RNF150 RNA-Seq in Ribo-STAMP-293T

Experiment Information (Status: Submitted)

	BGRSLV05-7	BGRSLV05-8
idx	0	0
TRCN#_or_BGC#	TRCN0000118552	TRCN0000118552
shRNA_or_gRNA_sequence	CCGGCCACTCTCTATGTGTGGGAAACTCGAGTTTCCCACACATAGAGAGTGGTTTTTG	CCGGCCACTCTCTATGTGTGGGAAACTCGAGTTTCCCACACATAGAGAGTGGTTTTTG
PAM
Name	RNF150	RNF150
Sample_ID	BGRSLV05-7	BGRSLV05-8
transduction_Date	3/2/23	3/2/23
days	D4	D4
RBP_name	RNF150	RNF150
qPCR_result	51.2	54.3
Ave_qPCR	52.7
RT-qPCR_primer-F	tacctgtcccatgtgcaaga
RT-qPCR_primer-R	cacctgtgatctggttggtg
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	8460	8461

Western Blot Western Blot info was not avaliable

Experiment Status

	BGRSLV05-7	BGRSLV05-8
Sample_ID	BGRSLV05-7	BGRSLV05-8
Sample Name
Sample Name	RNF150-BGRSLV05-7	RNF150-BGRSLV05-8
RBP	RNF150	RNF150
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	11614	11615

Library-Prep
Sequencing

Library-Prep Information

	BGRSLV05-7	BGRSLV05-8
Sample #	47	48
Sample Name	RNF150-BGRSLV05-7	RNF150-BGRSLV05-8
Sample_Name_Alias
Index Well Position	G06	H06
Index_table	IDT_UniqueDualIndex_96	IDT_UniqueDualIndex_96
LibPrep_date	2023-04-12	2023-04-12
Lib_ID	Lib-230412B	Lib-230412B
Tecan_Location
Tecan
Tecan_date
Size_bp	289	291
Peak_Molarity	80.40	103.00
libSampleQC_DNA_Well	DNA_Library_set60-62/set1/C7.png	DNA_Library_set60-62/set1/D7.png
RIN	9.7	9.8
libSample_RNA_Well	RNA_Library_set60-62/set1/G6.png	RNA_Library_set60-62/set1/H6.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2023-04-17	2023-04-17
Sample_ID	BGRSLV05-7	BGRSLV05-8
RBP	RNF150	RNF150
Batch_ID	BGRSLV05	BGRSLV05
WB_result	0.000	0.000
Library Description	TruSeq mRNA	TruSeq mRNA
Repeat_Library_Suffix
Lib_Status	SendToSequence	SendToSequence
Project	ENCORE2	ENCORE2
ID	3634	3635

Sequencing Information

	BGRSLV05-7	BGRSLV05-8
Sample_ID	BGRSLV05-7	BGRSLV05-8
Sample Name	RNF150-BGRSLV05-7	RNF150-BGRSLV05-8
Pool ID	Pool-230417B	Pool-230417B
LocalServer_folder	set61	set61
total_reads	40,056,306	22,259,843
total_aligned_reads	35,619,994	18,395,201
unique_aligned_reads	33,180,140	17,128,013
percent_uniqueAligned	0.82834	0.76946
correlation_replicates	0.996544	0.996544
spikein_reads	10,242	54,502
percent_spikeins	0.00026	0.00245
original_ReadLength	101	101
QC_Status	Submitted	Submitted
ID	2505	2506

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
RNF150-BGRSLV05-7_S47_L002_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set61/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2505	NovaSeq6000	100	paired-ended	1				NT-BGRSLV05-1_S45_L002_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGRSLV05-2_S46_L002_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	8594
RNF150-BGRSLV05-7_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set61/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	2505					GRCh38	V40	RNF150-BGRSLV05-7_S47_L002_R1_001.filtered.trimmed.paired.fastq.gz,RNF150-BGRSLV05-7_S47_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	10459
RNF150-BGRSLV05-7_Signal.Unique.strand+.bw	ENCODE_DATA/set61/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	2505					GRCh38	V40	RNF150-BGRSLV05-7/Aligned.sortedByCoord.out.bam		ENCORE2	10511
RNF150-BGRSLV05-7_Signal.Unique.strand-.bw	ENCODE_DATA/set61/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	2505					GRCh38	V40	RNF150-BGRSLV05-7/Aligned.sortedByCoord.out.bam		ENCORE2	10563
RNF150-BGRSLV05-7_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set61/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	2505					GRCh38	V40	RNF150-BGRSLV05-7/Aligned.sortedByCoord.out.bam		ENCORE2	10615
RNF150-BGRSLV05-7_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set61/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	2505					GRCh38	V40	RNF150-BGRSLV05-7/Aligned.sortedByCoord.out.bam		ENCORE2	10667
RNF150-BGRSLV05-7_quant.sf	ENCODE_DATA/set61/salmon_ENCORE2	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	2505					GRCh38	V40	RNF150-BGRSLV05-7_S47_L002_R1_001.filtered.trimmed.paired.fastq.gz,RNF150-BGRSLV05-7_S47_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	10719
RNF150-BGRSLV05-7_S47_L002_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set61/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2505	NovaSeq6000	100	paired-ended	2				NT-BGRSLV05-1_S45_L002_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGRSLV05-2_S46_L002_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	28861
RNF150-BGRSLV05-8_S48_L002_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set61/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2506	NovaSeq6000	100	paired-ended	1				NT-BGRSLV05-1_S45_L002_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGRSLV05-2_S46_L002_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	8595
RNF150-BGRSLV05-8_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set61/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	2506					GRCh38	V40	RNF150-BGRSLV05-8_S48_L002_R1_001.filtered.trimmed.paired.fastq.gz,RNF150-BGRSLV05-8_S48_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	10460
RNF150-BGRSLV05-8_Signal.Unique.strand+.bw	ENCODE_DATA/set61/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	2506					GRCh38	V40	RNF150-BGRSLV05-8/Aligned.sortedByCoord.out.bam		ENCORE2	10512
RNF150-BGRSLV05-8_Signal.Unique.strand-.bw	ENCODE_DATA/set61/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	2506					GRCh38	V40	RNF150-BGRSLV05-8/Aligned.sortedByCoord.out.bam		ENCORE2	10564
RNF150-BGRSLV05-8_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set61/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	2506					GRCh38	V40	RNF150-BGRSLV05-8/Aligned.sortedByCoord.out.bam		ENCORE2	10616
RNF150-BGRSLV05-8_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set61/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	2506					GRCh38	V40	RNF150-BGRSLV05-8/Aligned.sortedByCoord.out.bam		ENCORE2	10668
RNF150-BGRSLV05-8_quant.sf	ENCODE_DATA/set61/salmon_ENCORE2	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	2506					GRCh38	V40	RNF150-BGRSLV05-8_S48_L002_R1_001.filtered.trimmed.paired.fastq.gz,RNF150-BGRSLV05-8_S48_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	10720
RNF150-BGRSLV05-8_S48_L002_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set61/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2506	NovaSeq6000	100	paired-ended	2				NT-BGRSLV05-1_S45_L002_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGRSLV05-2_S46_L002_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	28862