ZFP37 RNA-Seq in Ribo-STAMP-293T

Experiment Information (Status: Submitted)

	BGRSLV02-37	BGRSLV02-38
idx	0	0
TRCN#_or_BGC#	TRCN0000020170	TRCN0000020170
shRNA_or_gRNA_sequence	CCGGGCTGTCATAGTTCATCCCATACTCGAGTATGGGATGAACTATGACAGCTTTTT	CCGGGCTGTCATAGTTCATCCCATACTCGAGTATGGGATGAACTATGACAGCTTTTT
PAM
Name	ZFP37	ZFP37
Sample_ID	BGRSLV02-37	BGRSLV02-38
transduction_Date	12/5/22	12/5/22
days	D4	D4
RBP_name	ZFP37	ZFP37
qPCR_result	56.1	50.4
Ave_qPCR	53.2
RT-qPCR_primer-F	AGTGCGGAAACGACCAAAGAGG
RT-qPCR_primer-R	CCATTGAGGCTTGGTTGCAGTAG
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	8274	8275

Western Blot Western Blot info was not avaliable

Experiment Status

	BGRSLV02-37	BGRSLV02-38
Sample_ID	BGRSLV02-37	BGRSLV02-38
Sample Name
Sample Name	ZFP37-BGRSLV02-37	ZFP37-BGRSLV02-38
RBP	ZFP37	ZFP37
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	11324	11325

Library-Prep
Sequencing

Library-Prep Information

	BGRSLV02-37	BGRSLV02-38
Sample #	27	28
Sample Name	ZFP37-BGRSLV02-37	ZFP37-BGRSLV02-38
Sample_Name_Alias
Index Well Position	C04	D04
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	301	300
Peak_Molarity	54.10	58.30
libSampleQC_DNA_Well	DNA_Library_set57/set1/C10.png	DNA_Library_set57/set1/D10.png
RIN	9.9	9.9
libSample_RNA_Well	RNA_Library_set57/set1/C4.png	RNA_Library_set57/set1/D4.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2023-02-07	2023-02-07
Sample_ID	BGRSLV02-37	BGRSLV02-38
RBP	ZFP37	ZFP37
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	3488	3489

Sequencing Information

	BGRSLV02-37	BGRSLV02-38
Sample_ID	BGRSLV02-37	BGRSLV02-38
Sample Name	ZFP37-BGRSLV02-37	ZFP37-BGRSLV02-38
Pool ID	Pool-230207	Pool-230207
LocalServer_folder	set57	set57
total_reads	62,163,030	49,944,248
total_aligned_reads	57,768,460	46,531,284
unique_aligned_reads	53,917,228	43,479,088
percent_uniqueAligned	0.86735	0.87055
correlation_replicates	0.993710	0.993710
spikein_reads	31,288	27,196
percent_spikeins	0.00050	0.00054
original_ReadLength	101	101
QC_Status	Submitted	Submitted
ID	2359	2360

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
ZFP37-BGRSLV02-37_S115_L003_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set57/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2359	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	8244
ZFP37-BGRSLV02-37_S115_L003_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set57/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2359	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	8290
ZFP37-BGRSLV02-37_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set57/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	2359					GRCh38	V40	ZFP37-BGRSLV02-37_S115_L003_R1_001.filtered.trimmed.paired.fastq.gz,ZFP37-BGRSLV02-37_S115_L003_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	11533
ZFP37-BGRSLV02-37_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	2359					GRCh38	V40	ZFP37-BGRSLV02-37/Aligned.sortedByCoord.out.bam		ENCORE2	11579
ZFP37-BGRSLV02-37_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	2359					GRCh38	V40	ZFP37-BGRSLV02-37/Aligned.sortedByCoord.out.bam		ENCORE2	11625
ZFP37-BGRSLV02-37_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	2359					GRCh38	V40	ZFP37-BGRSLV02-37/Aligned.sortedByCoord.out.bam		ENCORE2	11671
ZFP37-BGRSLV02-37_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	2359					GRCh38	V40	ZFP37-BGRSLV02-37/Aligned.sortedByCoord.out.bam		ENCORE2	11717
ZFP37-BGRSLV02-37_quant.sf	ENCODE_DATA/set57/salmon_ENCORE2	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	2359					GRCh38	V40	ZFP37-BGRSLV02-37_S115_L003_R1_001.filtered.trimmed.paired.fastq.gz,ZFP37-BGRSLV02-37_S115_L003_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	11763
ZFP37-BGRSLV02-38_S116_L003_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set57/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2360	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	8245
ZFP37-BGRSLV02-38_S116_L003_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set57/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2360	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	8291
ZFP37-BGRSLV02-38_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set57/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	2360					GRCh38	V40	ZFP37-BGRSLV02-38_S116_L003_R1_001.filtered.trimmed.paired.fastq.gz,ZFP37-BGRSLV02-38_S116_L003_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	11534
ZFP37-BGRSLV02-38_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	2360					GRCh38	V40	ZFP37-BGRSLV02-38/Aligned.sortedByCoord.out.bam		ENCORE2	11580
ZFP37-BGRSLV02-38_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	2360					GRCh38	V40	ZFP37-BGRSLV02-38/Aligned.sortedByCoord.out.bam		ENCORE2	11626
ZFP37-BGRSLV02-38_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	2360					GRCh38	V40	ZFP37-BGRSLV02-38/Aligned.sortedByCoord.out.bam		ENCORE2	11672
ZFP37-BGRSLV02-38_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	2360					GRCh38	V40	ZFP37-BGRSLV02-38/Aligned.sortedByCoord.out.bam		ENCORE2	11718
ZFP37-BGRSLV02-38_quant.sf	ENCODE_DATA/set57/salmon_ENCORE2	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	2360					GRCh38	V40	ZFP37-BGRSLV02-38_S116_L003_R1_001.filtered.trimmed.paired.fastq.gz,ZFP37-BGRSLV02-38_S116_L003_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	11764