RBM5 RNA-Seq in 293T

Experiment Information (Status: Submitting)

	BG293LV04-61	BG293LV04-62
idx	0	0
TRCN#_or_BGC#	TRCN0000312602	TRCN0000312602
shRNA_or_gRNA_sequence	CCGGACCATCACAGAGAGCGATATTCTCGAGAATATCGCTCTCTGTGATGGTTTTTTG	CCGGACCATCACAGAGAGCGATATTCTCGAGAATATCGCTCTCTGTGATGGTTTTTTG
PAM
Name	RBM5	RBM5
Sample_ID	BG293LV04-61	BG293LV04-62
transduction_Date	9/7/23	9/7/23
days	D4	D4
RBP_name	RBM5	RBM5
qPCR_result	64.4	81.5
Ave_qPCR	73.0
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	9948	9949

Western Blot Western Blot info was not avaliable

Experiment Status

	BG293LV04-61	BG293LV04-62
Sample_ID	BG293LV04-61	BG293LV04-62
Sample Name
Sample Name	RBM5-BG293LV04-61	RBM5-BG293LV04-62
RBP	RBM5	RBM5
Cell_Line	293T	293T
Exp UID
Status	Submitting	Submitting
Status_date	2023-12-30	2023-12-30
Project	ENCORE2	ENCORE2
Note
ID	12536	12537

Library-Prep
Sequencing

Library-Prep Information

	BG293LV04-61	BG293LV04-62
Sample #	23	24
Sample Name	RBM5-BG293LV04-61	RBM5-BG293LV04-62
Sample_Name_Alias
Index Well Position	G03	H03
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	264	265
Peak_Molarity	58.70	49.10
libSampleQC_DNA_Well	DNA_Library_set64/set1/G11.png	DNA_Library_set64/set1/H11.png
RIN	9.9	9.8
libSample_RNA_Well	RNA_Library_set64/set1/G7.png	RNA_Library_set64/set1/H7.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2023-10-12	2023-10-12
Sample_ID	BG293LV04-61	BG293LV04-62
RBP	RBM5	RBM5
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	4028	4029

Sequencing Information

	BG293LV04-61	BG293LV04-62
Sample_ID	BG293LV04-61	BG293LV04-62
Sample Name	RBM5-BG293LV04-61	RBM5-BG293LV04-62
Pool ID	Pool-231012	Pool-231012
LocalServer_folder	set64	set64
total_reads	21,679,235	25,660,169
total_aligned_reads	18,889,014	22,857,775
unique_aligned_reads	17,561,678	21,199,771
percent_uniqueAligned	0.81007	0.82617
correlation_replicates	0.974032	0.974032
spikein_reads	5,418	10,562
percent_spikeins	0.00025	0.00041
original_ReadLength	100	100
QC_Status	Submitting	Submitting
ID	2637	2638

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
RBM5-BG293LV04-61_S23_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set64/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2637	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	8704
RBM5-BG293LV04-61_S23_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set64/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2637	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	8732
RBM5-BG293LV04-61_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set64/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	2637					GRCh38	V40	RBM5-BG293LV04-61_S23_R1_001.filtered.trimmed.paired.fastq.gz,RBM5-BG293LV04-61_S23_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	9781
RBM5-BG293LV04-61_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	2637					GRCh38	V40	RBM5-BG293LV04-61/Aligned.sortedByCoord.out.bam		ENCORE2	9809
RBM5-BG293LV04-61_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	2637					GRCh38	V40	RBM5-BG293LV04-61/Aligned.sortedByCoord.out.bam		ENCORE2	9837
RBM5-BG293LV04-61_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	2637					GRCh38	V40	RBM5-BG293LV04-61/Aligned.sortedByCoord.out.bam		ENCORE2	9865
RBM5-BG293LV04-61_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	2637					GRCh38	V40	RBM5-BG293LV04-61/Aligned.sortedByCoord.out.bam		ENCORE2	9893
RBM5-BG293LV04-61_quant.sf	ENCODE_DATA/set64/salmon_ENCORE2	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	2637					GRCh38	V40	RBM5-BG293LV04-61_S23_R1_001.filtered.trimmed.paired.fastq.gz,RBM5-BG293LV04-61_S23_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	9921
RBM5-BG293LV04-62_S24_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set64/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2638	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	8705
RBM5-BG293LV04-62_S24_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set64/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2638	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	8733
RBM5-BG293LV04-62_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set64/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	2638					GRCh38	V40	RBM5-BG293LV04-62_S24_R1_001.filtered.trimmed.paired.fastq.gz,RBM5-BG293LV04-62_S24_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	9782
RBM5-BG293LV04-62_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	2638					GRCh38	V40	RBM5-BG293LV04-62/Aligned.sortedByCoord.out.bam		ENCORE2	9810
RBM5-BG293LV04-62_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	2638					GRCh38	V40	RBM5-BG293LV04-62/Aligned.sortedByCoord.out.bam		ENCORE2	9838
RBM5-BG293LV04-62_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	2638					GRCh38	V40	RBM5-BG293LV04-62/Aligned.sortedByCoord.out.bam		ENCORE2	9866
RBM5-BG293LV04-62_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	2638					GRCh38	V40	RBM5-BG293LV04-62/Aligned.sortedByCoord.out.bam		ENCORE2	9894
RBM5-BG293LV04-62_quant.sf	ENCODE_DATA/set64/salmon_ENCORE2	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	2638					GRCh38	V40	RBM5-BG293LV04-62_S24_R1_001.filtered.trimmed.paired.fastq.gz,RBM5-BG293LV04-62_S24_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	9922