LGALS1 RNA-Seq in 293T

Experiment Information (Status: Revoked)

	BG293LV02-23	BG293LV02-24
idx	0	0
TRCN#_or_BGC#	TRCN0000057423	TRCN0000057423
shRNA_or_gRNA_sequence	CCGGGCTGCCAGATGGATACGAATTCTCGAGAATTCGTATCCATCTGGCAGCTTTTTG	CCGGGCTGCCAGATGGATACGAATTCTCGAGAATTCGTATCCATCTGGCAGCTTTTTG
PAM
Name	LGALS1	LGALS1
Sample_ID	BG293LV02-23	BG293LV02-24
transduction_Date	3/20/23	3/20/23
days	D4	D4
RBP_name	LGALS1	LGALS1
qPCR_result	99.7	99.4
Ave_qPCR	99.5
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	9818	9819

Western Blot Western Blot info was not avaliable

Experiment Status

	BG293LV02-23	BG293LV02-24
Sample_ID	BG293LV02-23	BG293LV02-24
Sample Name
Sample Name	LGALS1-BG293LV02-23	LGALS1-BG293LV02-24
RBP	LGALS1	LGALS1
Cell_Line	293T	293T
Exp UID
Status	Revoked	Revoked
Status_date	2023-09-20	2023-09-20
Project	ENCORE2	ENCORE2
Note
ID	11576	11577

Library-Prep
Sequencing

Library-Prep Information

	BG293LV02-23	BG293LV02-24
Sample #	19	20
Sample Name	LGALS1-BG293LV02-23	LGALS1-BG293LV02-24
Sample_Name_Alias
Index Well Position	C03	D03
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	279	284
Peak_Molarity	103.00	99.90
libSampleQC_DNA_Well	DNA_Library_set60-62/set3/C3.png	DNA_Library_set60-62/set2/D3.png
RIN	9.8	9.9
libSample_RNA_Well	RNA_Library_set60-62/set1/C3.png	RNA_Library_set60-62/set1/D3.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2023-04-17	2023-04-17
Sample_ID	BG293LV02-23	BG293LV02-24
RBP	LGALS1	LGALS1
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	3606	3607

Sequencing Information

	BG293LV02-23	BG293LV02-24
Sample_ID	BG293LV02-23	BG293LV02-24
Sample Name	LGALS1-BG293LV02-23	LGALS1-BG293LV02-24
Pool ID	Pool-230417	Pool-230417
LocalServer_folder	set60	set60
total_reads	46,475,197	50,204,508
total_aligned_reads	42,072,704	44,434,783
unique_aligned_reads	39,134,119	41,382,960
percent_uniqueAligned	0.84204	0.82429
correlation_replicates	0.995464	0.995464
spikein_reads	137,618	108,726
percent_spikeins	0.00296	0.00217
original_ReadLength	101	101
QC_Status	Submitting	Submitting
ID	2477	2478

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
LGALS1-BG293LV02-23_S19_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set60/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2477	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	7978
LGALS1-BG293LV02-23_S19_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set60/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2477	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	8022
LGALS1-BG293LV02-23_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set60/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	2477					GRCh38	V40	LGALS1-BG293LV02-23_S19_L001_R1_001.filtered.trimmed.paired.fastq.gz,LGALS1-BG293LV02-23_S19_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	10771
LGALS1-BG293LV02-23_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	2477					GRCh38	V40	LGALS1-BG293LV02-23/Aligned.sortedByCoord.out.bam		ENCORE2	10815
LGALS1-BG293LV02-23_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	2477					GRCh38	V40	LGALS1-BG293LV02-23/Aligned.sortedByCoord.out.bam		ENCORE2	10859
LGALS1-BG293LV02-23_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	2477					GRCh38	V40	LGALS1-BG293LV02-23/Aligned.sortedByCoord.out.bam		ENCORE2	10903
LGALS1-BG293LV02-23_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	2477					GRCh38	V40	LGALS1-BG293LV02-23/Aligned.sortedByCoord.out.bam		ENCORE2	10947
LGALS1-BG293LV02-23_quant.sf	ENCODE_DATA/set60/salmon_ENCORE2	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	2477					GRCh38	V40	LGALS1-BG293LV02-23_S19_L001_R1_001.filtered.trimmed.paired.fastq.gz,LGALS1-BG293LV02-23_S19_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	10991
LGALS1-BG293LV02-24_S20_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set60/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2478	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	7979
LGALS1-BG293LV02-24_S20_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set60/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2478	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	8023
LGALS1-BG293LV02-24_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set60/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	2478					GRCh38	V40	LGALS1-BG293LV02-24_S20_L001_R1_001.filtered.trimmed.paired.fastq.gz,LGALS1-BG293LV02-24_S20_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	10772
LGALS1-BG293LV02-24_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	2478					GRCh38	V40	LGALS1-BG293LV02-24/Aligned.sortedByCoord.out.bam		ENCORE2	10816
LGALS1-BG293LV02-24_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	2478					GRCh38	V40	LGALS1-BG293LV02-24/Aligned.sortedByCoord.out.bam		ENCORE2	10860
LGALS1-BG293LV02-24_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	2478					GRCh38	V40	LGALS1-BG293LV02-24/Aligned.sortedByCoord.out.bam		ENCORE2	10904
LGALS1-BG293LV02-24_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	2478					GRCh38	V40	LGALS1-BG293LV02-24/Aligned.sortedByCoord.out.bam		ENCORE2	10948
LGALS1-BG293LV02-24_quant.sf	ENCODE_DATA/set60/salmon_ENCORE2	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	2478					GRCh38	V40	LGALS1-BG293LV02-24_S20_L001_R1_001.filtered.trimmed.paired.fastq.gz,LGALS1-BG293LV02-24_S20_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	10992