ZNF22 RNA-Seq in Ribo-STAMP-293T

Experiment Information (Status: Submitted)

	BGRSDLV04-53	BGRSDLV04-54
idx	0	0
TRCN#_or_BGC#	TRCN0000020131	TRCN0000020131
shRNA_or_gRNA_sequence	CCGGTGGATGACAAACCCTATAAATCTCGAGATTTATAGGGTTTGTCATCCATTTTT	CCGGTGGATGACAAACCCTATAAATCTCGAGATTTATAGGGTTTGTCATCCATTTTT
PAM
Name	ZNF22	ZNF22
Sample_ID	BGRSDLV04-53	BGRSDLV04-54
transduction_Date	10/16/23	10/16/23
days	4 days	4 days
RBP_name	ZNF22	ZNF22
qPCR_result	63.01701	58.33713
Ave_qPCR	60.67707
RT-qPCR_primer-F	tgagaacaagcgcaaaacag
RT-qPCR_primer-R	gggtttgtcatccaagcttct
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	9417	9418

Western Blot Western Blot info was not avaliable

Experiment Status

	BGRSDLV04-53	BGRSDLV04-54
Sample_ID	BGRSDLV04-53	BGRSDLV04-54
Sample Name
Sample Name	ZNF22-BGRSDLV04-53	ZNF22-BGRSDLV04-54
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	12670	12671

Library-Prep
Sequencing

Library-Prep Information

	BGRSDLV04-53	BGRSDLV04-54
Sample #	25	26
Sample Name	ZNF22-BGRSDLV04-53	ZNF22-BGRSDLV04-54
Sample_Name_Alias
Index Well Position	A04	B04
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	294	294
Peak_Molarity	81.90	48.10
libSampleQC_DNA_Well	DNA_Library_set68/set1/A4.png	DNA_Library_set68/set1/B4.png
RIN	9.8	9.8
libSample_RNA_Well	RNA_Library_set68/set1/A4.png	RNA_Library_set68/set1/B4.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2023-11-16	2023-11-16
Sample_ID	BGRSDLV04-53	BGRSDLV04-54
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	4098	4099

Sequencing Information

	BGRSDLV04-53	BGRSDLV04-54
Sample_ID	BGRSDLV04-53	BGRSDLV04-54
Sample Name	ZNF22-BGRSDLV04-53	ZNF22-BGRSDLV04-54
Pool ID	Pool-231116	Pool-231116
LocalServer_folder	set68	set68
total_reads	55,024,886	29,917,850
total_aligned_reads	47,908,989	25,886,936
unique_aligned_reads	44,965,091	24,300,616
percent_uniqueAligned	0.81718	0.81224
correlation_replicates	0.994875	0.994875
spikein_reads	18,672	8,606
percent_spikeins	0.00034	0.00029
original_ReadLength	151	151
QC_Status	Submitted	Submitted
ID	2861	2862

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-BGRSDLV04-53_S25_L004_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set68/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2861	NovaSeq6000	100	paired-ended	1				NT-BGRSDLV04-1_S1_L004_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGRSDLV04-2_S2_L004_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	27673
ZNF22-BGRSDLV04-53_S25_L004_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set68/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2861	NovaSeq6000	100	paired-ended	1				NT-BGRSDLV04-1_S1_L004_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGRSDLV04-2_S2_L004_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	27737
ZNF22-BGRSDLV04-53_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set68/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	2861					GRCh38	V40	ZNF22-BGRSDLV04-53_S25_L004_R1_001.filtered.trimmed.paired.fastq.gz,ZNF22-BGRSDLV04-53_S25_L004_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	27801
ZNF22-BGRSDLV04-53_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	2861					GRCh38	V40	ZNF22-BGRSDLV04-53/Aligned.sortedByCoord.out.bam		ENCORE2	27865
ZNF22-BGRSDLV04-53_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	2861					GRCh38	V40	ZNF22-BGRSDLV04-53/Aligned.sortedByCoord.out.bam		ENCORE2	27929
ZNF22-BGRSDLV04-53_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	2861					GRCh38	V40	ZNF22-BGRSDLV04-53/Aligned.sortedByCoord.out.bam		ENCORE2	27993
ZNF22-BGRSDLV04-53_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	2861					GRCh38	V40	ZNF22-BGRSDLV04-53/Aligned.sortedByCoord.out.bam		ENCORE2	28057
ZNF22-BGRSDLV04-53_quant.sf	ENCODE_DATA/set68/salmon_ENCORE2	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	2861					GRCh38	V40	ZNF22-BGRSDLV04-53_S25_L004_R1_001.filtered.trimmed.paired.fastq.gz,ZNF22-BGRSDLV04-53_S25_L004_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	28121
ZNF22-BGRSDLV04-54_S26_L004_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set68/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2862	NovaSeq6000	100	paired-ended	1				NT-BGRSDLV04-1_S1_L004_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGRSDLV04-2_S2_L004_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	27674
ZNF22-BGRSDLV04-54_S26_L004_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set68/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2862	NovaSeq6000	100	paired-ended	1				NT-BGRSDLV04-1_S1_L004_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGRSDLV04-2_S2_L004_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	27738
ZNF22-BGRSDLV04-54_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set68/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	2862					GRCh38	V40	ZNF22-BGRSDLV04-54_S26_L004_R1_001.filtered.trimmed.paired.fastq.gz,ZNF22-BGRSDLV04-54_S26_L004_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	27802
ZNF22-BGRSDLV04-54_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	2862					GRCh38	V40	ZNF22-BGRSDLV04-54/Aligned.sortedByCoord.out.bam		ENCORE2	27866
ZNF22-BGRSDLV04-54_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	2862					GRCh38	V40	ZNF22-BGRSDLV04-54/Aligned.sortedByCoord.out.bam		ENCORE2	27930
ZNF22-BGRSDLV04-54_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	2862					GRCh38	V40	ZNF22-BGRSDLV04-54/Aligned.sortedByCoord.out.bam		ENCORE2	27994
ZNF22-BGRSDLV04-54_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	2862					GRCh38	V40	ZNF22-BGRSDLV04-54/Aligned.sortedByCoord.out.bam		ENCORE2	28058
ZNF22-BGRSDLV04-54_quant.sf	ENCODE_DATA/set68/salmon_ENCORE2	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	2862					GRCh38	V40	ZNF22-BGRSDLV04-54_S26_L004_R1_001.filtered.trimmed.paired.fastq.gz,ZNF22-BGRSDLV04-54_S26_L004_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	28122