ARIH1 RNA-Seq in Ribo-STAMP-293T

Experiment Information (Status: Submitted)

	BGRSLV07-5	BGRSLV07-6
idx	0	0
TRCN#_or_BGC#	TRCN0000007502	TRCN0000007502
shRNA_or_gRNA_sequence	CCGGGCTACCTTGAACGAGATATTTCTCGAGAAATATCTCGTTCAAGGTAGCTTTTT	CCGGGCTACCTTGAACGAGATATTTCTCGAGAAATATCTCGTTCAAGGTAGCTTTTT
PAM
Name	ARIH1	ARIH1
Sample_ID	BGRSLV07-5	BGRSLV07-6
transduction_Date	4/10/23	4/10/23
days	D4	D4
RBP_name	ARIH1	ARIH1
qPCR_result	74.0	71.6
Ave_qPCR	72.8
RT-qPCR_primer-F	tgtatgcagtgctggagtga
RT-qPCR_primer-R	cacaaccatgagcaggacac
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	8587	8588

Western Blot Western Blot info was not avaliable

Experiment Status

	BGRSLV07-5	BGRSLV07-6
Sample_ID	BGRSLV07-5	BGRSLV07-6
Sample Name
Sample Name	ARIH1-BGRSLV07-5	ARIH1-BGRSLV07-6
RBP	ARIH1	ARIH1
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	11838	11839

Library-Prep
Sequencing

Library-Prep Information

	BGRSLV07-5	BGRSLV07-6
Sample #	19	20
Sample Name	ARIH1-BGRSLV07-5	ARIH1-BGRSLV07-6
Sample_Name_Alias
Index Well Position	C03	D03
Index_table	IDT_UniqueDualIndex_96	IDT_UniqueDualIndex_96
LibPrep_date	2023-05-02	2023-05-02
Lib_ID	Lib-230502	Lib-230502
Tecan_Location
Tecan
Tecan_date
Size_bp	298	294
Peak_Molarity	85.80	77.30
libSampleQC_DNA_Well	DNA_Library_set60-62/set4/C3.png	DNA_Library_set60-62/set4/D3.png
RIN	9.9	10.0
libSample_RNA_Well	RNA_Library_set60-62/set2/C3.png	RNA_Library_set60-62/set2/D3.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2023-05-04	2023-05-04
Sample_ID	BGRSLV07-5	BGRSLV07-6
RBP	ARIH1	ARIH1
Batch_ID	BGRSLV07	BGRSLV07
WB_result	0.000	0.000
Library Description	TruSeq mRNA	TruSeq mRNA
Repeat_Library_Suffix
Lib_Status	SendToSequence	SendToSequence
Project	ENCORE2	ENCORE2
ID	3702	3703

Sequencing Information

	BGRSLV07-5	BGRSLV07-6
Sample_ID	BGRSLV07-5	BGRSLV07-6
Sample Name	ARIH1-BGRSLV07-5	ARIH1-BGRSLV07-6
Pool ID	Pool-230504	Pool-230504
LocalServer_folder	set62_R	set62_R
total_reads	27,256,425	25,962,563
total_aligned_reads	22,783,544	22,354,540
unique_aligned_reads	21,418,766	21,029,931
percent_uniqueAligned	0.78582	0.81001
correlation_replicates	0.999197	0.999197
spikein_reads	42,538	24,618
percent_spikeins	0.00156	0.00095
original_ReadLength	101	101
QC_Status	Submitted	Submitted
ID	2573	2574

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
ARIH1-BGRSLV07-5_S19_L003_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set62_R/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2573	NovaSeq6000	100	paired-ended	1				NT-BGRSLV07-1_S17_L003_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGRSLV07-2_S18_L003_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	7874
ARIH1-BGRSLV07-5_S19_L003_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set62_R/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2573	NovaSeq6000	100	paired-ended	2				NT-BGRSLV07-1_S17_L003_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGRSLV07-2_S18_L003_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	7918
ARIH1-BGRSLV07-5_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set62_R/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	2573					GRCh38	V40	ARIH1-BGRSLV07-5_S19_L003_R1_001.filtered.trimmed.paired.fastq.gz,ARIH1-BGRSLV07-5_S19_L003_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	10179
ARIH1-BGRSLV07-5_Signal.Unique.strand+.bw	ENCODE_DATA/set62_R/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	2573					GRCh38	V40	ARIH1-BGRSLV07-5/Aligned.sortedByCoord.out.bam		ENCORE2	10223
ARIH1-BGRSLV07-5_Signal.Unique.strand-.bw	ENCODE_DATA/set62_R/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	2573					GRCh38	V40	ARIH1-BGRSLV07-5/Aligned.sortedByCoord.out.bam		ENCORE2	10267
ARIH1-BGRSLV07-5_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set62_R/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	2573					GRCh38	V40	ARIH1-BGRSLV07-5/Aligned.sortedByCoord.out.bam		ENCORE2	10311
ARIH1-BGRSLV07-5_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set62_R/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	2573					GRCh38	V40	ARIH1-BGRSLV07-5/Aligned.sortedByCoord.out.bam		ENCORE2	10355
ARIH1-BGRSLV07-5_quant.sf	ENCODE_DATA/set62_R/salmon_ENCORE2	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	2573					GRCh38	V40	ARIH1-BGRSLV07-5_S19_L003_R1_001.filtered.trimmed.paired.fastq.gz,ARIH1-BGRSLV07-5_S19_L003_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	10399
ARIH1-BGRSLV07-6_S20_L003_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set62_R/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2574	NovaSeq6000	100	paired-ended	1				NT-BGRSLV07-1_S17_L003_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGRSLV07-2_S18_L003_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	7875
ARIH1-BGRSLV07-6_S20_L003_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set62_R/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2574	NovaSeq6000	100	paired-ended	2				NT-BGRSLV07-1_S17_L003_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGRSLV07-2_S18_L003_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	7919
ARIH1-BGRSLV07-6_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set62_R/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	2574					GRCh38	V40	ARIH1-BGRSLV07-6_S20_L003_R1_001.filtered.trimmed.paired.fastq.gz,ARIH1-BGRSLV07-6_S20_L003_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	10180
ARIH1-BGRSLV07-6_Signal.Unique.strand+.bw	ENCODE_DATA/set62_R/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	2574					GRCh38	V40	ARIH1-BGRSLV07-6/Aligned.sortedByCoord.out.bam		ENCORE2	10224
ARIH1-BGRSLV07-6_Signal.Unique.strand-.bw	ENCODE_DATA/set62_R/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	2574					GRCh38	V40	ARIH1-BGRSLV07-6/Aligned.sortedByCoord.out.bam		ENCORE2	10268
ARIH1-BGRSLV07-6_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set62_R/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	2574					GRCh38	V40	ARIH1-BGRSLV07-6/Aligned.sortedByCoord.out.bam		ENCORE2	10312
ARIH1-BGRSLV07-6_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set62_R/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	2574					GRCh38	V40	ARIH1-BGRSLV07-6/Aligned.sortedByCoord.out.bam		ENCORE2	10356
ARIH1-BGRSLV07-6_quant.sf	ENCODE_DATA/set62_R/salmon_ENCORE2	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	2574					GRCh38	V40	ARIH1-BGRSLV07-6_S20_L003_R1_001.filtered.trimmed.paired.fastq.gz,ARIH1-BGRSLV07-6_S20_L003_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	10400