LUC7L RNA-Seq in 293T

Experiment Information (Status: Revoked)

	BG293LV02-27	BG293LV02-28
idx	0	0
TRCN#_or_BGC#	TRCN0000001197	TRCN0000001197
shRNA_or_gRNA_sequence	CCGGGAGGAAATCAGTGCGGAAGTTCTCGAGAACTTCCGCACTGATTTCCTCTTTTT	CCGGGAGGAAATCAGTGCGGAAGTTCTCGAGAACTTCCGCACTGATTTCCTCTTTTT
PAM
Name	LUC7L	LUC7L
Sample_ID	BG293LV02-27	BG293LV02-28
transduction_Date	3/20/23	3/20/23
days	D4	D4
RBP_name	LUC7L	LUC7L
qPCR_result	67.8	78.8
Ave_qPCR	73.3
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	9822	9823

Western Blot Western Blot info was not avaliable

Experiment Status

	BG293LV02-27	BG293LV02-28
Sample_ID	BG293LV02-27	BG293LV02-28
Sample Name
Sample Name	LUC7L-BG293LV02-27	LUC7L-BG293LV02-28
RBP	LUC7L	LUC7L
Cell_Line	293T	293T
Exp UID
Status	Revoked	Revoked
Status_date	2023-09-20	2023-09-20
Project	ENCORE2	ENCORE2
Note
ID	11580	11581

Library-Prep
Sequencing

Library-Prep Information

	BG293LV02-27	BG293LV02-28
Sample #	23	24
Sample Name	LUC7L-BG293LV02-27	LUC7L-BG293LV02-28
Sample_Name_Alias
Index Well Position	G03	H03
Index_table	IDT_UniqueDualIndex_96	IDT_UniqueDualIndex_96
LibPrep_date	2023-04-12	2023-04-12
Lib_ID	Lib-230412	Lib-230412
Tecan_Location
Tecan
Tecan_date
Size_bp	283	283
Peak_Molarity	90.10	78.50
libSampleQC_DNA_Well	DNA_Library_set60-62/set2/G3.png	DNA_Library_set60-62/set2/H3.png
RIN	9.8	9.7
libSample_RNA_Well	RNA_Library_set60-62/set1/G3.png	RNA_Library_set60-62/set1/H3.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2023-04-17	2023-04-17
Sample_ID	BG293LV02-27	BG293LV02-28
RBP	LUC7L	LUC7L
Batch_ID	BG293LV02	BG293LV02
WB_result	0.000	0.000
Library Description	TruSeq mRNA	TruSeq mRNA
Repeat_Library_Suffix
Lib_Status	SendToSequence	SendToSequence
Project	ENCORE2	ENCORE2
ID	3610	3611

Sequencing Information

	BG293LV02-27	BG293LV02-28
Sample_ID	BG293LV02-27	BG293LV02-28
Sample Name	LUC7L-BG293LV02-27	LUC7L-BG293LV02-28
Pool ID	Pool-230417	Pool-230417
LocalServer_folder	set60	set60
total_reads	40,913,026	29,953,755
total_aligned_reads	33,377,485	21,361,594
unique_aligned_reads	31,021,709	19,882,826
percent_uniqueAligned	0.75824	0.66378
correlation_replicates	0.996783	0.996783
spikein_reads	49,872	45,576
percent_spikeins	0.00122	0.00152
original_ReadLength	101	101
QC_Status	Submitting	Submitting
ID	2481	2482

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
LUC7L-BG293LV02-27_S23_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set60/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2481	NovaSeq6000	100	paired-ended	1				NT-BG293LV02-1_S1_L001_R1_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV02-2_S2_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	7982
LUC7L-BG293LV02-27_S23_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set60/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2481	NovaSeq6000	100	paired-ended	2				NT-BG293LV02-1_S1_L001_R2_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV02-2_S2_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	8026
LUC7L-BG293LV02-27_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set60/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	2481					GRCh38	V40	LUC7L-BG293LV02-27_S23_L001_R1_001.filtered.trimmed.paired.fastq.gz,LUC7L-BG293LV02-27_S23_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	10775
LUC7L-BG293LV02-27_Signal.Unique.strand+.bw	ENCODE_DATA/set60/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	2481					GRCh38	V40	LUC7L-BG293LV02-27/Aligned.sortedByCoord.out.bam		ENCORE2	10819
LUC7L-BG293LV02-27_Signal.Unique.strand-.bw	ENCODE_DATA/set60/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	2481					GRCh38	V40	LUC7L-BG293LV02-27/Aligned.sortedByCoord.out.bam		ENCORE2	10863
LUC7L-BG293LV02-27_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set60/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	2481					GRCh38	V40	LUC7L-BG293LV02-27/Aligned.sortedByCoord.out.bam		ENCORE2	10907
LUC7L-BG293LV02-27_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set60/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	2481					GRCh38	V40	LUC7L-BG293LV02-27/Aligned.sortedByCoord.out.bam		ENCORE2	10951
LUC7L-BG293LV02-27_quant.sf	ENCODE_DATA/set60/salmon_ENCORE2	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	2481					GRCh38	V40	LUC7L-BG293LV02-27_S23_L001_R1_001.filtered.trimmed.paired.fastq.gz,LUC7L-BG293LV02-27_S23_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	10995
LUC7L-BG293LV02-28_S24_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set60/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2482	NovaSeq6000	100	paired-ended	1				NT-BG293LV02-1_S1_L001_R1_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV02-2_S2_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	7983
LUC7L-BG293LV02-28_S24_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set60/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2482	NovaSeq6000	100	paired-ended	2				NT-BG293LV02-1_S1_L001_R2_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV02-2_S2_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	8027
LUC7L-BG293LV02-28_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set60/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	2482					GRCh38	V40	LUC7L-BG293LV02-28_S24_L001_R1_001.filtered.trimmed.paired.fastq.gz,LUC7L-BG293LV02-28_S24_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	10776
LUC7L-BG293LV02-28_Signal.Unique.strand+.bw	ENCODE_DATA/set60/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	2482					GRCh38	V40	LUC7L-BG293LV02-28/Aligned.sortedByCoord.out.bam		ENCORE2	10820
LUC7L-BG293LV02-28_Signal.Unique.strand-.bw	ENCODE_DATA/set60/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	2482					GRCh38	V40	LUC7L-BG293LV02-28/Aligned.sortedByCoord.out.bam		ENCORE2	10864
LUC7L-BG293LV02-28_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set60/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	2482					GRCh38	V40	LUC7L-BG293LV02-28/Aligned.sortedByCoord.out.bam		ENCORE2	10908
LUC7L-BG293LV02-28_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set60/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	2482					GRCh38	V40	LUC7L-BG293LV02-28/Aligned.sortedByCoord.out.bam		ENCORE2	10952
LUC7L-BG293LV02-28_quant.sf	ENCODE_DATA/set60/salmon_ENCORE2	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	2482					GRCh38	V40	LUC7L-BG293LV02-28_S24_L001_R1_001.filtered.trimmed.paired.fastq.gz,LUC7L-BG293LV02-28_S24_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	10996