RBM10 RNA-Seq in 293T

Experiment Information (Status: Revoked)

	BG293LV02-37	BG293LV02-38
idx	0	0
TRCN#_or_BGC#	TRCN0000233278	TRCN0000233278
shRNA_or_gRNA_sequence	CCGGTCCAACGTGCGCGTCATAAAGCTCGAGCTTTATGACGCGCACGTTGGATTTTTG	CCGGTCCAACGTGCGCGTCATAAAGCTCGAGCTTTATGACGCGCACGTTGGATTTTTG
PAM
Name	RBM10	RBM10
Sample_ID	BG293LV02-37	BG293LV02-38
transduction_Date	3/20/23	3/20/23
days	D4	D4
RBP_name	RBM10	RBM10
qPCR_result	93.8	88.3
Ave_qPCR	91.1
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	9832	9833

Western Blot Western Blot info was not avaliable

Experiment Status

	BG293LV02-37	BG293LV02-38
Sample_ID	BG293LV02-37	BG293LV02-38
Sample Name
Sample Name	RBM10-BG293LV02-37	RBM10-BG293LV02-38
RBP	RBM10	RBM10
Cell_Line	293T	293T
Exp UID
Status	Revoked	Revoked
Status_date	2023-09-20	2023-09-20
Project	ENCORE2	ENCORE2
Note
ID	11590	11591

Library-Prep
Sequencing

Library-Prep Information

	BG293LV02-37	BG293LV02-38
Sample #	33	34
Sample Name	RBM10-BG293LV02-37	RBM10-BG293LV02-38
Sample_Name_Alias
Index Well Position	A05	B05
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	288	283
Peak_Molarity	51.30	83.40
libSampleQC_DNA_Well	DNA_Library_set60-62/set2/A5.png	DNA_Library_set60-62/set2/B5.png
RIN	9.9	9.9
libSample_RNA_Well	RNA_Library_set60-62/set1/A5.png	RNA_Library_set60-62/set1/B5.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2023-04-17	2023-04-17
Sample_ID	BG293LV02-37	BG293LV02-38
RBP	RBM10	RBM10
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	3620	3621

Sequencing Information

	BG293LV02-37	BG293LV02-38
Sample_ID	BG293LV02-37	BG293LV02-38
Sample Name	RBM10-BG293LV02-37	RBM10-BG293LV02-38
Pool ID	Pool-230417	Pool-230417
LocalServer_folder	set60	set60
total_reads	37,161,283	35,805,663
total_aligned_reads	26,644,779	27,721,591
unique_aligned_reads	24,810,780	25,830,902
percent_uniqueAligned	0.66765	0.72142
correlation_replicates	0.985055	0.985055
spikein_reads	135,754	105,648
percent_spikeins	0.00365	0.00295
original_ReadLength	101	101
QC_Status	Submitting	Submitting
ID	2491	2492

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
RBM10-BG293LV02-37_S33_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set60/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2491	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	7994
RBM10-BG293LV02-37_S33_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set60/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2491	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	8038
RBM10-BG293LV02-37_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set60/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	2491					GRCh38	V40	RBM10-BG293LV02-37_S33_L001_R1_001.filtered.trimmed.paired.fastq.gz,RBM10-BG293LV02-37_S33_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	10787
RBM10-BG293LV02-37_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	2491					GRCh38	V40	RBM10-BG293LV02-37/Aligned.sortedByCoord.out.bam		ENCORE2	10831
RBM10-BG293LV02-37_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	2491					GRCh38	V40	RBM10-BG293LV02-37/Aligned.sortedByCoord.out.bam		ENCORE2	10875
RBM10-BG293LV02-37_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	2491					GRCh38	V40	RBM10-BG293LV02-37/Aligned.sortedByCoord.out.bam		ENCORE2	10919
RBM10-BG293LV02-37_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	2491					GRCh38	V40	RBM10-BG293LV02-37/Aligned.sortedByCoord.out.bam		ENCORE2	10963
RBM10-BG293LV02-37_quant.sf	ENCODE_DATA/set60/salmon_ENCORE2	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	2491					GRCh38	V40	RBM10-BG293LV02-37_S33_L001_R1_001.filtered.trimmed.paired.fastq.gz,RBM10-BG293LV02-37_S33_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	11007
RBM10-BG293LV02-38_S34_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set60/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2492	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	7995
RBM10-BG293LV02-38_S34_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set60/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2492	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	8039
RBM10-BG293LV02-38_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set60/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	2492					GRCh38	V40	RBM10-BG293LV02-38_S34_L001_R1_001.filtered.trimmed.paired.fastq.gz,RBM10-BG293LV02-38_S34_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	10788
RBM10-BG293LV02-38_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	2492					GRCh38	V40	RBM10-BG293LV02-38/Aligned.sortedByCoord.out.bam		ENCORE2	10832
RBM10-BG293LV02-38_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	2492					GRCh38	V40	RBM10-BG293LV02-38/Aligned.sortedByCoord.out.bam		ENCORE2	10876
RBM10-BG293LV02-38_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	2492					GRCh38	V40	RBM10-BG293LV02-38/Aligned.sortedByCoord.out.bam		ENCORE2	10920
RBM10-BG293LV02-38_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	2492					GRCh38	V40	RBM10-BG293LV02-38/Aligned.sortedByCoord.out.bam		ENCORE2	10964
RBM10-BG293LV02-38_quant.sf	ENCODE_DATA/set60/salmon_ENCORE2	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	2492					GRCh38	V40	RBM10-BG293LV02-38_S34_L001_R1_001.filtered.trimmed.paired.fastq.gz,RBM10-BG293LV02-38_S34_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	11008