ZRANB2 RNA-Seq in 293T

Experiment Information (Status: Revoked)

	BG293LV02-53	BG293LV02-54
idx	0	0
TRCN#_or_BGC#	TRCN0000013427	TRCN0000013427
shRNA_or_gRNA_sequence	CCGGCTTCACATTCACGATCTTCATCTCGAGATGAAGATCGTGAATGTGAAGTTTTT	CCGGCTTCACATTCACGATCTTCATCTCGAGATGAAGATCGTGAATGTGAAGTTTTT
PAM
Name	ZRANB2	ZRANB2
Sample_ID	BG293LV02-53	BG293LV02-54
transduction_Date	3/20/23	3/20/23
days	D4	D4
RBP_name	ZRANB2	ZRANB2
qPCR_result	63.1	67.8
Ave_qPCR	65.4
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	9848	9849

Western Blot Western Blot info was not avaliable

Experiment Status

	BG293LV02-53	BG293LV02-54
Sample_ID	BG293LV02-53	BG293LV02-54
Sample Name
Sample Name	ZRANB2-BG293LV02-53	ZRANB2-BG293LV02-54
RBP	ZRANB2	ZRANB2
Cell_Line	293T	293T
Exp UID
Status	Revoked	Revoked
Status_date	2023-09-20	2023-09-20
Project	ENCORE2	ENCORE2
Note
ID	11600	11601

Library-Prep
Sequencing

Library-Prep Information

	BG293LV02-53	BG293LV02-54
Sample #	43	44
Sample Name	ZRANB2-BG293LV02-53	ZRANB2-BG293LV02-54
Sample_Name_Alias
Index Well Position	C06	D06
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	284	281
Peak_Molarity	113.00	92.20
libSampleQC_DNA_Well	DNA_Library_set60-62/set2/C6.png	DNA_Library_set60-62/set2/D6.png
RIN	10.0	9.9
libSample_RNA_Well	RNA_Library_set60-62/set1/C6.png	RNA_Library_set60-62/set1/D6.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2023-04-17	2023-04-17
Sample_ID	BG293LV02-53	BG293LV02-54
RBP	ZRANB2	ZRANB2
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	3630	3631

Sequencing Information

	BG293LV02-53	BG293LV02-54
Sample_ID	BG293LV02-53	BG293LV02-54
Sample Name	ZRANB2-BG293LV02-53	ZRANB2-BG293LV02-54
Pool ID	Pool-230417	Pool-230417
LocalServer_folder	set60	set60
total_reads	43,604,545	49,631,094
total_aligned_reads	38,537,267	45,602,830
unique_aligned_reads	36,050,657	42,812,188
percent_uniqueAligned	0.82676	0.86261
correlation_replicates	0.992231	0.992231
spikein_reads	99,944	58,804
percent_spikeins	0.00229	0.00118
original_ReadLength	101	101
QC_Status	Submitting	Submitting
ID	2501	2502

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
ZRANB2-BG293LV02-53_S43_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set60/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2501	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	8004
ZRANB2-BG293LV02-53_S43_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set60/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2501	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	8048
ZRANB2-BG293LV02-53_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set60/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	2501					GRCh38	V40	ZRANB2-BG293LV02-53_S43_L001_R1_001.filtered.trimmed.paired.fastq.gz,ZRANB2-BG293LV02-53_S43_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	10797
ZRANB2-BG293LV02-53_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	2501					GRCh38	V40	ZRANB2-BG293LV02-53/Aligned.sortedByCoord.out.bam		ENCORE2	10841
ZRANB2-BG293LV02-53_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	2501					GRCh38	V40	ZRANB2-BG293LV02-53/Aligned.sortedByCoord.out.bam		ENCORE2	10885
ZRANB2-BG293LV02-53_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	2501					GRCh38	V40	ZRANB2-BG293LV02-53/Aligned.sortedByCoord.out.bam		ENCORE2	10929
ZRANB2-BG293LV02-53_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	2501					GRCh38	V40	ZRANB2-BG293LV02-53/Aligned.sortedByCoord.out.bam		ENCORE2	10973
ZRANB2-BG293LV02-53_quant.sf	ENCODE_DATA/set60/salmon_ENCORE2	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	2501					GRCh38	V40	ZRANB2-BG293LV02-53_S43_L001_R1_001.filtered.trimmed.paired.fastq.gz,ZRANB2-BG293LV02-53_S43_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	11017
ZRANB2-BG293LV02-54_S44_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set60/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2502	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	8005
ZRANB2-BG293LV02-54_S44_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set60/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2502	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	8049
ZRANB2-BG293LV02-54_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set60/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	2502					GRCh38	V40	ZRANB2-BG293LV02-54_S44_L001_R1_001.filtered.trimmed.paired.fastq.gz,ZRANB2-BG293LV02-54_S44_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	10798
ZRANB2-BG293LV02-54_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	2502					GRCh38	V40	ZRANB2-BG293LV02-54/Aligned.sortedByCoord.out.bam		ENCORE2	10842
ZRANB2-BG293LV02-54_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	2502					GRCh38	V40	ZRANB2-BG293LV02-54/Aligned.sortedByCoord.out.bam		ENCORE2	10886
ZRANB2-BG293LV02-54_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	2502					GRCh38	V40	ZRANB2-BG293LV02-54/Aligned.sortedByCoord.out.bam		ENCORE2	10930
ZRANB2-BG293LV02-54_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	2502					GRCh38	V40	ZRANB2-BG293LV02-54/Aligned.sortedByCoord.out.bam		ENCORE2	10974
ZRANB2-BG293LV02-54_quant.sf	ENCODE_DATA/set60/salmon_ENCORE2	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	2502					GRCh38	V40	ZRANB2-BG293LV02-54_S44_L001_R1_001.filtered.trimmed.paired.fastq.gz,ZRANB2-BG293LV02-54_S44_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	11018