ZNF22 RNA-Seq in Ribo-STAMP-293T

Experiment Information (Status: Submitted)

	BGRSDLV04-55dox	BGRSDLV04-56dox
idx	0	0
TRCN#_or_BGC#	TRCN0000020131	TRCN0000020131
shRNA_or_gRNA_sequence	CCGGTGGATGACAAACCCTATAAATCTCGAGATTTATAGGGTTTGTCATCCATTTTT	CCGGTGGATGACAAACCCTATAAATCTCGAGATTTATAGGGTTTGTCATCCATTTTT
PAM
Name	ZNF22	ZNF22
Sample_ID	BGRSDLV04-55dox	BGRSDLV04-56dox
transduction_Date	10/16/23	10/16/23
days	4 days	4 days
RBP_name	ZNF22	ZNF22
qPCR_result	46.92785	55.28178
Ave_qPCR	51.104815
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	9419	9420

Western Blot Western Blot info was not avaliable

Experiment Status

	BGRSDLV04-55dox	BGRSDLV04-56dox
Sample_ID	BGRSDLV04-55dox	BGRSDLV04-56dox
Sample Name
Sample Name	ZNF22-BGRSDLV04-55dox	ZNF22-BGRSDLV04-56dox
RBP	ZNF22	ZNF22
Cell_Line	DOX-RS293	DOX-RS293
Exp UID
Status	Submitted	Submitted
Status_date	2024-12-03	2024-12-03
Project	ENCORE2	ENCORE2
Note
ID	12672	12673

Library-Prep
Sequencing

Library-Prep Information

	BGRSDLV04-55dox	BGRSDLV04-56dox
Sample #	27	28
Sample Name	ZNF22-BGRSDLV04-55dox	ZNF22-BGRSDLV04-56dox
Sample_Name_Alias
Index Well Position	C04	D04
Index_table	IDT_UniqueDualIndex_96	IDT_UniqueDualIndex_96
LibPrep_date	2023-11-14	2023-11-14
Lib_ID	Lib-231114	Lib-231114
Tecan_Location
Tecan
Tecan_date
Size_bp	293	297
Peak_Molarity	59.10	37.20
libSampleQC_DNA_Well	DNA_Library_set68/set1/C4.png	DNA_Library_set68/set1/D4.png
RIN	9.9	9.9
libSample_RNA_Well	RNA_Library_set68/set1/C4.png	RNA_Library_set68/set1/D4.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2023-11-16	2023-11-16
Sample_ID	BGRSDLV04-55dox	BGRSDLV04-56dox
RBP	ZNF22	ZNF22
Batch_ID	BGRSDLV04	BGRSDLV04
WB_result	0.000	0.000
Library Description	TruSeq mRNA	TruSeq mRNA
Repeat_Library_Suffix
Lib_Status	SendToSequence	SendToSequence
Project	ENCORE2	ENCORE2
ID	4100	4101

Sequencing Information

	BGRSDLV04-55dox	BGRSDLV04-56dox
Sample_ID	BGRSDLV04-55dox	BGRSDLV04-56dox
Sample Name	ZNF22-BGRSDLV04-55dox	ZNF22-BGRSDLV04-56dox
Pool ID	Pool-231116	Pool-231116
LocalServer_folder	set68	set68
total_reads	63,472,217	35,498,526
total_aligned_reads	57,712,571	30,769,984
unique_aligned_reads	54,183,484	28,823,524
percent_uniqueAligned	0.85366	0.81196
correlation_replicates	0.995561	0.995561
spikein_reads	14,018	6,872
percent_spikeins	0.00022	0.00019
original_ReadLength	151	151
QC_Status	Submitted	Submitted
ID	2863	2864

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
ZNF22-BGRSDLV04-55dox_S27_L004_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set68/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2863	NovaSeq6000	100	paired-ended	1				NT-BGRSDLV04-3dox_S3_L004_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGRSDLV04-4dox_S4_L004_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	27675
ZNF22-BGRSDLV04-55dox_S27_L004_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set68/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2863	NovaSeq6000	100	paired-ended	1				NT-BGRSDLV04-3dox_S3_L004_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGRSDLV04-4dox_S4_L004_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	27739
ZNF22-BGRSDLV04-55dox_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set68/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	2863					GRCh38	V40	ZNF22-BGRSDLV04-55dox_S27_L004_R1_001.filtered.trimmed.paired.fastq.gz,ZNF22-BGRSDLV04-55dox_S27_L004_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	27803
ZNF22-BGRSDLV04-55dox_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set68/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	2863					GRCh38	V40	ZNF22-BGRSDLV04-55dox/Aligned.sortedByCoord.out.bam		ENCORE2	27867
ZNF22-BGRSDLV04-55dox_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set68/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	2863					GRCh38	V40	ZNF22-BGRSDLV04-55dox/Aligned.sortedByCoord.out.bam		ENCORE2	27931
ZNF22-BGRSDLV04-55dox_Signal.Unique.strand-.bw	ENCODE_DATA/set68/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	2863					GRCh38	V40	ZNF22-BGRSDLV04-55dox/Aligned.sortedByCoord.out.bam		ENCORE2	27995
ZNF22-BGRSDLV04-55dox_Signal.Unique.strand+.bw	ENCODE_DATA/set68/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	2863					GRCh38	V40	ZNF22-BGRSDLV04-55dox/Aligned.sortedByCoord.out.bam		ENCORE2	28059
ZNF22-BGRSDLV04-55dox_quant.sf	ENCODE_DATA/set68/salmon_ENCORE2	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	2863					GRCh38	V40	ZNF22-BGRSDLV04-55dox_S27_L004_R1_001.filtered.trimmed.paired.fastq.gz,ZNF22-BGRSDLV04-55dox_S27_L004_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	28123
ZNF22-BGRSDLV04-56dox_S28_L004_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set68/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2864	NovaSeq6000	100	paired-ended	1				NT-BGRSDLV04-3dox_S3_L004_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGRSDLV04-4dox_S4_L004_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	27676
ZNF22-BGRSDLV04-56dox_S28_L004_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set68/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2864	NovaSeq6000	100	paired-ended	1				NT-BGRSDLV04-3dox_S3_L004_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGRSDLV04-4dox_S4_L004_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	27740
ZNF22-BGRSDLV04-56dox_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set68/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	2864					GRCh38	V40	ZNF22-BGRSDLV04-56dox_S28_L004_R1_001.filtered.trimmed.paired.fastq.gz,ZNF22-BGRSDLV04-56dox_S28_L004_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	27804
ZNF22-BGRSDLV04-56dox_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set68/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	2864					GRCh38	V40	ZNF22-BGRSDLV04-56dox/Aligned.sortedByCoord.out.bam		ENCORE2	27868
ZNF22-BGRSDLV04-56dox_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set68/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	2864					GRCh38	V40	ZNF22-BGRSDLV04-56dox/Aligned.sortedByCoord.out.bam		ENCORE2	27932
ZNF22-BGRSDLV04-56dox_Signal.Unique.strand-.bw	ENCODE_DATA/set68/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	2864					GRCh38	V40	ZNF22-BGRSDLV04-56dox/Aligned.sortedByCoord.out.bam		ENCORE2	27996
ZNF22-BGRSDLV04-56dox_Signal.Unique.strand+.bw	ENCODE_DATA/set68/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	2864					GRCh38	V40	ZNF22-BGRSDLV04-56dox/Aligned.sortedByCoord.out.bam		ENCORE2	28060
ZNF22-BGRSDLV04-56dox_quant.sf	ENCODE_DATA/set68/salmon_ENCORE2	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	2864					GRCh38	V40	ZNF22-BGRSDLV04-56dox_S28_L004_R1_001.filtered.trimmed.paired.fastq.gz,ZNF22-BGRSDLV04-56dox_S28_L004_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	28124