FUBP1 RNA-Seq in 293T

Experiment Information (Status: Released)

	BG293LV06-99	BG293LV06-100
idx	0	0
TRCN#_or_BGC#	TRCN0000013293	TRCN0000013293
shRNA_or_gRNA_sequence	CCGGCGACTTGATGAAGATCTTAATCTCGAGATTAAGATCTTCATCAAGTCGTTTTT	CCGGCGACTTGATGAAGATCTTAATCTCGAGATTAAGATCTTCATCAAGTCGTTTTT
PAM
Name	FUBP1	FUBP1
Sample_ID	BG293LV06-99	BG293LV06-100
transduction_Date	9/5/24	9/5/24
days	D4	D4
RBP_name	FUBP1	FUBP1
qPCR_result	80.6	82.7
Ave_qPCR	81.7
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	12234	12235

Western Blot Western Blot info was not avaliable

Experiment Status

	BG293LV06-99	BG293LV06-100
Sample_ID	BG293LV06-99	BG293LV06-100
Sample Name
Sample Name	FUBP1-BG293LV06-99B	FUBP1-BG293LV06-100B
RBP	FUBP1	FUBP1
Cell_Line	293T	293T
Exp UID
Status	Released	Released
Status_date	2025-04-21	2025-04-21
Project	ENCORE2	ENCORE2
Note
ID	13536	13537

Library-Prep
Sequencing

Library-Prep Information

	BG293LV06-99	BG293LV06-100
Sample #	99	100
Sample Name	FUBP1-BG293LV06-99B	FUBP1-BG293LV06-100B
Sample_Name_Alias
Index Well Position	C06	D06
Index_table	IDT_UniqueDualIndex_96_V2	IDT_UniqueDualIndex_96_V2
LibPrep_date	2024-10-02	2024-10-02
Lib_ID	Lib-241002	Lib-241002
Tecan_Location
Tecan
Tecan_date
Size_bp	278	296
Peak_Molarity	101.00	67.60
libSampleQC_DNA_Well	DNA_Library_set72/set1/C6.png	DNA_Library_set72/set1/D6.png
RIN	10.0	10.0
libSample_RNA_Well	RNA_Library_set72/set1/C6.png	RNA_Library_set72/set1/D6.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2024-10-04	2024-10-04
Sample_ID	BG293LV06-99	BG293LV06-100
RBP	FUBP1	FUBP1
Batch_ID	BG293LV06	BG293LV06
WB_result	0.000	0.000
Library Description	TruSeq mRNA	TruSeq mRNA
Repeat_Library_Suffix	B	B
Lib_Status	SendToSequence	SendToSequence
Project	ENCORE2	ENCORE2
ID	4524	4525

Sequencing Information

	BG293LV06-99	BG293LV06-100
Sample_ID	BG293LV06-99	BG293LV06-100
Sample Name	FUBP1-BG293LV06-99B	FUBP1-BG293LV06-100B
Pool ID	Pool-241004	Pool-241004
LocalServer_folder	set72	set72
total_reads	39,784,524	34,225,981
total_aligned_reads	37,022,988	32,156,428
unique_aligned_reads	34,140,165	30,309,806
percent_uniqueAligned	0.85813	0.88558
correlation_replicates	0.964428	0.964428
spikein_reads	166,740	130,226
percent_spikeins	0.00419	0.00380
original_ReadLength	101	101
QC_Status	Submitted	Submitted
ID	3093	3094

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-BG293LV06-99B_S51_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set72/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3093	NovaSeq6000	100	paired-ended	1				NT-BG293LV06-1Bmerged_S9_L001_R1_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV06-2Bmerged_S10_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	29779
FUBP1-BG293LV06-99B_S51_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set72/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3093	NovaSeq6000	100	paired-ended	2				NT-BG293LV06-1Bmerged_S9_L001_R2_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV06-2Bmerged_S10_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	29851
FUBP1-BG293LV06-99B_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set72/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3093					GRCh38	V40	FUBP1-BG293LV06-99B_S51_L001_R1_001.filtered.trimmed.paired.fastq.gz,FUBP1-BG293LV06-99B_S51_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	29923
FUBP1-BG293LV06-99B_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set72/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3093					GRCh38	V40	FUBP1-BG293LV06-99B_Aligned.sortedByCoord.out.bam		ENCORE2	29995
FUBP1-BG293LV06-99B_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set72/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3093					GRCh38	V40	FUBP1-BG293LV06-99B_Aligned.sortedByCoord.out.bam		ENCORE2	30067
FUBP1-BG293LV06-99B_Signal.Unique.strand-.bw	ENCODE_DATA/set72/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3093					GRCh38	V40	FUBP1-BG293LV06-99B_Aligned.sortedByCoord.out.bam		ENCORE2	30139
FUBP1-BG293LV06-99B_Signal.Unique.strand+.bw	ENCODE_DATA/set72/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3093					GRCh38	V40	FUBP1-BG293LV06-99B_Aligned.sortedByCoord.out.bam		ENCORE2	30211
FUBP1-BG293LV06-99B_quant.sf	ENCODE_DATA/set72/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3093					GRCh38	V40	FUBP1-BG293LV06-99B_S51_L001_R1_001.filtered.trimmed.paired.fastq.gz,FUBP1-BG293LV06-99B_S51_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	30283
FUBP1-BG293LV06-100B_S52_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set72/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3094	NovaSeq6000	100	paired-ended	1				NT-BG293LV06-1Bmerged_S9_L001_R1_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV06-2Bmerged_S10_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	29778
FUBP1-BG293LV06-100B_S52_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set72/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3094	NovaSeq6000	100	paired-ended	2				NT-BG293LV06-1Bmerged_S9_L001_R2_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV06-2Bmerged_S10_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	29850
FUBP1-BG293LV06-100B_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set72/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3094					GRCh38	V40	FUBP1-BG293LV06-100B_S52_L001_R1_001.filtered.trimmed.paired.fastq.gz,FUBP1-BG293LV06-100B_S52_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	29922
FUBP1-BG293LV06-100B_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set72/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3094					GRCh38	V40	FUBP1-BG293LV06-100B_Aligned.sortedByCoord.out.bam		ENCORE2	29994
FUBP1-BG293LV06-100B_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set72/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3094					GRCh38	V40	FUBP1-BG293LV06-100B_Aligned.sortedByCoord.out.bam		ENCORE2	30066
FUBP1-BG293LV06-100B_Signal.Unique.strand-.bw	ENCODE_DATA/set72/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3094					GRCh38	V40	FUBP1-BG293LV06-100B_Aligned.sortedByCoord.out.bam		ENCORE2	30138
FUBP1-BG293LV06-100B_Signal.Unique.strand+.bw	ENCODE_DATA/set72/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3094					GRCh38	V40	FUBP1-BG293LV06-100B_Aligned.sortedByCoord.out.bam		ENCORE2	30210
FUBP1-BG293LV06-100B_quant.sf	ENCODE_DATA/set72/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3094					GRCh38	V40	FUBP1-BG293LV06-100B_S52_L001_R1_001.filtered.trimmed.paired.fastq.gz,FUBP1-BG293LV06-100B_S52_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	30282