-BG293LV05-82_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set69/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	2938					GRCh38	V40	RPS19BP1-BG293LV05-82_S170_L002_R1_001.filtered.trimmed.paired.fastq.gz,RPS19BP1-BG293LV05-82_S170_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	28610
RPS19BP1-BG293LV05-82_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	2938					GRCh38	V40	RPS19BP1-BG293LV05-82/Aligned.sortedByCoord.out.bam		ENCORE2	28654
RPS19BP1-BG293LV05-82_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	2938					GRCh38	V40	RPS19BP1-BG293LV05-82/Aligned.sortedByCoord.out.bam		ENCORE2	28698
RPS19BP1-BG293LV05-82_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	2938					GRCh38	V40	RPS19BP1-BG293LV05-82/Aligned.sortedByCoord.out.bam		ENCORE2	28742
RPS19BP1-BG293LV05-82_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	2938					GRCh38	V40	RPS19BP1-BG293LV05-82/Aligned.sortedByCoord.out.bam		ENCORE2	28786
RPS19BP1-BG293LV05-82_quant.sf	ENCODE_DATA/set69/salmon_ENCORE2	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	2938					GRCh38	V40	RPS19BP1-BG293LV05-82_S170_L002_R1_001.filtered.trimmed.paired.fastq.gz,RPS19BP1-BG293LV05-82_S170_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	28830