YWHAG RNA-Seq in 293T

Experiment Information (Status: Released)

	BG293LV06-75	BG293LV06-76
idx	0	0
TRCN#_or_BGC#	TRCN0000078159	TRCN0000078159
shRNA_or_gRNA_sequence	CCGGCCTGCTGGATAACTACCTGATCTCGAGATCAGGTAGTTATCCAGCAGGTTTTTG	CCGGCCTGCTGGATAACTACCTGATCTCGAGATCAGGTAGTTATCCAGCAGGTTTTTG
PAM
Name	YWHAG	YWHAG
Sample_ID	BG293LV06-75	BG293LV06-76
transduction_Date	9/5/24	9/5/24
days	D4	D4
RBP_name	YWHAG	YWHAG
qPCR_result	74.2	63.5
Ave_qPCR	68.8
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	12210	12211

Western Blot Western Blot info was not avaliable

Experiment Status

	BG293LV06-75	BG293LV06-76
Sample_ID	BG293LV06-75	BG293LV06-76
Sample Name
Sample Name	YWHAG-BG293LV06-75B	YWHAG-BG293LV06-76B
RBP	YWHAG	YWHAG
Cell_Line	293T	293T
Exp UID
Status	Released	Released
Status_date	2025-04-21	2025-04-21
Project	ENCORE2	ENCORE2
Note
ID	13512	13513

Library-Prep
Sequencing

Library-Prep Information

	BG293LV06-75	BG293LV06-76
Sample #	75	76
Sample Name	YWHAG-BG293LV06-75B	YWHAG-BG293LV06-76B
Sample_Name_Alias
Index Well Position	C03	D03
Index_table	IDT_UniqueDualIndex_96_V2	IDT_UniqueDualIndex_96_V2
LibPrep_date	2024-10-02	2024-10-02
Lib_ID	Lib-241002	Lib-241002
Tecan_Location
Tecan
Tecan_date
Size_bp	280	281
Peak_Molarity	102.00	78.90
libSampleQC_DNA_Well	DNA_Library_set72/set1/C3.png	DNA_Library_set72/set1/D3.png
RIN	9.9	10.0
libSample_RNA_Well	RNA_Library_set72/set1/C3.png	RNA_Library_set72/set1/D3.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2024-10-04	2024-10-04
Sample_ID	BG293LV06-75	BG293LV06-76
RBP	YWHAG	YWHAG
Batch_ID	BG293LV06	BG293LV06
WB_result	0.000	0.000
Library Description	TruSeq mRNA	TruSeq mRNA
Repeat_Library_Suffix	B	B
Lib_Status	SendToSequence	SendToSequence
Project	ENCORE2	ENCORE2
ID	4500	4501

Sequencing Information

	BG293LV06-75	BG293LV06-76
Sample_ID	BG293LV06-75	BG293LV06-76
Sample Name	YWHAG-BG293LV06-75B	YWHAG-BG293LV06-76B
Pool ID	Pool-241004	Pool-241004
LocalServer_folder	set72	set72
total_reads	59,077,729	40,885,491
total_aligned_reads	53,548,059	36,527,787
unique_aligned_reads	50,063,104	34,221,358
percent_uniqueAligned	0.84741	0.83700
correlation_replicates	0.996263	0.996263
spikein_reads	229,942	95,656
percent_spikeins	0.00389	0.00234
original_ReadLength	101	101
QC_Status	Submitted	Submitted
ID	3069	3070

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
YWHAG-BG293LV06-75B_S27_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set72/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3069	NovaSeq6000	100	paired-ended	1				NT-BG293LV06-1Bmerged_S9_L001_R1_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV06-2Bmerged_S10_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	29830
YWHAG-BG293LV06-75B_S27_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set72/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3069	NovaSeq6000	100	paired-ended	2				NT-BG293LV06-1Bmerged_S9_L001_R2_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV06-2Bmerged_S10_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	29902
YWHAG-BG293LV06-75B_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set72/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3069					GRCh38	V40	YWHAG-BG293LV06-75B_S27_L001_R1_001.filtered.trimmed.paired.fastq.gz,YWHAG-BG293LV06-75B_S27_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	29974
YWHAG-BG293LV06-75B_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set72/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3069					GRCh38	V40	YWHAG-BG293LV06-75B_Aligned.sortedByCoord.out.bam		ENCORE2	30046
YWHAG-BG293LV06-75B_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set72/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3069					GRCh38	V40	YWHAG-BG293LV06-75B_Aligned.sortedByCoord.out.bam		ENCORE2	30118
YWHAG-BG293LV06-75B_Signal.Unique.strand-.bw	ENCODE_DATA/set72/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3069					GRCh38	V40	YWHAG-BG293LV06-75B_Aligned.sortedByCoord.out.bam		ENCORE2	30190
YWHAG-BG293LV06-75B_Signal.Unique.strand+.bw	ENCODE_DATA/set72/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3069					GRCh38	V40	YWHAG-BG293LV06-75B_Aligned.sortedByCoord.out.bam		ENCORE2	30262
YWHAG-BG293LV06-75B_quant.sf	ENCODE_DATA/set72/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3069					GRCh38	V40	YWHAG-BG293LV06-75B_S27_L001_R1_001.filtered.trimmed.paired.fastq.gz,YWHAG-BG293LV06-75B_S27_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	30334
YWHAG-BG293LV06-76B_S28_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set72/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3070	NovaSeq6000	100	paired-ended	1				NT-BG293LV06-1Bmerged_S9_L001_R1_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV06-2Bmerged_S10_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	29831
YWHAG-BG293LV06-76B_S28_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set72/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3070	NovaSeq6000	100	paired-ended	2				NT-BG293LV06-1Bmerged_S9_L001_R2_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV06-2Bmerged_S10_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	29903
YWHAG-BG293LV06-76B_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set72/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3070					GRCh38	V40	YWHAG-BG293LV06-76B_S28_L001_R1_001.filtered.trimmed.paired.fastq.gz,YWHAG-BG293LV06-76B_S28_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	29975
YWHAG-BG293LV06-76B_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set72/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3070					GRCh38	V40	YWHAG-BG293LV06-76B_Aligned.sortedByCoord.out.bam		ENCORE2	30047
YWHAG-BG293LV06-76B_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set72/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3070					GRCh38	V40	YWHAG-BG293LV06-76B_Aligned.sortedByCoord.out.bam		ENCORE2	30119
YWHAG-BG293LV06-76B_Signal.Unique.strand-.bw	ENCODE_DATA/set72/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3070					GRCh38	V40	YWHAG-BG293LV06-76B_Aligned.sortedByCoord.out.bam		ENCORE2	30191
YWHAG-BG293LV06-76B_Signal.Unique.strand+.bw	ENCODE_DATA/set72/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3070					GRCh38	V40	YWHAG-BG293LV06-76B_Aligned.sortedByCoord.out.bam		ENCORE2	30263
YWHAG-BG293LV06-76B_quant.sf	ENCODE_DATA/set72/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3070					GRCh38	V40	YWHAG-BG293LV06-76B_S28_L001_R1_001.filtered.trimmed.paired.fastq.gz,YWHAG-BG293LV06-76B_S28_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	30335