LGALS3 RNA-Seq in 293T

Experiment Information (Status: Released)

	BG293LV06-25	BG293LV06-26
idx	0	0
TRCN#_or_BGC#	TRCN0000029304	TRCN0000029304
shRNA_or_gRNA_sequence	CCGGGCTCACTTGTTGCAGTACAATCTCGAGATTGTACTGCAACAAGTGAGCTTTTT	CCGGGCTCACTTGTTGCAGTACAATCTCGAGATTGTACTGCAACAAGTGAGCTTTTT
PAM
Name	LGALS3	LGALS3
Sample_ID	BG293LV06-25	BG293LV06-26
transduction_Date	9/5/24	9/5/24
days	D4	D4
RBP_name	LGALS3	LGALS3
qPCR_result	92.9	95.8
Ave_qPCR	94.3
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	12160	12161

Western Blot Western Blot info was not avaliable

Experiment Status

	BG293LV06-25	BG293LV06-26
Sample_ID	BG293LV06-25	BG293LV06-26
Sample Name
Sample Name	LGALS3-BG293LV06-25	LGALS3-BG293LV06-26
RBP	LGALS3	LGALS3
Cell_Line	293T	293T
Exp UID
Status	Released	Released
Status_date	2025-04-21	2025-04-21
Project	ENCORE2	ENCORE2
Note
ID	13462	13463

Library-Prep
Sequencing

Library-Prep Information

	BG293LV06-25	BG293LV06-26
Sample #	29	30
Sample Name	LGALS3-BG293LV06-25	LGALS3-BG293LV06-26
Sample_Name_Alias
Index Well Position	E04	F04
Index_table	IDT_UniqueDualIndex_96_V2	IDT_UniqueDualIndex_96_V2
LibPrep_date	2024-09-25	2024-09-25
Lib_ID	Lib-240925B	Lib-240925B
Tecan_Location
Tecan
Tecan_date
Size_bp	282	281
Peak_Molarity	91.10	98.50
libSampleQC_DNA_Well	DNA_Library_set71/set1/E4.png	DNA_Library_set71/set1/F4.png
RIN	9.9	9.9
libSample_RNA_Well	RNA_Library_set71/set1/E4.png	RNA_Library_set71/set1/F4.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2024-09-30	2024-09-30
Sample_ID	BG293LV06-25	BG293LV06-26
RBP	LGALS3	LGALS3
Batch_ID	BG293LV06	BG293LV06
WB_result	0.000	0.000
Library Description	TruSeq mRNA	TruSeq mRNA
Repeat_Library_Suffix
Lib_Status	SendToSequence	SendToSequence
Project	ENCORE2	ENCORE2
ID	4454	4455

Sequencing Information

	BG293LV06-25	BG293LV06-26
Sample_ID	BG293LV06-25	BG293LV06-26
Sample Name	LGALS3-BG293LV06-25	LGALS3-BG293LV06-26
Pool ID	Pool-240930	Pool-240930
LocalServer_folder	set71	set71
total_reads	28,451,960	29,665,811
total_aligned_reads	26,091,931	27,348,029
unique_aligned_reads	24,420,211	25,592,453
percent_uniqueAligned	0.85830	0.86269
correlation_replicates	0.996495	0.996495
spikein_reads	58,998	78,726
percent_spikeins	0.00207	0.00265
original_ReadLength	101	101
QC_Status	Submitted	Submitted
ID	3023	3024

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
LGALS3-BG293LV06-25_S29_L002_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set71/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3023	NovaSeq6000	100	paired-ended	1				NT-BG293LV06-1merged_S1_L002_R1_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV06-2merged_S2_L002_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	29329
LGALS3-BG293LV06-25_S29_L002_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set71/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3023	NovaSeq6000	100	paired-ended	2				NT-BG293LV06-1merged_S1_L002_R2_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV06-2merged_S2_L002_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	29393
LGALS3-BG293LV06-25_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set71/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3023					GRCh38	V40	LGALS3-BG293LV06-25_S29_L002_R1_001.filtered.trimmed.paired.fastq.gz,LGALS3-BG293LV06-25_S29_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	29458
LGALS3-BG293LV06-25_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set71/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3023					GRCh38	V40	LGALS3-BG293LV06-25_Aligned.sortedByCoord.out.bam		ENCORE2	29522
LGALS3-BG293LV06-25_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set71/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3023					GRCh38	V40	LGALS3-BG293LV06-25_Aligned.sortedByCoord.out.bam		ENCORE2	29586
LGALS3-BG293LV06-25_Signal.Unique.strand-.bw	ENCODE_DATA/set71/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3023					GRCh38	V40	LGALS3-BG293LV06-25_Aligned.sortedByCoord.out.bam		ENCORE2	29650
LGALS3-BG293LV06-25_quant.sf	ENCODE_DATA/set71/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3023					GRCh38	V40	LGALS3-BG293LV06-25_S29_L002_R1_001.filtered.trimmed.paired.fastq.gz,LGALS3-BG293LV06-25_S29_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	29714
LGALS3-BG293LV06-26_S30_L002_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set71/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3024	NovaSeq6000	100	paired-ended	1				NT-BG293LV06-1merged_S1_L002_R1_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV06-2merged_S2_L002_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	29330
LGALS3-BG293LV06-26_S30_L002_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set71/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3024	NovaSeq6000	100	paired-ended	2				NT-BG293LV06-1merged_S1_L002_R2_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV06-2merged_S2_L002_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	29394
LGALS3-BG293LV06-26_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set71/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3024					GRCh38	V40	LGALS3-BG293LV06-26_S30_L002_R1_001.filtered.trimmed.paired.fastq.gz,LGALS3-BG293LV06-26_S30_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	29459
LGALS3-BG293LV06-26_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set71/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3024					GRCh38	V40	LGALS3-BG293LV06-26_Aligned.sortedByCoord.out.bam		ENCORE2	29523
LGALS3-BG293LV06-26_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set71/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3024					GRCh38	V40	LGALS3-BG293LV06-26_Aligned.sortedByCoord.out.bam		ENCORE2	29587
LGALS3-BG293LV06-26_Signal.Unique.strand-.bw	ENCODE_DATA/set71/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3024					GRCh38	V40	LGALS3-BG293LV06-26_Aligned.sortedByCoord.out.bam		ENCORE2	29651
LGALS3-BG293LV06-26_quant.sf	ENCODE_DATA/set71/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3024					GRCh38	V40	LGALS3-BG293LV06-26_S30_L002_R1_001.filtered.trimmed.paired.fastq.gz,LGALS3-BG293LV06-26_S30_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	29715