FUBP1 RNA-Seq in 293T

Experiment Information (Status: Revoked)

	BG293LV02-15	BG293LV02-16
idx	0	0
TRCN#_or_BGC#	TRCN0000013293	TRCN0000013293
shRNA_or_gRNA_sequence	CCGGCGACTTGATGAAGATCTTAATCTCGAGATTAAGATCTTCATCAAGTCGTTTTT	CCGGCGACTTGATGAAGATCTTAATCTCGAGATTAAGATCTTCATCAAGTCGTTTTT
PAM
Name	FUBP1	FUBP1
Sample_ID	BG293LV02-15	BG293LV02-16
transduction_Date	3/20/23	3/20/23
days	D4	D4
RBP_name	FUBP1	FUBP1
qPCR_result	80.5	75.8
Ave_qPCR	78.1
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	9810	9811

Western Blot Western Blot info was not avaliable

Experiment Status

	BG293LV02-15	BG293LV02-16
Sample_ID	BG293LV02-15	BG293LV02-16
Sample Name
Sample Name	FUBP1-BG293LV02-15	FUBP1-BG293LV02-16
RBP	FUBP1	FUBP1
Cell_Line	293T	293T
Exp UID
Status	Revoked	Revoked
Status_date	2023-09-20	2023-09-20
Project	ENCORE2	ENCORE2
Note
ID	11570	11571

Library-Prep
Sequencing

Library-Prep Information

	BG293LV02-15	BG293LV02-16
Sample #	13	14
Sample Name	FUBP1-BG293LV02-15	FUBP1-BG293LV02-16
Sample_Name_Alias
Index Well Position	E02	F02
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	280	291
Peak_Molarity	107.00	132.00
libSampleQC_DNA_Well	DNA_Library_set60-62/set2/E2.png	DNA_Library_set60-62/set2/F2.png
RIN	9.7	9.7
libSample_RNA_Well	RNA_Library_set60-62/set1/E2.png	RNA_Library_set60-62/set1/F2.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2023-04-17	2023-04-17
Sample_ID	BG293LV02-15	BG293LV02-16
RBP	FUBP1	FUBP1
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	3600	3601

Sequencing Information

	BG293LV02-15	BG293LV02-16
Sample_ID	BG293LV02-15	BG293LV02-16
Sample Name	FUBP1-BG293LV02-15	FUBP1-BG293LV02-16
Pool ID	Pool-230417	Pool-230417
LocalServer_folder	set60	set60
total_reads	43,519,429	25,568,731
total_aligned_reads	36,204,448	21,272,896
unique_aligned_reads	33,693,026	19,846,093
percent_uniqueAligned	0.77421	0.77619
correlation_replicates	0.990401	0.990401
spikein_reads	116,188	56,388
percent_spikeins	0.00267	0.00221
original_ReadLength	101	101
QC_Status	Submitting	Submitting
ID	2471	2472

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
FUBP1-BG293LV02-15_S13_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set60/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2471	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	7972
FUBP1-BG293LV02-15_S13_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set60/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2471	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	8016
FUBP1-BG293LV02-15_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set60/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	2471					GRCh38	V40	FUBP1-BG293LV02-15_S13_L001_R1_001.filtered.trimmed.paired.fastq.gz,FUBP1-BG293LV02-15_S13_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	10765
FUBP1-BG293LV02-15_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	2471					GRCh38	V40	FUBP1-BG293LV02-15/Aligned.sortedByCoord.out.bam		ENCORE2	10809
FUBP1-BG293LV02-15_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	2471					GRCh38	V40	FUBP1-BG293LV02-15/Aligned.sortedByCoord.out.bam		ENCORE2	10853
FUBP1-BG293LV02-15_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	2471					GRCh38	V40	FUBP1-BG293LV02-15/Aligned.sortedByCoord.out.bam		ENCORE2	10897
FUBP1-BG293LV02-15_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	2471					GRCh38	V40	FUBP1-BG293LV02-15/Aligned.sortedByCoord.out.bam		ENCORE2	10941
FUBP1-BG293LV02-15_quant.sf	ENCODE_DATA/set60/salmon_ENCORE2	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	2471					GRCh38	V40	FUBP1-BG293LV02-15_S13_L001_R1_001.filtered.trimmed.paired.fastq.gz,FUBP1-BG293LV02-15_S13_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	10985
FUBP1-BG293LV02-16_S14_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set60/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2472	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	7973
FUBP1-BG293LV02-16_S14_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set60/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2472	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	8017
FUBP1-BG293LV02-16_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set60/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	2472					GRCh38	V40	FUBP1-BG293LV02-16_S14_L001_R1_001.filtered.trimmed.paired.fastq.gz,FUBP1-BG293LV02-16_S14_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	10766
FUBP1-BG293LV02-16_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	2472					GRCh38	V40	FUBP1-BG293LV02-16/Aligned.sortedByCoord.out.bam		ENCORE2	10810
FUBP1-BG293LV02-16_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	2472					GRCh38	V40	FUBP1-BG293LV02-16/Aligned.sortedByCoord.out.bam		ENCORE2	10854
FUBP1-BG293LV02-16_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	2472					GRCh38	V40	FUBP1-BG293LV02-16/Aligned.sortedByCoord.out.bam		ENCORE2	10898
FUBP1-BG293LV02-16_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	2472					GRCh38	V40	FUBP1-BG293LV02-16/Aligned.sortedByCoord.out.bam		ENCORE2	10942
FUBP1-BG293LV02-16_quant.sf	ENCODE_DATA/set60/salmon_ENCORE2	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	2472					GRCh38	V40	FUBP1-BG293LV02-16_S14_L001_R1_001.filtered.trimmed.paired.fastq.gz,FUBP1-BG293LV02-16_S14_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	10986