RBM22 RNA-Seq in 293T

Experiment Information (Status: Revoked)

	BG293LV02-41	BG293LV02-42
idx	0	0
TRCN#_or_BGC#	TRCN0000008650	TRCN0000008650
shRNA_or_gRNA_sequence	ACTGAATGTGAAATCTCGAGATTTCACATTCAGTCTGCGGN	ACTGAATGTGAAATCTCGAGATTTCACATTCAGTCTGCGGN
PAM
Name	RBM22	RBM22
Sample_ID	BG293LV02-41	BG293LV02-42
transduction_Date	3/20/23	3/20/23
days	D4	D4
RBP_name	RBM22	RBM22
qPCR_result	94.5	91.3
Ave_qPCR	92.9
RT-qPCR_primer-F	x
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	9836	9837

Western Blot Western Blot info was not avaliable

Experiment Status

	BG293LV02-41	BG293LV02-42
Sample_ID	BG293LV02-41	BG293LV02-42
Sample Name
Sample Name	RBM22-BG293LV02-41	RBM22-BG293LV02-42
RBP	RBM22	RBM22
Cell_Line	293T	293T
Exp UID
Status	Revoked	Revoked
Status_date	2023-09-20	2023-09-20
Project	ENCORE2	ENCORE2
Note
ID	11594	11595

Library-Prep
Sequencing

Library-Prep Information

	BG293LV02-41	BG293LV02-42
Sample #	37	38
Sample Name	RBM22-BG293LV02-41	RBM22-BG293LV02-42
Sample_Name_Alias
Index Well Position	E05	F05
Index_table	IDT_UniqueDualIndex_96	IDT_UniqueDualIndex_96
LibPrep_date	2023-04-12	2023-04-12
Lib_ID	Lib-230412	Lib-230412
Tecan_Location
Tecan
Tecan_date
Size_bp	272	279
Peak_Molarity	59.00	111.00
libSampleQC_DNA_Well	DNA_Library_set60-62/set2/E5.png	DNA_Library_set60-62/set2/F5.png
RIN	9.8	9.7
libSample_RNA_Well	RNA_Library_set60-62/set1/E5.png	RNA_Library_set60-62/set1/F5.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2023-04-17	2023-04-17
Sample_ID	BG293LV02-41	BG293LV02-42
RBP	RBM22	RBM22
Batch_ID	BG293LV02	BG293LV02
WB_result	0.000	0.000
Library Description	TruSeq mRNA	TruSeq mRNA
Repeat_Library_Suffix
Lib_Status	SendToSequence	SendToSequence
Project	ENCORE2	ENCORE2
ID	3624	3625

Sequencing Information

	BG293LV02-41	BG293LV02-42
Sample_ID	BG293LV02-41	BG293LV02-42
Sample Name	RBM22-BG293LV02-41	RBM22-BG293LV02-42
Pool ID	Pool-230417	Pool-230417
LocalServer_folder	set60	set60
total_reads	52,127,581	35,894,109
total_aligned_reads	25,680,163	32,668,257
unique_aligned_reads	23,700,376	30,487,579
percent_uniqueAligned	0.45466	0.84938
correlation_replicates	0.941265	0.941265
spikein_reads	69,084	54,604
percent_spikeins	0.00133	0.00152
original_ReadLength	101	101
QC_Status	Submitting	Submitting
ID	2495	2496

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
RBM22-BG293LV02-41_S37_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set60/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2495	NovaSeq6000	100	paired-ended	1				NT-BG293LV02-1_S1_L001_R1_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV02-2_S2_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	7998
RBM22-BG293LV02-41_S37_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set60/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2495	NovaSeq6000	100	paired-ended	2				NT-BG293LV02-1_S1_L001_R2_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV02-2_S2_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	8042
RBM22-BG293LV02-41_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set60/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	2495					GRCh38	V40	RBM22-BG293LV02-41_S37_L001_R1_001.filtered.trimmed.paired.fastq.gz,RBM22-BG293LV02-41_S37_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	10791
RBM22-BG293LV02-41_Signal.Unique.strand+.bw	ENCODE_DATA/set60/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	2495					GRCh38	V40	RBM22-BG293LV02-41/Aligned.sortedByCoord.out.bam		ENCORE2	10835
RBM22-BG293LV02-41_Signal.Unique.strand-.bw	ENCODE_DATA/set60/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	2495					GRCh38	V40	RBM22-BG293LV02-41/Aligned.sortedByCoord.out.bam		ENCORE2	10879
RBM22-BG293LV02-41_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set60/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	2495					GRCh38	V40	RBM22-BG293LV02-41/Aligned.sortedByCoord.out.bam		ENCORE2	10923
RBM22-BG293LV02-41_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set60/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	2495					GRCh38	V40	RBM22-BG293LV02-41/Aligned.sortedByCoord.out.bam		ENCORE2	10967
RBM22-BG293LV02-41_quant.sf	ENCODE_DATA/set60/salmon_ENCORE2	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	2495					GRCh38	V40	RBM22-BG293LV02-41_S37_L001_R1_001.filtered.trimmed.paired.fastq.gz,RBM22-BG293LV02-41_S37_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	11011
RBM22-BG293LV02-42_S38_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set60/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2496	NovaSeq6000	100	paired-ended	1				NT-BG293LV02-1_S1_L001_R1_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV02-2_S2_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	7999
RBM22-BG293LV02-42_S38_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set60/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2496	NovaSeq6000	100	paired-ended	2				NT-BG293LV02-1_S1_L001_R2_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV02-2_S2_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	8043
RBM22-BG293LV02-42_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set60/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	2496					GRCh38	V40	RBM22-BG293LV02-42_S38_L001_R1_001.filtered.trimmed.paired.fastq.gz,RBM22-BG293LV02-42_S38_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	10792
RBM22-BG293LV02-42_Signal.Unique.strand+.bw	ENCODE_DATA/set60/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	2496					GRCh38	V40	RBM22-BG293LV02-42/Aligned.sortedByCoord.out.bam		ENCORE2	10836
RBM22-BG293LV02-42_Signal.Unique.strand-.bw	ENCODE_DATA/set60/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	2496					GRCh38	V40	RBM22-BG293LV02-42/Aligned.sortedByCoord.out.bam		ENCORE2	10880
RBM22-BG293LV02-42_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set60/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	2496					GRCh38	V40	RBM22-BG293LV02-42/Aligned.sortedByCoord.out.bam		ENCORE2	10924
RBM22-BG293LV02-42_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set60/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	2496					GRCh38	V40	RBM22-BG293LV02-42/Aligned.sortedByCoord.out.bam		ENCORE2	10968
RBM22-BG293LV02-42_quant.sf	ENCODE_DATA/set60/salmon_ENCORE2	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	2496					GRCh38	V40	RBM22-BG293LV02-42_S38_L001_R1_001.filtered.trimmed.paired.fastq.gz,RBM22-BG293LV02-42_S38_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	11012