MBNL1 RNA-Seq in 293T

Experiment Information (Status: Revoked)

	BG293LV02-29	BG293LV02-30
idx	0	0
TRCN#_or_BGC#	TRCN0000063963	TRCN0000063963
shRNA_or_gRNA_sequence	CCGGGCAGTCTTTAACACTGGTATTCTCGAGAATACCAGTGTTAAAGACTGCTTTTTG	CCGGGCAGTCTTTAACACTGGTATTCTCGAGAATACCAGTGTTAAAGACTGCTTTTTG
PAM
Name	MBNL1	MBNL1
Sample_ID	BG293LV02-29	BG293LV02-30
transduction_Date	3/20/23	3/20/23
days	D4	D4
RBP_name	MBNL1	MBNL1
qPCR_result	53.1	52.8
Ave_qPCR	52.9
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	11872	11873

Western Blot Western Blot info was not avaliable

Experiment Status

	BG293LV02-29	BG293LV02-30
Sample_ID	BG293LV02-29	BG293LV02-30
Sample Name
Sample Name	MBNL1-BG293LV02-29	MBNL1-BG293LV02-30
RBP	MBNL1	MBNL1
Cell_Line	293T	293T
Exp UID
Status	Revoked	Revoked
Status_date	2023-09-20	2023-09-20
Project	ENCORE2	ENCORE2
Note
ID	11582	11583

Library-Prep
Sequencing

Library-Prep Information

	BG293LV02-29	BG293LV02-30
Sample #	25	26
Sample Name	MBNL1-BG293LV02-29	MBNL1-BG293LV02-30
Sample_Name_Alias
Index Well Position	A04	B04
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	279	282
Peak_Molarity	59.40	81.70
libSampleQC_DNA_Well	DNA_Library_set60-62/set2/A4.png	DNA_Library_set60-62/set2/B4.png
RIN	9.8	9.8
libSample_RNA_Well	RNA_Library_set60-62/set1/A4.png	RNA_Library_set60-62/set1/B4.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2023-04-17	2023-04-17
Sample_ID	BG293LV02-29	BG293LV02-30
RBP	MBNL1	MBNL1
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	3612	3613

Sequencing Information

	BG293LV02-29	BG293LV02-30
Sample_ID	BG293LV02-29	BG293LV02-30
Sample Name	MBNL1-BG293LV02-29	MBNL1-BG293LV02-30
Pool ID	Pool-230417	Pool-230417
LocalServer_folder	set60	set60
total_reads	44,322,219	42,936,665
total_aligned_reads	17,343,031	35,876,658
unique_aligned_reads	16,041,643	33,474,399
percent_uniqueAligned	0.36193	0.77962
correlation_replicates	0.977239	0.977239
spikein_reads	80,514	112,548
percent_spikeins	0.00182	0.00262
original_ReadLength	101	101
QC_Status	Submitting	Submitting
ID	2483	2484

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
MBNL1-BG293LV02-29_S25_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set60/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2483	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	7984
MBNL1-BG293LV02-29_S25_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set60/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2483	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	8028
MBNL1-BG293LV02-29_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set60/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	2483					GRCh38	V40	MBNL1-BG293LV02-29_S25_L001_R1_001.filtered.trimmed.paired.fastq.gz,MBNL1-BG293LV02-29_S25_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	10777
MBNL1-BG293LV02-29_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	2483					GRCh38	V40	MBNL1-BG293LV02-29/Aligned.sortedByCoord.out.bam		ENCORE2	10821
MBNL1-BG293LV02-29_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	2483					GRCh38	V40	MBNL1-BG293LV02-29/Aligned.sortedByCoord.out.bam		ENCORE2	10865
MBNL1-BG293LV02-29_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	2483					GRCh38	V40	MBNL1-BG293LV02-29/Aligned.sortedByCoord.out.bam		ENCORE2	10909
MBNL1-BG293LV02-29_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	2483					GRCh38	V40	MBNL1-BG293LV02-29/Aligned.sortedByCoord.out.bam		ENCORE2	10953
MBNL1-BG293LV02-29_quant.sf	ENCODE_DATA/set60/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	2483					GRCh38	V40	MBNL1-BG293LV02-29_S25_L001_R1_001.filtered.trimmed.paired.fastq.gz,MBNL1-BG293LV02-29_S25_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	10997
MBNL1-BG293LV02-30_S26_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set60/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2484	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	7985
MBNL1-BG293LV02-30_S26_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set60/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2484	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	8029
MBNL1-BG293LV02-30_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set60/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	2484					GRCh38	V40	MBNL1-BG293LV02-30_S26_L001_R1_001.filtered.trimmed.paired.fastq.gz,MBNL1-BG293LV02-30_S26_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	10778
MBNL1-BG293LV02-30_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	2484					GRCh38	V40	MBNL1-BG293LV02-30/Aligned.sortedByCoord.out.bam		ENCORE2	10822
MBNL1-BG293LV02-30_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	2484					GRCh38	V40	MBNL1-BG293LV02-30/Aligned.sortedByCoord.out.bam		ENCORE2	10866
MBNL1-BG293LV02-30_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	2484					GRCh38	V40	MBNL1-BG293LV02-30/Aligned.sortedByCoord.out.bam		ENCORE2	10910
MBNL1-BG293LV02-30_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	2484					GRCh38	V40	MBNL1-BG293LV02-30/Aligned.sortedByCoord.out.bam		ENCORE2	10954
MBNL1-BG293LV02-30_quant.sf	ENCODE_DATA/set60/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	2484					GRCh38	V40	MBNL1-BG293LV02-30_S26_L001_R1_001.filtered.trimmed.paired.fastq.gz,MBNL1-BG293LV02-30_S26_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	10998