ZRANB2 RNA-Seq in 293T

Experiment Information (Status: Released)

	BG293LV06-113	BG293LV06-114
idx	0	0
TRCN#_or_BGC#	TRCN0000013427	TRCN0000013427
shRNA_or_gRNA_sequence	CCGGCTTCACATTCACGATCTTCATCTCGAGATGAAGATCGTGAATGTGAAGTTTTT	CCGGCTTCACATTCACGATCTTCATCTCGAGATGAAGATCGTGAATGTGAAGTTTTT
PAM
Name	ZRANB2	ZRANB2
Sample_ID	BG293LV06-113	BG293LV06-114
transduction_Date	9/5/24	9/5/24
days	D4	D4
RBP_name	ZRANB2	ZRANB2
qPCR_result	81.1	79.4
Ave_qPCR	80.2
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	12248	12249

Western Blot Western Blot info was not avaliable

Experiment Status

	BG293LV06-113	BG293LV06-114
Sample_ID	BG293LV06-113	BG293LV06-114
Sample Name
Sample Name	ZRANB2-BG293LV06-113B	ZRANB2-BG293LV06-114B
RBP	ZRANB2	ZRANB2
Cell_Line	293T	293T
Exp UID
Status	Released	Released
Status_date	2025-04-21	2025-04-21
Project	ENCORE2	ENCORE2
Note
ID	13550	13551

Library-Prep
Sequencing

Library-Prep Information

	BG293LV06-113	BG293LV06-114
Sample #	113	114
Sample Name	ZRANB2-BG293LV06-113B	ZRANB2-BG293LV06-114B
Sample_Name_Alias
Index Well Position	A08	B08
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	280	281
Peak_Molarity	78.10	76.90
libSampleQC_DNA_Well	DNA_Library_set72/set1/A8.png	DNA_Library_set72/set1/B8.png
RIN	9.8	9.8
libSample_RNA_Well	RNA_Library_set72/set1/A8.png	RNA_Library_set72/set1/B8.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2024-10-04	2024-10-04
Sample_ID	BG293LV06-113	BG293LV06-114
RBP	ZRANB2	ZRANB2
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	4538	4539

Sequencing Information

	BG293LV06-113	BG293LV06-114
Sample_ID	BG293LV06-113	BG293LV06-114
Sample Name	ZRANB2-BG293LV06-113B	ZRANB2-BG293LV06-114B
Pool ID	Pool-241004	Pool-241004
LocalServer_folder	set72	set72
total_reads	32,274,643	50,081,239
total_aligned_reads	29,919,383	46,866,263
unique_aligned_reads	28,120,059	44,081,832
percent_uniqueAligned	0.87127	0.88021
correlation_replicates	0.998337	0.998337
spikein_reads	137,070	218,990
percent_spikeins	0.00425	0.00437
original_ReadLength	101	101
QC_Status	Submitted	Submitted
ID	3107	3108

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-BG293LV06-113B_S65_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set72/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3107	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	29834
ZRANB2-BG293LV06-113B_S65_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set72/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3107	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	29906
ZRANB2-BG293LV06-113B_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set72/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3107					GRCh38	V40	ZRANB2-BG293LV06-113B_S65_L001_R1_001.filtered.trimmed.paired.fastq.gz,ZRANB2-BG293LV06-113B_S65_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	29978
ZRANB2-BG293LV06-113B_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	3107					GRCh38	V40	ZRANB2-BG293LV06-113B_Aligned.sortedByCoord.out.bam		ENCORE2	30050
ZRANB2-BG293LV06-113B_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	3107					GRCh38	V40	ZRANB2-BG293LV06-113B_Aligned.sortedByCoord.out.bam		ENCORE2	30122
ZRANB2-BG293LV06-113B_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	3107					GRCh38	V40	ZRANB2-BG293LV06-113B_Aligned.sortedByCoord.out.bam		ENCORE2	30194
ZRANB2-BG293LV06-113B_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	3107					GRCh38	V40	ZRANB2-BG293LV06-113B_Aligned.sortedByCoord.out.bam		ENCORE2	30266
ZRANB2-BG293LV06-113B_quant.sf	ENCODE_DATA/set72/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3107					GRCh38	V40	ZRANB2-BG293LV06-113B_S65_L001_R1_001.filtered.trimmed.paired.fastq.gz,ZRANB2-BG293LV06-113B_S65_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	30338
ZRANB2-BG293LV06-114B_S66_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set72/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3108	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	29835
ZRANB2-BG293LV06-114B_S66_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set72/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3108	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	29907
ZRANB2-BG293LV06-114B_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set72/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3108					GRCh38	V40	ZRANB2-BG293LV06-114B_S66_L001_R1_001.filtered.trimmed.paired.fastq.gz,ZRANB2-BG293LV06-114B_S66_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	29979
ZRANB2-BG293LV06-114B_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	3108					GRCh38	V40	ZRANB2-BG293LV06-114B_Aligned.sortedByCoord.out.bam		ENCORE2	30051
ZRANB2-BG293LV06-114B_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	3108					GRCh38	V40	ZRANB2-BG293LV06-114B_Aligned.sortedByCoord.out.bam		ENCORE2	30123
ZRANB2-BG293LV06-114B_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	3108					GRCh38	V40	ZRANB2-BG293LV06-114B_Aligned.sortedByCoord.out.bam		ENCORE2	30195
ZRANB2-BG293LV06-114B_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	3108					GRCh38	V40	ZRANB2-BG293LV06-114B_Aligned.sortedByCoord.out.bam		ENCORE2	30267
ZRANB2-BG293LV06-114B_quant.sf	ENCODE_DATA/set72/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3108					GRCh38	V40	ZRANB2-BG293LV06-114B_S66_L001_R1_001.filtered.trimmed.paired.fastq.gz,ZRANB2-BG293LV06-114B_S66_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	30339