MBNL2 RNA-Seq in 293T

Experiment Information (Status: Submitting)

	BG293LV05-61	BG293LV05-62
idx	0	0
TRCN#_or_BGC#	TRCN0000180132	TRCN0000180132
shRNA_or_gRNA_sequence	CCGGCGGCTATTAGCTTTGCTCCTTCTCGAGAAGGAGCAAAGCTAATAGCCGTTTTTTG	CCGGCGGCTATTAGCTTTGCTCCTTCTCGAGAAGGAGCAAAGCTAATAGCCGTTTTTTG
PAM
Name	MBNL2	MBNL2
Sample_ID	BG293LV05-61	BG293LV05-62
transduction_Date	12/18/23	12/18/23
days	D4	D4
RBP_name	MBNL2	MBNL2
qPCR_result	97.1	96.4
Ave_qPCR	96.75
RT-qPCR_primer-F	gcccagcagatgcaatttat
RT-qPCR_primer-R	aacccaactccaggggttac
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	10033	10034

Western Blot Western Blot info was not avaliable

Experiment Status

	BG293LV05-61	BG293LV05-62
Sample_ID	BG293LV05-61	BG293LV05-62
Sample Name
Sample Name	MBNL2-BG293LV05-61	MBNL2-BG293LV05-62
RBP	MBNL2	MBNL2
Cell_Line	293T	293T
Exp UID
Status	Submitting	Submitting
Status_date	2024-05-07	2024-05-07
Project	ENCORE2	ENCORE2
Note
ID	12864	12865

Library-Prep
Sequencing

Library-Prep Information

	BG293LV05-61	BG293LV05-62
Sample #	31	32
Sample Name	MBNL2-BG293LV05-61	MBNL2-BG293LV05-62
Sample_Name_Alias
Index Well Position	G10	H10
Index_table	IDT_UniqueDualIndex_96	IDT_UniqueDualIndex_96
LibPrep_date	2024-01-16	2024-01-16
Lib_ID	Lib-240116	Lib-240116
Tecan_Location
Tecan
Tecan_date
Size_bp	270	276
Peak_Molarity	78.20	80.80
libSampleQC_DNA_Well	DNA_Library_set69/set1/G4.png	DNA_Library_set69/set1/H4.png
RIN	10.0	9.9
libSample_RNA_Well	RNA_Library_set69/set1/H9.png	RNA_Library_set69/set1/A10.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2024-01-19	2024-01-19
Sample_ID	BG293LV05-61	BG293LV05-62
RBP	MBNL2	MBNL2
Batch_ID	BG293LV05	BG293LV05
WB_result	0.000	0.000
Library Description	TruSeq mRNA	TruSeq mRNA
Repeat_Library_Suffix
Lib_Status	SendToSequence	SendToSequence
Project	ENCORE2	ENCORE2
ID	4212	4213

Sequencing Information

	BG293LV05-61	BG293LV05-62
Sample_ID	BG293LV05-61	BG293LV05-62
Sample Name	MBNL2-BG293LV05-61	MBNL2-BG293LV05-62
Pool ID	Pool-240119	Pool-240119
LocalServer_folder	set69	set69
total_reads	25,979,920	27,981,122
total_aligned_reads	23,318,262	25,159,917
unique_aligned_reads	21,713,365	23,407,048
percent_uniqueAligned	0.83577	0.83653
correlation_replicates	0.998350	0.998350
spikein_reads	5,014	7,146
percent_spikeins	0.00019	0.00026
original_ReadLength	101	101
QC_Status	Submitting	Submitting
ID	2931	2932

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
MBNL2-BG293LV05-61_S163_L002_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set69/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2931	NovaSeq6000	100	paired-ended	1				NT-BG293LV05-1_merged_R1_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV05-2_S134_L002_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	28509
MBNL2-BG293LV05-61_S163_L002_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set69/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2931	NovaSeq6000	100	paired-ended	2				NT-BG293LV05-1_merged_R2_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV05-2_S134_L002_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	28553
MBNL2-BG293LV05-61_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set69/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	2931					GRCh38	V40	MBNL2-BG293LV05-61_S163_L002_R1_001.filtered.trimmed.paired.fastq.gz,MBNL2-BG293LV05-61_S163_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	28597
MBNL2-BG293LV05-61_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set69/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	2931					GRCh38	V40	MBNL2-BG293LV05-61/Aligned.sortedByCoord.out.bam		ENCORE2	28641
MBNL2-BG293LV05-61_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set69/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	2931					GRCh38	V40	MBNL2-BG293LV05-61/Aligned.sortedByCoord.out.bam		ENCORE2	28685
MBNL2-BG293LV05-61_Signal.Unique.strand-.bw	ENCODE_DATA/set69/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	2931					GRCh38	V40	MBNL2-BG293LV05-61/Aligned.sortedByCoord.out.bam		ENCORE2	28729
MBNL2-BG293LV05-61_Signal.Unique.strand+.bw	ENCODE_DATA/set69/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	2931					GRCh38	V40	MBNL2-BG293LV05-61/Aligned.sortedByCoord.out.bam		ENCORE2	28773
MBNL2-BG293LV05-61_quant.sf	ENCODE_DATA/set69/salmon_ENCORE2	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	2931					GRCh38	V40	MBNL2-BG293LV05-61_S163_L002_R1_001.filtered.trimmed.paired.fastq.gz,MBNL2-BG293LV05-61_S163_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	28817
MBNL2-BG293LV05-62_S164_L002_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set69/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2932	NovaSeq6000	100	paired-ended	1				NT-BG293LV05-1_merged_R1_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV05-2_S134_L002_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	28510
MBNL2-BG293LV05-62_S164_L002_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set69/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2932	NovaSeq6000	100	paired-ended	2				NT-BG293LV05-1_merged_R2_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV05-2_S134_L002_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	28554
MBNL2-BG293LV05-62_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set69/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	2932					GRCh38	V40	MBNL2-BG293LV05-62_S164_L002_R1_001.filtered.trimmed.paired.fastq.gz,MBNL2-BG293LV05-62_S164_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	28598
MBNL2-BG293LV05-62_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set69/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	2932					GRCh38	V40	MBNL2-BG293LV05-62/Aligned.sortedByCoord.out.bam		ENCORE2	28642
MBNL2-BG293LV05-62_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set69/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	2932					GRCh38	V40	MBNL2-BG293LV05-62/Aligned.sortedByCoord.out.bam		ENCORE2	28686
MBNL2-BG293LV05-62_Signal.Unique.strand-.bw	ENCODE_DATA/set69/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	2932					GRCh38	V40	MBNL2-BG293LV05-62/Aligned.sortedByCoord.out.bam		ENCORE2	28730
MBNL2-BG293LV05-62_Signal.Unique.strand+.bw	ENCODE_DATA/set69/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	2932					GRCh38	V40	MBNL2-BG293LV05-62/Aligned.sortedByCoord.out.bam		ENCORE2	28774
MBNL2-BG293LV05-62_quant.sf	ENCODE_DATA/set69/salmon_ENCORE2	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	2932					GRCh38	V40	MBNL2-BG293LV05-62_S164_L002_R1_001.filtered.trimmed.paired.fastq.gz,MBNL2-BG293LV05-62_S164_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	28818