ZFP36L1 RNA-Seq in Ribo-STAMP-293T

Experiment Information (Status: Submitted)

	BGRSLV03-51	BGRSLV03-52
idx	0	0
TRCN#_or_BGC#	TRCN0000329762	TRCN0000329762
shRNA_or_gRNA_sequence	CCGGGGGTTGCCTGCTGGACAGAAACTCGAGTTTCTGTCCAGCAGGCAACCCTTTTTG	CCGGGGGTTGCCTGCTGGACAGAAACTCGAGTTTCTGTCCAGCAGGCAACCCTTTTTG
PAM
Name	ZFP36L1	ZFP36L1
Sample_ID	BGRSLV03-51	BGRSLV03-52
transduction_Date	1/30/23	1/30/23
days	D4	D4
RBP_name	ZFP36L1	ZFP36L1
qPCR_result	68.3	59.4
Ave_qPCR	63.8
RT-qPCR_primer-F	taacccttttgccttctcca
RT-qPCR_primer-R	caaacatgtgaggggactcg
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	8361	8362

Western Blot Western Blot info was not avaliable

Experiment Status

	BGRSLV03-51	BGRSLV03-52
Sample_ID	BGRSLV03-51	BGRSLV03-52
Sample Name
Sample Name	ZFP36L1-BGRSLV03-51	ZFP36L1-BGRSLV03-52
RBP	ZFP36L1	ZFP36L1
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	11398	11399

Library-Prep
Sequencing

Library-Prep Information

	BGRSLV03-51	BGRSLV03-52
Sample #	29	30
Sample Name	ZFP36L1-BGRSLV03-51	ZFP36L1-BGRSLV03-52
Sample_Name_Alias
Index Well Position	E10	F10
Index_table	IDT_UniqueDualIndex_96	IDT_UniqueDualIndex_96
LibPrep_date	2023-02-15	2023-02-15
Lib_ID	Lib-230215	Lib-230215
Tecan_Location
Tecan
Tecan_date
Size_bp	294	306
Peak_Molarity	96.00	87.40
libSampleQC_DNA_Well	DNA_Library_set58/set1/E10.png	DNA_Library_set58/set1/F10.png
RIN	9.9	9.9
libSample_RNA_Well	RNA_Library_set58/set1/E4.png	RNA_Library_set58/set1/F4.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2023-02-17	2023-02-17
Sample_ID	BGRSLV03-51	BGRSLV03-52
RBP	ZFP36L1	ZFP36L1
Batch_ID	BGRSLV03	BGRSLV03
WB_result	0.000	0.000
Library Description	TruSeq mRNA	TruSeq mRNA
Repeat_Library_Suffix
Lib_Status	SendToSequence	SendToSequence
Project	ENCORE2	ENCORE2
ID	3536	3537

Sequencing Information

	BGRSLV03-51	BGRSLV03-52
Sample_ID	BGRSLV03-51	BGRSLV03-52
Sample Name	ZFP36L1-BGRSLV03-51	ZFP36L1-BGRSLV03-52
Pool ID	Pool-230217	Pool-230217
LocalServer_folder	set58	set58
total_reads	43,008,754	52,356,031
total_aligned_reads	38,653,962	47,285,726
unique_aligned_reads	36,053,287	44,171,140
percent_uniqueAligned	0.83828	0.84367
correlation_replicates	0.998677	0.998677
spikein_reads	253,122	314,072
percent_spikeins	0.00589	0.00600
original_ReadLength	101	101
QC_Status	Submitted	Submitted
ID	2407	2408

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
ZFP36L1-BGRSLV03-51_S163_L004_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set58/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2407	NovaSeq6000	100	paired-ended	1				NT-BGRSLV03-1_S135_L004_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGRSLV03-2_S136_L004_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	8154
ZFP36L1-BGRSLV03-51_S163_L004_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set58/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2407	NovaSeq6000	100	paired-ended	2				NT-BGRSLV03-1_S135_L004_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGRSLV03-2_S136_L004_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	8196
ZFP36L1-BGRSLV03-51_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set58/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	2407					GRCh38	V40	ZFP36L1-BGRSLV03-51_S163_L004_R1_001.filtered.trimmed.paired.fastq.gz,ZFP36L1-BGRSLV03-51_S163_L004_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	11275
ZFP36L1-BGRSLV03-51_Signal.Unique.strand+.bw	ENCODE_DATA/set58/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	2407					GRCh38	V40	ZFP36L1-BGRSLV03-51/Aligned.sortedByCoord.out.bam		ENCORE2	11317
ZFP36L1-BGRSLV03-51_Signal.Unique.strand-.bw	ENCODE_DATA/set58/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	2407					GRCh38	V40	ZFP36L1-BGRSLV03-51/Aligned.sortedByCoord.out.bam		ENCORE2	11359
ZFP36L1-BGRSLV03-51_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set58/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	2407					GRCh38	V40	ZFP36L1-BGRSLV03-51/Aligned.sortedByCoord.out.bam		ENCORE2	11401
ZFP36L1-BGRSLV03-51_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set58/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	2407					GRCh38	V40	ZFP36L1-BGRSLV03-51/Aligned.sortedByCoord.out.bam		ENCORE2	11443
ZFP36L1-BGRSLV03-51_quant.sf	ENCODE_DATA/set58/salmon_ENCORE2	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	2407					GRCh38	V40	ZFP36L1-BGRSLV03-51_S163_L004_R1_001.filtered.trimmed.paired.fastq.gz,ZFP36L1-BGRSLV03-51_S163_L004_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	11485
ZFP36L1-BGRSLV03-52_S164_L004_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set58/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2408	NovaSeq6000	100	paired-ended	1				NT-BGRSLV03-1_S135_L004_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGRSLV03-2_S136_L004_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	8155
ZFP36L1-BGRSLV03-52_S164_L004_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set58/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2408	NovaSeq6000	100	paired-ended	2				NT-BGRSLV03-1_S135_L004_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGRSLV03-2_S136_L004_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	8197
ZFP36L1-BGRSLV03-52_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set58/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	2408					GRCh38	V40	ZFP36L1-BGRSLV03-52_S164_L004_R1_001.filtered.trimmed.paired.fastq.gz,ZFP36L1-BGRSLV03-52_S164_L004_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	11276
ZFP36L1-BGRSLV03-52_Signal.Unique.strand+.bw	ENCODE_DATA/set58/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	2408					GRCh38	V40	ZFP36L1-BGRSLV03-52/Aligned.sortedByCoord.out.bam		ENCORE2	11318
ZFP36L1-BGRSLV03-52_Signal.Unique.strand-.bw	ENCODE_DATA/set58/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	2408					GRCh38	V40	ZFP36L1-BGRSLV03-52/Aligned.sortedByCoord.out.bam		ENCORE2	11360
ZFP36L1-BGRSLV03-52_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set58/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	2408					GRCh38	V40	ZFP36L1-BGRSLV03-52/Aligned.sortedByCoord.out.bam		ENCORE2	11402
ZFP36L1-BGRSLV03-52_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set58/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	2408					GRCh38	V40	ZFP36L1-BGRSLV03-52/Aligned.sortedByCoord.out.bam		ENCORE2	11444
ZFP36L1-BGRSLV03-52_quant.sf	ENCODE_DATA/set58/salmon_ENCORE2	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	2408					GRCh38	V40	ZFP36L1-BGRSLV03-52_S164_L004_R1_001.filtered.trimmed.paired.fastq.gz,ZFP36L1-BGRSLV03-52_S164_L004_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	11486