PRRC2B RNA-Seq in 293T

Experiment Information (Status: Submitting)

	BG293LV04-7	BG293LV04-8
idx	0	0
TRCN#_or_BGC#	TRCN0000265532	TRCN0000265532
shRNA_or_gRNA_sequence	CCGGCCCGTATTCCTCCTCGATTTGCTCGAGCAAATCGAGGAGGAATACGGGTTTTTG	CCGGCCCGTATTCCTCCTCGATTTGCTCGAGCAAATCGAGGAGGAATACGGGTTTTTG
PAM
Name	BAT2L1/PRRC2B	BAT2L1/PRRC2B
Sample_ID	BG293LV04-7	BG293LV04-8
transduction_Date	9/7/23	9/7/23
days	D4	D4
RBP_name	PRRC2B	PRRC2B
qPCR_result	87.0	84.1
Ave_qPCR	85.6
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	9894	9895

Western Blot Western Blot info was not avaliable

Experiment Status

	BG293LV04-7	BG293LV04-8
Sample_ID	BG293LV04-7	BG293LV04-8
Sample Name
Sample Name	PRRC2B-BG293LV04-7	PRRC2B-BG293LV04-8
RBP	PRRC2B	PRRC2B
Cell_Line	293T	293T
Exp UID
Status	Submitting	Submitting
Status_date	2023-12-30	2023-12-30
Project	ENCORE2	ENCORE2
Note
ID	12516	12517

Library-Prep
Sequencing

Library-Prep Information

	BG293LV04-7	BG293LV04-8
Sample #	3	4
Sample Name	PRRC2B-BG293LV04-7	PRRC2B-BG293LV04-8
Sample_Name_Alias
Index Well Position	C01	D01
Index_table	IDT_UniqueDualIndex_96	IDT_UniqueDualIndex_96
LibPrep_date	2023-10-10	2023-10-10
Lib_ID	Lib-231010	Lib-231010
Tecan_Location
Tecan
Tecan_date
Size_bp	274	274
Peak_Molarity	82.90	90.50
libSampleQC_DNA_Well	DNA_Library_set64/set1/C9.png	DNA_Library_set64/set1/D9.png
RIN	9.8	10.0
libSample_RNA_Well	RNA_Library_set64/set1/C5.png	RNA_Library_set64/set1/D5.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2023-10-12	2023-10-12
Sample_ID	BG293LV04-7	BG293LV04-8
RBP	PRRC2B	PRRC2B
Batch_ID	BG293LV04	BG293LV04
WB_result	0.000	0.000
Library Description	TruSeq mRNA	TruSeq mRNA
Repeat_Library_Suffix
Lib_Status	SendToSequence	SendToSequence
Project	ENCORE2	ENCORE2
ID	4008	4009

Sequencing Information

	BG293LV04-7	BG293LV04-8
Sample_ID	BG293LV04-7	BG293LV04-8
Sample Name	PRRC2B-BG293LV04-7	PRRC2B-BG293LV04-8
Pool ID	Pool-231012	Pool-231012
LocalServer_folder	set64	set64
total_reads	22,245,325	17,055,716
total_aligned_reads	19,533,004	14,502,226
unique_aligned_reads	18,141,393	13,467,078
percent_uniqueAligned	0.81551	0.78959
correlation_replicates	0.996467	0.996467
spikein_reads	18,290	8,006
percent_spikeins	0.00082	0.00047
original_ReadLength	100	100
QC_Status	Submitting	Submitting
ID	2617	2618

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-BG293LV04-7_S3_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set64/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2617	NextSeq2000	100	paired-ended	1				NT-BG293LV04-1_S1_R1_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV04-2_S2_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	8698
PRRC2B-BG293LV04-7_S3_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set64/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2617	NextSeq2000	100	paired-ended	2				NT-BG293LV04-1_S1_R2_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV04-2_S2_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	8726
PRRC2B-BG293LV04-7_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set64/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	2617					GRCh38	V40	PRRC2B-BG293LV04-7_S3_R1_001.filtered.trimmed.paired.fastq.gz,PRRC2B-BG293LV04-7_S3_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	9775
PRRC2B-BG293LV04-7_Signal.Unique.strand+.bw	ENCODE_DATA/set64/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	2617					GRCh38	V40	PRRC2B-BG293LV04-7/Aligned.sortedByCoord.out.bam		ENCORE2	9803
PRRC2B-BG293LV04-7_Signal.Unique.strand-.bw	ENCODE_DATA/set64/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	2617					GRCh38	V40	PRRC2B-BG293LV04-7/Aligned.sortedByCoord.out.bam		ENCORE2	9831
PRRC2B-BG293LV04-7_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set64/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	2617					GRCh38	V40	PRRC2B-BG293LV04-7/Aligned.sortedByCoord.out.bam		ENCORE2	9859
PRRC2B-BG293LV04-7_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set64/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	2617					GRCh38	V40	PRRC2B-BG293LV04-7/Aligned.sortedByCoord.out.bam		ENCORE2	9887
PRRC2B-BG293LV04-7_quant.sf	ENCODE_DATA/set64/salmon_ENCORE2	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	2617					GRCh38	V40	PRRC2B-BG293LV04-7_S3_R1_001.filtered.trimmed.paired.fastq.gz,PRRC2B-BG293LV04-7_S3_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	9915
PRRC2B-BG293LV04-8_S4_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set64/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2618	NextSeq2000	100	paired-ended	1				NT-BG293LV04-1_S1_R1_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV04-2_S2_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	8699
PRRC2B-BG293LV04-8_S4_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set64/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2618	NextSeq2000	100	paired-ended	2				NT-BG293LV04-1_S1_R2_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV04-2_S2_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	8727
PRRC2B-BG293LV04-8_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set64/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	2618					GRCh38	V40	PRRC2B-BG293LV04-8_S4_R1_001.filtered.trimmed.paired.fastq.gz,PRRC2B-BG293LV04-8_S4_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	9776
PRRC2B-BG293LV04-8_Signal.Unique.strand+.bw	ENCODE_DATA/set64/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	2618					GRCh38	V40	PRRC2B-BG293LV04-8/Aligned.sortedByCoord.out.bam		ENCORE2	9804
PRRC2B-BG293LV04-8_Signal.Unique.strand-.bw	ENCODE_DATA/set64/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	2618					GRCh38	V40	PRRC2B-BG293LV04-8/Aligned.sortedByCoord.out.bam		ENCORE2	9832
PRRC2B-BG293LV04-8_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set64/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	2618					GRCh38	V40	PRRC2B-BG293LV04-8/Aligned.sortedByCoord.out.bam		ENCORE2	9860
PRRC2B-BG293LV04-8_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set64/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	2618					GRCh38	V40	PRRC2B-BG293LV04-8/Aligned.sortedByCoord.out.bam		ENCORE2	9888
PRRC2B-BG293LV04-8_quant.sf	ENCODE_DATA/set64/salmon_ENCORE2	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	2618					GRCh38	V40	PRRC2B-BG293LV04-8_S4_R1_001.filtered.trimmed.paired.fastq.gz,PRRC2B-BG293LV04-8_S4_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	9916