RBM5 RNA-Seq in 293T

Experiment Information (Status: Released)

	BG293LV06-49	BG293LV06-50
idx	0	0
TRCN#_or_BGC#	TRCN0000312602	TRCN0000312602
shRNA_or_gRNA_sequence	CCGGACCATCACAGAGAGCGATATTCTCGAGAATATCGCTCTCTGTGATGGTTTTTTG	CCGGACCATCACAGAGAGCGATATTCTCGAGAATATCGCTCTCTGTGATGGTTTTTTG
PAM
Name	RBM5	RBM5
Sample_ID	BG293LV06-49	BG293LV06-50
transduction_Date	9/5/24	9/5/24
days	D4	D4
RBP_name	RBM5	RBM5
qPCR_result	82.6	81.0
Ave_qPCR	81.8
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	12184	12185

Western Blot Western Blot info was not avaliable

Experiment Status

	BG293LV06-49	BG293LV06-50
Sample_ID	BG293LV06-49	BG293LV06-50
Sample Name
Sample Name	RBM5-BG293LV06-49	RBM5-BG293LV06-50
RBP	RBM5	RBM5
Cell_Line	293T	293T
Exp UID
Status	Released	Released
Status_date	2025-04-21	2025-04-21
Project	ENCORE2	ENCORE2
Note
ID	13486	13487

Library-Prep
Sequencing

Library-Prep Information

	BG293LV06-49	BG293LV06-50
Sample #	51	52
Sample Name	RBM5-BG293LV06-49	RBM5-BG293LV06-50
Sample_Name_Alias
Index Well Position	C07	D07
Index_table	IDT_UniqueDualIndex_96_V2	IDT_UniqueDualIndex_96_V2
LibPrep_date	2024-09-25	2024-09-25
Lib_ID	Lib-240925B	Lib-240925B
Tecan_Location
Tecan
Tecan_date
Size_bp	273	280
Peak_Molarity	91.00	101.00
libSampleQC_DNA_Well	DNA_Library_set71/set1/C7.png	DNA_Library_set71/set1/D7.png
RIN	10.0	10.0
libSample_RNA_Well	RNA_Library_set71/set1/C7.png	RNA_Library_set71/set1/D7.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2024-09-30	2024-09-30
Sample_ID	BG293LV06-49	BG293LV06-50
RBP	RBM5	RBM5
Batch_ID	BG293LV06	BG293LV06
WB_result	0.000	0.000
Library Description	TruSeq mRNA	TruSeq mRNA
Repeat_Library_Suffix
Lib_Status	SendToSequence	SendToSequence
Project	ENCORE2	ENCORE2
ID	4476	4477

Sequencing Information

	BG293LV06-49	BG293LV06-50
Sample_ID	BG293LV06-49	BG293LV06-50
Sample Name	RBM5-BG293LV06-49	RBM5-BG293LV06-50
Pool ID	Pool-240930	Pool-240930
LocalServer_folder	set71	set71
total_reads	46,024,703	36,199,365
total_aligned_reads	41,308,154	32,818,437
unique_aligned_reads	38,352,448	30,561,184
percent_uniqueAligned	0.83330	0.84425
correlation_replicates	0.997506	0.997506
spikein_reads	131,466	100,934
percent_spikeins	0.00286	0.00279
original_ReadLength	101	101
QC_Status	Submitted	Submitted
ID	3045	3046

Data Submission Information DCC submission information was not avaliable

File Information

Search:

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-BG293LV06-49_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set71/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3045					GRCh38	V40	RBM5-BG293LV06-49_S51_L002_R1_001.filtered.trimmed.paired.fastq.gz,RBM5-BG293LV06-49_S51_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	29496
RBM5-BG293LV06-49_quant.sf	ENCODE_DATA/set71/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3045					GRCh38	V40	RBM5-BG293LV06-49_S51_L002_R1_001.filtered.trimmed.paired.fastq.gz,RBM5-BG293LV06-49_S51_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	29752
RBM5-BG293LV06-49_S51_L002_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set71/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3045	NovaSeq6000	100	paired-ended	1				NT-BG293LV06-1merged_S1_L002_R1_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV06-2merged_S2_L002_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	29367
RBM5-BG293LV06-49_S51_L002_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set71/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3045	NovaSeq6000	100	paired-ended	2				NT-BG293LV06-1merged_S1_L002_R2_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV06-2merged_S2_L002_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	29431
RBM5-BG293LV06-49_Signal.Unique.strand-.bw	ENCODE_DATA/set71/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3045					GRCh38	V40	RBM5-BG293LV06-49_Aligned.sortedByCoord.out.bam		ENCORE2	29688
RBM5-BG293LV06-49_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set71/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3045					GRCh38	V40	RBM5-BG293LV06-49_Aligned.sortedByCoord.out.bam		ENCORE2	29624
RBM5-BG293LV06-49_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set71/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3045					GRCh38	V40	RBM5-BG293LV06-49_Aligned.sortedByCoord.out.bam		ENCORE2	29560
RBM5-BG293LV06-50_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set71/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3046					GRCh38	V40	RBM5-BG293LV06-50_S52_L002_R1_001.filtered.trimmed.paired.fastq.gz,RBM5-BG293LV06-50_S52_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	29497
RBM5-BG293LV06-50_quant.sf	ENCODE_DATA/set71/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3046					GRCh38	V40	RBM5-BG293LV06-50_S52_L002_R1_001.filtered.trimmed.paired.fastq.gz,RBM5-BG293LV06-50_S52_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	29753
RBM5-BG293LV06-50_S52_L002_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set71/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3046	NovaSeq6000	100	paired-ended	1				NT-BG293LV06-1merged_S1_L002_R1_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV06-2merged_S2_L002_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	29368
RBM5-BG293LV06-50_S52_L002_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set71/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3046	NovaSeq6000	100	paired-ended	2				NT-BG293LV06-1merged_S1_L002_R2_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV06-2merged_S2_L002_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	29432
RBM5-BG293LV06-50_Signal.Unique.strand-.bw	ENCODE_DATA/set71/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3046					GRCh38	V40	RBM5-BG293LV06-50_Aligned.sortedByCoord.out.bam		ENCORE2	29689
RBM5-BG293LV06-50_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set71/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3046					GRCh38	V40	RBM5-BG293LV06-50_Aligned.sortedByCoord.out.bam		ENCORE2	29625
RBM5-BG293LV06-50_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set71/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3046					GRCh38	V40	RBM5-BG293LV06-50_Aligned.sortedByCoord.out.bam		ENCORE2	29561

Showing 1 to 14 of 14 entries