RNF26 RNA-Seq in Ribo-STAMP-293T

Experiment Information (Status: Submitted)

	BGRSLV06-31	BGRSLV06-32
idx	0	0
TRCN#_or_BGC#	TRCN0000033926	TRCN0000033926
shRNA_or_gRNA_sequence	CCGGCCTTGTGTACTCTGCTGTATACTCGAGTATACAGCAGAGTACACAAGGTTTTTG	CCGGCCTTGTGTACTCTGCTGTATACTCGAGTATACAGCAGAGTACACAAGGTTTTTG
PAM
Name	RNF26	RNF26
Sample_ID	BGRSLV06-31	BGRSLV06-32
transduction_Date	3/27/23	3/27/23
days	D4	D4
RBP_name	RNF26	RNF26
qPCR_result	82.3	81.8
Ave_qPCR	82.1
RT-qPCR_primer-F	cttcctagcccacatttcca
RT-qPCR_primer-R	gccagtgagattgacaagca
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	8558	8559

Western Blot Western Blot info was not avaliable

Experiment Status

	BGRSLV06-31	BGRSLV06-32
Sample_ID	BGRSLV06-31	BGRSLV06-32
Sample Name
Sample Name	RNF26-BGRSLV06-31	RNF26-BGRSLV06-32
RBP	RNF26	RNF26
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	11698	11699

Library-Prep
Sequencing

Library-Prep Information

	BGRSLV06-31	BGRSLV06-32
Sample #	81	82
Sample Name	RNF26-BGRSLV06-31	RNF26-BGRSLV06-32
Sample_Name_Alias
Index Well Position	A11	B11
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	284	284
Peak_Molarity	72.20	81.20
libSampleQC_DNA_Well	DNA_Library_set60-62/set1/E11.png	DNA_Library_set60-62/set1/F11.png
RIN	9.5	9.5
libSample_RNA_Well	RNA_Library_set60-62/set1/A11.png	RNA_Library_set60-62/set1/B11.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2023-04-17	2023-04-17
Sample_ID	BGRSLV06-31	BGRSLV06-32
RBP	RNF26	RNF26
Batch_ID	BGRSLV06	BGRSLV06
WB_result	0.000	0.000
Library Description	TruSeq mRNA	TruSeq mRNA
Repeat_Library_Suffix
Lib_Status	SendToSequence	SendToSequence
Project	ENCORE2	ENCORE2
ID	3668	3669

Sequencing Information

	BGRSLV06-31	BGRSLV06-32
Sample_ID	BGRSLV06-31	BGRSLV06-32
Sample Name	RNF26-BGRSLV06-31	RNF26-BGRSLV06-32
Pool ID	Pool-230417B	Pool-230417B
LocalServer_folder	set61	set61
total_reads	55,647,740	27,545,657
total_aligned_reads	41,816,084	23,049,579
unique_aligned_reads	39,423,382	21,720,160
percent_uniqueAligned	0.70845	0.78851
correlation_replicates	0.990663	0.990663
spikein_reads	48,660	18,104
percent_spikeins	0.00087	0.00066
original_ReadLength	101	101
QC_Status	Submitted	Submitted
ID	2539	2540

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
RNF26-BGRSLV06-31_S81_L002_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set61/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2539	NovaSeq6000	100	paired-ended	1				NT-BGRSLV06-1_S67_L002_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGRSLV06-2_S68_L002_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	8596
RNF26-BGRSLV06-31_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set61/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	2539					GRCh38	V40	RNF26-BGRSLV06-31_S81_L002_R1_001.filtered.trimmed.paired.fastq.gz,RNF26-BGRSLV06-31_S81_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	10461
RNF26-BGRSLV06-31_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	2539					GRCh38	V40	RNF26-BGRSLV06-31/Aligned.sortedByCoord.out.bam		ENCORE2	10513
RNF26-BGRSLV06-31_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	2539					GRCh38	V40	RNF26-BGRSLV06-31/Aligned.sortedByCoord.out.bam		ENCORE2	10565
RNF26-BGRSLV06-31_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	2539					GRCh38	V40	RNF26-BGRSLV06-31/Aligned.sortedByCoord.out.bam		ENCORE2	10617
RNF26-BGRSLV06-31_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	2539					GRCh38	V40	RNF26-BGRSLV06-31/Aligned.sortedByCoord.out.bam		ENCORE2	10669
RNF26-BGRSLV06-31_quant.sf	ENCODE_DATA/set61/salmon_ENCORE2	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	2539					GRCh38	V40	RNF26-BGRSLV06-31_S81_L002_R1_001.filtered.trimmed.paired.fastq.gz,RNF26-BGRSLV06-31_S81_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	10721
RNF26-BGRSLV06-31_S81_L002_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set61/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2539	NovaSeq6000	100	paired-ended	2				NT-BGRSLV06-1_S67_L002_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGRSLV06-2_S68_L002_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	28863
RNF26-BGRSLV06-32_S82_L002_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set61/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2540	NovaSeq6000	100	paired-ended	1				NT-BGRSLV06-1_S67_L002_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGRSLV06-2_S68_L002_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	8597
RNF26-BGRSLV06-32_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set61/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	2540					GRCh38	V40	RNF26-BGRSLV06-32_S82_L002_R1_001.filtered.trimmed.paired.fastq.gz,RNF26-BGRSLV06-32_S82_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	10462
RNF26-BGRSLV06-32_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	2540					GRCh38	V40	RNF26-BGRSLV06-32/Aligned.sortedByCoord.out.bam		ENCORE2	10514
RNF26-BGRSLV06-32_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	2540					GRCh38	V40	RNF26-BGRSLV06-32/Aligned.sortedByCoord.out.bam		ENCORE2	10566
RNF26-BGRSLV06-32_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	2540					GRCh38	V40	RNF26-BGRSLV06-32/Aligned.sortedByCoord.out.bam		ENCORE2	10618
RNF26-BGRSLV06-32_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	2540					GRCh38	V40	RNF26-BGRSLV06-32/Aligned.sortedByCoord.out.bam		ENCORE2	10670
RNF26-BGRSLV06-32_quant.sf	ENCODE_DATA/set61/salmon_ENCORE2	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	2540					GRCh38	V40	RNF26-BGRSLV06-32_S82_L002_R1_001.filtered.trimmed.paired.fastq.gz,RNF26-BGRSLV06-32_S82_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	10722
RNF26-BGRSLV06-32_S82_L002_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set61/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2540	NovaSeq6000	100	paired-ended	2				NT-BGRSLV06-1_S67_L002_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGRSLV06-2_S68_L002_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	28864