ZNF22 RNA-Seq in Ribo-STAMP-293T

Experiment Information (Status: Submitted)

	BGRSLV02-35	BGRSLV02-36
idx	0	0
TRCN#_or_BGC#	TRCN0000020131	TRCN0000020131
shRNA_or_gRNA_sequence	CCGGTGGATGACAAACCCTATAAATCTCGAGATTTATAGGGTTTGTCATCCATTTTT	CCGGTGGATGACAAACCCTATAAATCTCGAGATTTATAGGGTTTGTCATCCATTTTT
PAM
Name	ZNF22	ZNF22
Sample_ID	BGRSLV02-35	BGRSLV02-36
transduction_Date	12/5/22	12/5/22
days	D4	D4
RBP_name	ZNF22	ZNF22
qPCR_result	54.8	57.4
Ave_qPCR	56.1
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	8272	8273

Western Blot Western Blot info was not avaliable

Experiment Status

	BGRSLV02-35	BGRSLV02-36
Sample_ID	BGRSLV02-35	BGRSLV02-36
Sample Name
Sample Name	ZNF22-BGRSLV02-35	ZNF22-BGRSLV02-36
RBP	ZNF22	ZNF22
Cell_Line	Ribo-STAMP-293T	Ribo-STAMP-293T
Exp UID
Status	Submitted	Submitted
Status_date	2024-12-03	2024-12-03
Project	ENCORE2	ENCORE2
Note
ID	11322	11323

Library-Prep
Sequencing

Library-Prep Information

	BGRSLV02-35	BGRSLV02-36
Sample #	25	26
Sample Name	ZNF22-BGRSLV02-35	ZNF22-BGRSLV02-36
Sample_Name_Alias
Index Well Position	A04	B04
Index_table	IDT_UniqueDualIndex_96	IDT_UniqueDualIndex_96
LibPrep_date	2023-02-07	2023-02-07
Lib_ID	Lib-230207	Lib-230207
Tecan_Location
Tecan
Tecan_date
Size_bp	295	300
Peak_Molarity	40.20	56.20
libSampleQC_DNA_Well	DNA_Library_set57/set1/A10.png	DNA_Library_set57/set1/B10.png
RIN	9.7	9.8
libSample_RNA_Well	RNA_Library_set57/set1/A4.png	RNA_Library_set57/set1/B4.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2023-02-07	2023-02-07
Sample_ID	BGRSLV02-35	BGRSLV02-36
RBP	ZNF22	ZNF22
Batch_ID	BGRSLV02	BGRSLV02
WB_result	0.000	0.000
Library Description	TruSeq mRNA	TruSeq mRNA
Repeat_Library_Suffix
Lib_Status	SendToSequence	SendToSequence
Project	ENCORE2	ENCORE2
ID	3486	3487

Sequencing Information

	BGRSLV02-35	BGRSLV02-36
Sample_ID	BGRSLV02-35	BGRSLV02-36
Sample Name	ZNF22-BGRSLV02-35	ZNF22-BGRSLV02-36
Pool ID	Pool-230207	Pool-230207
LocalServer_folder	set57	set57
total_reads	57,834,767	38,642,717
total_aligned_reads	54,310,911	36,227,982
unique_aligned_reads	51,041,929	33,904,592
percent_uniqueAligned	0.88255	0.87739
correlation_replicates	0.996959	0.996959
spikein_reads	44,396	23,586
percent_spikeins	0.00077	0.00061
original_ReadLength	101	101
QC_Status	Submitted	Submitted
ID	2357	2358

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-BGRSLV02-35_S113_L003_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set57/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2357	NovaSeq6000	100	paired-ended	1				NT-BGRSLV02-1_S89_L003_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGRSLV02-2_S90_L003_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	8248
ZNF22-BGRSLV02-35_S113_L003_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set57/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2357	NovaSeq6000	100	paired-ended	2				NT-BGRSLV02-1_S89_L003_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGRSLV02-2_S90_L003_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	8294
ZNF22-BGRSLV02-35_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set57/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	2357					GRCh38	V40	ZNF22-BGRSLV02-35_S113_L003_R1_001.filtered.trimmed.paired.fastq.gz,ZNF22-BGRSLV02-35_S113_L003_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	11537
ZNF22-BGRSLV02-35_Signal.Unique.strand+.bw	ENCODE_DATA/set57/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	2357					GRCh38	V40	ZNF22-BGRSLV02-35/Aligned.sortedByCoord.out.bam		ENCORE2	11583
ZNF22-BGRSLV02-35_Signal.Unique.strand-.bw	ENCODE_DATA/set57/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	2357					GRCh38	V40	ZNF22-BGRSLV02-35/Aligned.sortedByCoord.out.bam		ENCORE2	11629
ZNF22-BGRSLV02-35_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set57/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	2357					GRCh38	V40	ZNF22-BGRSLV02-35/Aligned.sortedByCoord.out.bam		ENCORE2	11675
ZNF22-BGRSLV02-35_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set57/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	2357					GRCh38	V40	ZNF22-BGRSLV02-35/Aligned.sortedByCoord.out.bam		ENCORE2	11721
ZNF22-BGRSLV02-35_quant.sf	ENCODE_DATA/set57/salmon_ENCORE2	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	2357					GRCh38	V40	ZNF22-BGRSLV02-35_S113_L003_R1_001.filtered.trimmed.paired.fastq.gz,ZNF22-BGRSLV02-35_S113_L003_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	11767
ZNF22-BGRSLV02-36_S114_L003_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set57/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2358	NovaSeq6000	100	paired-ended	1				NT-BGRSLV02-1_S89_L003_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGRSLV02-2_S90_L003_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	8249
ZNF22-BGRSLV02-36_S114_L003_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set57/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2358	NovaSeq6000	100	paired-ended	2				NT-BGRSLV02-1_S89_L003_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGRSLV02-2_S90_L003_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	8295
ZNF22-BGRSLV02-36_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set57/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	2358					GRCh38	V40	ZNF22-BGRSLV02-36_S114_L003_R1_001.filtered.trimmed.paired.fastq.gz,ZNF22-BGRSLV02-36_S114_L003_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	11538
ZNF22-BGRSLV02-36_Signal.Unique.strand+.bw	ENCODE_DATA/set57/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	2358					GRCh38	V40	ZNF22-BGRSLV02-36/Aligned.sortedByCoord.out.bam		ENCORE2	11584
ZNF22-BGRSLV02-36_Signal.Unique.strand-.bw	ENCODE_DATA/set57/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	2358					GRCh38	V40	ZNF22-BGRSLV02-36/Aligned.sortedByCoord.out.bam		ENCORE2	11630
ZNF22-BGRSLV02-36_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set57/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	2358					GRCh38	V40	ZNF22-BGRSLV02-36/Aligned.sortedByCoord.out.bam		ENCORE2	11676
ZNF22-BGRSLV02-36_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set57/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	2358					GRCh38	V40	ZNF22-BGRSLV02-36/Aligned.sortedByCoord.out.bam		ENCORE2	11722
ZNF22-BGRSLV02-36_quant.sf	ENCODE_DATA/set57/salmon_ENCORE2	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	2358					GRCh38	V40	ZNF22-BGRSLV02-36_S114_L003_R1_001.filtered.trimmed.paired.fastq.gz,ZNF22-BGRSLV02-36_S114_L003_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	11768