LSM10 RNA-Seq in 293T

Experiment Information (Status: Released)

	BG293LV06-65	BG293LV06-66
idx	0	0
TRCN#_or_BGC#	TRCN0000074415	TRCN0000074415
shRNA_or_gRNA_sequence	CCGGCATAGACAATGTCGATGCTTTCTCGAGAAAGCATCGACATTGTCTATGTTTTTG	CCGGCATAGACAATGTCGATGCTTTCTCGAGAAAGCATCGACATTGTCTATGTTTTTG
PAM
Name	LSM10	LSM10
Sample_ID	BG293LV06-65	BG293LV06-66
transduction_Date	9/5/24	9/5/24
days	D4	D4
RBP_name	LSM10	LSM10
qPCR_result	83.4	85.8
Ave_qPCR	84.6
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	12200	12201

Western Blot Western Blot info was not avaliable

Experiment Status

	BG293LV06-65	BG293LV06-66
Sample_ID	BG293LV06-65	BG293LV06-66
Sample Name
Sample Name	LSM10-BG293LV06-65B	LSM10-BG293LV06-66B
RBP	LSM10	LSM10
Cell_Line	293T	293T
Exp UID
Status	Released	Released
Status_date	2025-04-21	2025-04-21
Project	ENCORE2	ENCORE2
Note
ID	13502	13503

Library-Prep
Sequencing

Library-Prep Information

	BG293LV06-65	BG293LV06-66
Sample #	67	68
Sample Name	LSM10-BG293LV06-65B	LSM10-BG293LV06-66B
Sample_Name_Alias
Index Well Position	C02	D02
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	279	278
Peak_Molarity	80.40	91.40
libSampleQC_DNA_Well	DNA_Library_set72/set1/C2.png	DNA_Library_set72/set1/D2.png
RIN	9.9	9.9
libSample_RNA_Well	RNA_Library_set72/set1/C2.png	RNA_Library_set72/set1/D2.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2024-10-04	2024-10-04
Sample_ID	BG293LV06-65	BG293LV06-66
RBP	LSM10	LSM10
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	4492	4493

Sequencing Information

	BG293LV06-65	BG293LV06-66
Sample_ID	BG293LV06-65	BG293LV06-66
Sample Name	LSM10-BG293LV06-65B	LSM10-BG293LV06-66B
Pool ID	Pool-241004	Pool-241004
LocalServer_folder	set72	set72
total_reads	26,883,856	22,178,840
total_aligned_reads	23,781,674	19,511,958
unique_aligned_reads	22,208,674	18,181,572
percent_uniqueAligned	0.82610	0.81977
correlation_replicates	0.995014	0.995014
spikein_reads	91,526	37,328
percent_spikeins	0.00340	0.00168
original_ReadLength	101	101
QC_Status	Submitted	Submitted
ID	3061	3062

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
LSM10-BG293LV06-65B_S19_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set72/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3061	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	29788
LSM10-BG293LV06-65B_S19_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set72/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3061	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	29860
LSM10-BG293LV06-65B_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set72/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3061					GRCh38	V40	LSM10-BG293LV06-65B_S19_L001_R1_001.filtered.trimmed.paired.fastq.gz,LSM10-BG293LV06-65B_S19_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	29932
LSM10-BG293LV06-65B_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	3061					GRCh38	V40	LSM10-BG293LV06-65B_Aligned.sortedByCoord.out.bam		ENCORE2	30004
LSM10-BG293LV06-65B_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	3061					GRCh38	V40	LSM10-BG293LV06-65B_Aligned.sortedByCoord.out.bam		ENCORE2	30076
LSM10-BG293LV06-65B_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	3061					GRCh38	V40	LSM10-BG293LV06-65B_Aligned.sortedByCoord.out.bam		ENCORE2	30148
LSM10-BG293LV06-65B_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	3061					GRCh38	V40	LSM10-BG293LV06-65B_Aligned.sortedByCoord.out.bam		ENCORE2	30220
LSM10-BG293LV06-65B_quant.sf	ENCODE_DATA/set72/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3061					GRCh38	V40	LSM10-BG293LV06-65B_S19_L001_R1_001.filtered.trimmed.paired.fastq.gz,LSM10-BG293LV06-65B_S19_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	30292
LSM10-BG293LV06-66B_S20_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set72/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3062	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	29789
LSM10-BG293LV06-66B_S20_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set72/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3062	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	29861
LSM10-BG293LV06-66B_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set72/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3062					GRCh38	V40	LSM10-BG293LV06-66B_S20_L001_R1_001.filtered.trimmed.paired.fastq.gz,LSM10-BG293LV06-66B_S20_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	29933
LSM10-BG293LV06-66B_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	3062					GRCh38	V40	LSM10-BG293LV06-66B_Aligned.sortedByCoord.out.bam		ENCORE2	30005
LSM10-BG293LV06-66B_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	3062					GRCh38	V40	LSM10-BG293LV06-66B_Aligned.sortedByCoord.out.bam		ENCORE2	30077
LSM10-BG293LV06-66B_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	3062					GRCh38	V40	LSM10-BG293LV06-66B_Aligned.sortedByCoord.out.bam		ENCORE2	30149
LSM10-BG293LV06-66B_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	3062					GRCh38	V40	LSM10-BG293LV06-66B_Aligned.sortedByCoord.out.bam		ENCORE2	30221
LSM10-BG293LV06-66B_quant.sf	ENCODE_DATA/set72/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3062					GRCh38	V40	LSM10-BG293LV06-66B_S20_L001_R1_001.filtered.trimmed.paired.fastq.gz,LSM10-BG293LV06-66B_S20_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	30293