CLASP2 RNA-Seq in HepG2

Experiment Information (Status: Sequenced)

	BGHcLV49-17	BGHcLV49-18
idx	1716	1717
TRCN#_or_BGC#	BGC#0000696	BGC#0000696
shRNA_or_gRNA_sequence	GATGAGGACCTGTCTGATTG	GATGAGGACCTGTCTGATTG
PAM	TGG	TGG
Name	CLASP2_81	CLASP2_81
Sample_ID	BGHcLV49-17	BGHcLV49-18
transduction_Date	6/6/25	6/6/25
days	D6	D6
RBP_name	CLASP2	CLASP2
qPCR_result	29.0	27.0
Ave_qPCR	28.0
RT-qPCR_primer-F	tacgattgttggatggagca
RT-qPCR_primer-R	tgcactattggggacgagat
protein_conc	5217	4638
WB_result	97.4	88.8
Ave_WB
WB_DONE_date	6/17/25	need discussion
MW	141kd
IP	Rabbit / I
antibody_Cat#	A302-155A	LOT #2
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	9905	9906

Western Blot Western Blot info was not avaliable

Experiment Status

	BGHcLV49-17	BGHcLV49-18
Sample_ID	BGHcLV49-17	BGHcLV49-18
Sample Name
Sample Name	CLASP2-BGHcLV49-17	CLASP2-BGHcLV49-18
RBP	CLASP2	CLASP2
Cell_Line	HepG2	HepG2
Exp UID
Status	Sequenced	Sequenced
Status_date	2025-10-30	2025-10-30
Project	ENCORE2	ENCORE2
Note
ID	14336	14337

Library-Prep
Sequencing

Library-Prep Information

	BGHcLV49-17	BGHcLV49-18
Sample #	33	34
Sample Name	CLASP2-BGHcLV49-17	CLASP2-BGHcLV49-18
Sample_Name_Alias
Index Well Position	C05	D05
Index_table	IDT_UniqueDualIndex_96_V2	IDT_UniqueDualIndex_96_V2
LibPrep_date	2025-08-20	2025-08-20
Lib_ID	Lib-250820	Lib-250820
Tecan_Location
Tecan
Tecan_date
Size_bp	272	270
Peak_Molarity	72.70	70.00
libSampleQC_DNA_Well	DNA_Library_set81/set1/C2.png	DNA_Library_set81/set1/D2.png
RIN	10.0	10.0
libSample_RNA_Well	RNA_Library_set81/set1/C5.png	RNA_Library_set81/set1/D5.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2025-09-10	2025-09-10
Sample_ID	BGHcLV49-17	BGHcLV49-18
RBP	CLASP2	CLASP2
Batch_ID	BGHcLV49	BGHcLV49
WB_result	97.400	88.800
Library Description	TruSeq mRNA	TruSeq mRNA
Repeat_Library_Suffix
Lib_Status	SendToSequence	SendToSequence
Project	ENCORE2	ENCORE2
ID	4778	4779

Sequencing Information

	BGHcLV49-17	BGHcLV49-18
Sample_ID	BGHcLV49-17	BGHcLV49-18
Sample Name	CLASP2-BGHcLV49-17	CLASP2-BGHcLV49-18
Pool ID	Pool-250916	Pool-250916
LocalServer_folder	set81	set81
total_reads	28,589,935	23,315,156
total_aligned_reads	24,725,488	19,611,456
unique_aligned_reads	23,322,639	18,496,232
percent_uniqueAligned	0.81576	0.79331
correlation_replicates	0.997240	0.997240
spikein_reads	81,706	68,300
percent_spikeins	0.00286	0.00293
original_ReadLength	151	151
QC_Status	ReadyToSubmit	ReadyToSubmit
ID	3505	3506

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
CLASP2-BGHcLV49-17_S123_L008_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set81/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3505	NovaSeq6000	100	paired-ended	1				NT-BGHcLV49-1_S111_L008_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV49-2_S136_L008_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	33174
CLASP2-BGHcLV49-17_S123_L008_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set81/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3505	NovaSeq6000	100	paired-ended	2				NT-BGHcLV49-1_S111_L008_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV49-2_S136_L008_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	33220
CLASP2-BGHcLV49-17_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set81/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3505					GRCh38	V40	CLASP2-BGHcLV49-17_S123_L008_R1_001.filtered.trimmed.paired.fastq.gz,CLASP2-BGHcLV49-17_S123_L008_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	33266
CLASP2-BGHcLV49-17_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set81/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3505					GRCh38	V40	CLASP2-BGHcLV49-17_Aligned.sortedByCoord.out.bam		ENCORE2	33312
CLASP2-BGHcLV49-17_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set81/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3505					GRCh38	V40	CLASP2-BGHcLV49-17_Aligned.sortedByCoord.out.bam		ENCORE2	33358
CLASP2-BGHcLV49-17_Signal.Unique.strand-.bw	ENCODE_DATA/set81/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3505					GRCh38	V40	CLASP2-BGHcLV49-17_Aligned.sortedByCoord.out.bam		ENCORE2	33404
CLASP2-BGHcLV49-17_Signal.Unique.strand+.bw	ENCODE_DATA/set81/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3505					GRCh38	V40	CLASP2-BGHcLV49-17_Aligned.sortedByCoord.out.bam		ENCORE2	33450
CLASP2-BGHcLV49-17_quant.sf	ENCODE_DATA/set81/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3505					GRCh38	V40	CLASP2-BGHcLV49-17_S123_L008_R1_001.filtered.trimmed.paired.fastq.gz,CLASP2-BGHcLV49-17_S123_L008_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	33496
CLASP2-BGHcLV49-18_S119_L008_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set81/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3506	NovaSeq6000	100	paired-ended	1				NT-BGHcLV49-1_S111_L008_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV49-2_S136_L008_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	33175
CLASP2-BGHcLV49-18_S119_L008_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set81/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3506	NovaSeq6000	100	paired-ended	2				NT-BGHcLV49-1_S111_L008_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV49-2_S136_L008_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	33221
CLASP2-BGHcLV49-18_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set81/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3506					GRCh38	V40	CLASP2-BGHcLV49-18_S119_L008_R1_001.filtered.trimmed.paired.fastq.gz,CLASP2-BGHcLV49-18_S119_L008_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	33267
CLASP2-BGHcLV49-18_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set81/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3506					GRCh38	V40	CLASP2-BGHcLV49-18_Aligned.sortedByCoord.out.bam		ENCORE2	33313
CLASP2-BGHcLV49-18_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set81/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3506					GRCh38	V40	CLASP2-BGHcLV49-18_Aligned.sortedByCoord.out.bam		ENCORE2	33359
CLASP2-BGHcLV49-18_Signal.Unique.strand-.bw	ENCODE_DATA/set81/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3506					GRCh38	V40	CLASP2-BGHcLV49-18_Aligned.sortedByCoord.out.bam		ENCORE2	33405
CLASP2-BGHcLV49-18_Signal.Unique.strand+.bw	ENCODE_DATA/set81/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3506					GRCh38	V40	CLASP2-BGHcLV49-18_Aligned.sortedByCoord.out.bam		ENCORE2	33451
CLASP2-BGHcLV49-18_quant.sf	ENCODE_DATA/set81/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3506					GRCh38	V40	CLASP2-BGHcLV49-18_S119_L008_R1_001.filtered.trimmed.paired.fastq.gz,CLASP2-BGHcLV49-18_S119_L008_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	33497