PRRC2B RNA-Seq in 293T

Experiment Information (Status: Released)

	BG293LV06-39	BG293LV06-40
idx	0	0
TRCN#_or_BGC#	TRCN0000265532	TRCN0000265532
shRNA_or_gRNA_sequence	CCGGCCCGTATTCCTCCTCGATTTGCTCGAGCAAATCGAGGAGGAATACGGGTTTTTG	CCGGCCCGTATTCCTCCTCGATTTGCTCGAGCAAATCGAGGAGGAATACGGGTTTTTG
PAM
Name	BAT2L1/PRRC2B	BAT2L1/PRRC2B
Sample_ID	BG293LV06-39	BG293LV06-40
transduction_Date	9/5/24	9/5/24
days	D4	D4
RBP_name	PRRC2B	PRRC2B
qPCR_result	77.7	78.0
Ave_qPCR	89.7
RT-qPCR_primer-F
RT-qPCR_primer-R
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	12174	12175

Western Blot Western Blot info was not avaliable

Experiment Status

	BG293LV06-39	BG293LV06-40
Sample_ID	BG293LV06-39	BG293LV06-40
Sample Name
Sample Name	PRRC2B-BG293LV06-39	PRRC2B-BG293LV06-40
RBP	PRRC2B	PRRC2B
Cell_Line	293T	293T
Exp UID
Status	Released	Released
Status_date	2025-04-21	2025-04-21
Project	ENCORE2	ENCORE2
Note
ID	13476	13477

Library-Prep
Sequencing

Library-Prep Information

	BG293LV06-39	BG293LV06-40
Sample #	41	42
Sample Name	PRRC2B-BG293LV06-39	PRRC2B-BG293LV06-40
Sample_Name_Alias
Index Well Position	A06	B06
Index_table	IDT_UniqueDualIndex_96_V2	IDT_UniqueDualIndex_96_V2
LibPrep_date	2024-09-25	2024-09-25
Lib_ID	Lib-240925B	Lib-240925B
Tecan_Location
Tecan
Tecan_date
Size_bp	275	286
Peak_Molarity	79.60	84.40
libSampleQC_DNA_Well	DNA_Library_set71/set1/A6.png	DNA_Library_set71/set1/B6.png
RIN	10.0	10.0
libSample_RNA_Well	RNA_Library_set71/set1/A6.png	RNA_Library_set71/set1/B6.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2024-09-30	2024-09-30
Sample_ID	BG293LV06-39	BG293LV06-40
RBP	PRRC2B	PRRC2B
Batch_ID	BG293LV06	BG293LV06
WB_result	0.000	0.000
Library Description	TruSeq mRNA	TruSeq mRNA
Repeat_Library_Suffix
Lib_Status	SendToSequence	SendToSequence
Project	ENCORE2	ENCORE2
ID	4466	4467

Sequencing Information

	BG293LV06-39	BG293LV06-40
Sample_ID	BG293LV06-39	BG293LV06-40
Sample Name	PRRC2B-BG293LV06-39	PRRC2B-BG293LV06-40
Pool ID	Pool-240930	Pool-240930
LocalServer_folder	set71	set71
total_reads	38,721,501	36,911,460
total_aligned_reads	35,432,078	34,058,016
unique_aligned_reads	33,062,422	31,993,228
percent_uniqueAligned	0.85385	0.86676
correlation_replicates	0.960139	0.960139
spikein_reads	110,022	100,320
percent_spikeins	0.00284	0.00272
original_ReadLength	101	101
QC_Status	Submitted	Submitted
ID	3035	3036

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
PRRC2B-BG293LV06-39_S41_L002_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set71/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3035	NovaSeq6000	100	paired-ended	1				NT-BG293LV06-1merged_S1_L002_R1_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV06-2merged_S2_L002_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	29355
PRRC2B-BG293LV06-39_S41_L002_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set71/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3035	NovaSeq6000	100	paired-ended	2				NT-BG293LV06-1merged_S1_L002_R2_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV06-2merged_S2_L002_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	29419
PRRC2B-BG293LV06-39_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set71/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3035					GRCh38	V40	PRRC2B-BG293LV06-39_S41_L002_R1_001.filtered.trimmed.paired.fastq.gz,PRRC2B-BG293LV06-39_S41_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	29484
PRRC2B-BG293LV06-39_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set71/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3035					GRCh38	V40	PRRC2B-BG293LV06-39_Aligned.sortedByCoord.out.bam		ENCORE2	29548
PRRC2B-BG293LV06-39_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set71/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3035					GRCh38	V40	PRRC2B-BG293LV06-39_Aligned.sortedByCoord.out.bam		ENCORE2	29612
PRRC2B-BG293LV06-39_Signal.Unique.strand-.bw	ENCODE_DATA/set71/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3035					GRCh38	V40	PRRC2B-BG293LV06-39_Aligned.sortedByCoord.out.bam		ENCORE2	29676
PRRC2B-BG293LV06-39_quant.sf	ENCODE_DATA/set71/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3035					GRCh38	V40	PRRC2B-BG293LV06-39_S41_L002_R1_001.filtered.trimmed.paired.fastq.gz,PRRC2B-BG293LV06-39_S41_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	29740
PRRC2B-BG293LV06-40_S42_L002_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set71/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3036	NovaSeq6000	100	paired-ended	1				NT-BG293LV06-1merged_S1_L002_R1_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV06-2merged_S2_L002_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	29356
PRRC2B-BG293LV06-40_S42_L002_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set71/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3036	NovaSeq6000	100	paired-ended	2				NT-BG293LV06-1merged_S1_L002_R2_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV06-2merged_S2_L002_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	29420
PRRC2B-BG293LV06-40_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set71/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3036					GRCh38	V40	PRRC2B-BG293LV06-40_S42_L002_R1_001.filtered.trimmed.paired.fastq.gz,PRRC2B-BG293LV06-40_S42_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	29485
PRRC2B-BG293LV06-40_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set71/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3036					GRCh38	V40	PRRC2B-BG293LV06-40_Aligned.sortedByCoord.out.bam		ENCORE2	29549
PRRC2B-BG293LV06-40_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set71/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3036					GRCh38	V40	PRRC2B-BG293LV06-40_Aligned.sortedByCoord.out.bam		ENCORE2	29613
PRRC2B-BG293LV06-40_Signal.Unique.strand-.bw	ENCODE_DATA/set71/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3036					GRCh38	V40	PRRC2B-BG293LV06-40_Aligned.sortedByCoord.out.bam		ENCORE2	29677
PRRC2B-BG293LV06-40_quant.sf	ENCODE_DATA/set71/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3036					GRCh38	V40	PRRC2B-BG293LV06-40_S42_L002_R1_001.filtered.trimmed.paired.fastq.gz,PRRC2B-BG293LV06-40_S42_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	29741