LGALS3 RNA-Seq in 293T

Experiment Information (Status: Revoked)

	BG293LV02-25	BG293LV02-26
idx	0	0
TRCN#_or_BGC#	TRCN0000029304	TRCN0000029304
shRNA_or_gRNA_sequence	CCGGGCTCACTTGTTGCAGTACAATCTCGAGATTGTACTGCAACAAGTGAGCTTTTT	CCGGGCTCACTTGTTGCAGTACAATCTCGAGATTGTACTGCAACAAGTGAGCTTTTT
PAM
Name	LGALS3	LGALS3
Sample_ID	BG293LV02-25	BG293LV02-26
transduction_Date	3/20/23	3/20/23
days	D4	D4
RBP_name	LGALS3	LGALS3
qPCR_result	92.4	95.0
Ave_qPCR	93.7
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	9820	9821

Western Blot Western Blot info was not avaliable

Experiment Status

	BG293LV02-25	BG293LV02-26
Sample_ID	BG293LV02-25	BG293LV02-26
Sample Name
Sample Name	LGALS3-BG293LV02-25	LGALS3-BG293LV02-26
RBP	LGALS3	LGALS3
Cell_Line	293T	293T
Exp UID
Status	Revoked	Revoked
Status_date	2023-09-20	2023-09-20
Project	ENCORE2	ENCORE2
Note
ID	11578	11579

Library-Prep
Sequencing

Library-Prep Information

	BG293LV02-25	BG293LV02-26
Sample #	21	22
Sample Name	LGALS3-BG293LV02-25	LGALS3-BG293LV02-26
Sample_Name_Alias
Index Well Position	E03	F03
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	281	283
Peak_Molarity	97.40	107.00
libSampleQC_DNA_Well	DNA_Library_set60-62/set2/E3.png	DNA_Library_set60-62/set2/F3.png
RIN	9.9	9.7
libSample_RNA_Well	RNA_Library_set60-62/set1/E3.png	RNA_Library_set60-62/set1/F3.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2023-04-17	2023-04-17
Sample_ID	BG293LV02-25	BG293LV02-26
RBP	LGALS3	LGALS3
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	3608	3609

Sequencing Information

	BG293LV02-25	BG293LV02-26
Sample_ID	BG293LV02-25	BG293LV02-26
Sample Name	LGALS3-BG293LV02-25	LGALS3-BG293LV02-26
Pool ID	Pool-230417	Pool-230417
LocalServer_folder	set60	set60
total_reads	44,790,485	35,221,758
total_aligned_reads	36,690,429	31,189,195
unique_aligned_reads	34,143,860	29,023,673
percent_uniqueAligned	0.76230	0.82403
correlation_replicates	0.972244	0.972244
spikein_reads	66,738	74,506
percent_spikeins	0.00149	0.00212
original_ReadLength	101	101
QC_Status	Submitting	Submitting
ID	2479	2480

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-BG293LV02-25_S21_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set60/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2479	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	7980
LGALS3-BG293LV02-25_S21_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set60/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2479	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	8024
LGALS3-BG293LV02-25_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set60/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	2479					GRCh38	V40	LGALS3-BG293LV02-25_S21_L001_R1_001.filtered.trimmed.paired.fastq.gz,LGALS3-BG293LV02-25_S21_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	10773
LGALS3-BG293LV02-25_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	2479					GRCh38	V40	LGALS3-BG293LV02-25/Aligned.sortedByCoord.out.bam		ENCORE2	10817
LGALS3-BG293LV02-25_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	2479					GRCh38	V40	LGALS3-BG293LV02-25/Aligned.sortedByCoord.out.bam		ENCORE2	10861
LGALS3-BG293LV02-25_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	2479					GRCh38	V40	LGALS3-BG293LV02-25/Aligned.sortedByCoord.out.bam		ENCORE2	10905
LGALS3-BG293LV02-25_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	2479					GRCh38	V40	LGALS3-BG293LV02-25/Aligned.sortedByCoord.out.bam		ENCORE2	10949
LGALS3-BG293LV02-25_quant.sf	ENCODE_DATA/set60/salmon_ENCORE2	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	2479					GRCh38	V40	LGALS3-BG293LV02-25_S21_L001_R1_001.filtered.trimmed.paired.fastq.gz,LGALS3-BG293LV02-25_S21_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	10993
LGALS3-BG293LV02-26_S22_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set60/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2480	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	7981
LGALS3-BG293LV02-26_S22_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set60/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2480	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	8025
LGALS3-BG293LV02-26_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set60/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	2480					GRCh38	V40	LGALS3-BG293LV02-26_S22_L001_R1_001.filtered.trimmed.paired.fastq.gz,LGALS3-BG293LV02-26_S22_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	10774
LGALS3-BG293LV02-26_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	2480					GRCh38	V40	LGALS3-BG293LV02-26/Aligned.sortedByCoord.out.bam		ENCORE2	10818
LGALS3-BG293LV02-26_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	2480					GRCh38	V40	LGALS3-BG293LV02-26/Aligned.sortedByCoord.out.bam		ENCORE2	10862
LGALS3-BG293LV02-26_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	2480					GRCh38	V40	LGALS3-BG293LV02-26/Aligned.sortedByCoord.out.bam		ENCORE2	10906
LGALS3-BG293LV02-26_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	2480					GRCh38	V40	LGALS3-BG293LV02-26/Aligned.sortedByCoord.out.bam		ENCORE2	10950
LGALS3-BG293LV02-26_quant.sf	ENCODE_DATA/set60/salmon_ENCORE2	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	2480					GRCh38	V40	LGALS3-BG293LV02-26_S22_L001_R1_001.filtered.trimmed.paired.fastq.gz,LGALS3-BG293LV02-26_S22_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	10994