SRSF10 RNA-Seq in HepG2

General Information


RBP	SRSF10
Cell_Line	HepG2
Method	CRISPR
Exp_Name	SRSF10-BGHcLV45-HepG2
ENCODE_series_ID
Batch_ID	BGHcLV45
Pool ID	Pool-241205
Local_Set_Name	set76
ENCODE_KD_Exp_ID
ENCODE_CN_Exp_ID
Rep1	SRSF10-BGHcLV45-65
Rep2	SRSF10-BGHcLV45-66
CN1	NT-BGHcLV45-1
CN2	NT-BGHcLV45-2
Rep1_qPCR	0.0
Rep2_qPCR	0.0
Rep1_WB	59.0
Rep2_WB	69.5
Antibody Cat#	RN064PW/4
Antibody Lot#	LOT# 001
Antibody DCC ID
Status	Submitted
Project	ENCORE2
ID	1629

Experiment Information (Status: Submitting)

	BGHcLV45-65	BGHcLV45-66
idx	1217	1217
TRCN#_or_BGC#	BGC#0000098	BGC#0000098
shRNA_or_gRNA_sequence	GGAACGTGGCCGACGACACC	GGAACGTGGCCGACGACACC
PAM	AGG	AGG
Name	SRSF10_91B-1	SRSF10_91B-1
Sample_ID	BGHcLV45-65	BGHcLV45-66
transduction_Date	10/1/24	10/1/24
days	D6	D6
RBP_name	SRSF10	SRSF10
qPCR_result	0.0	0.0
Ave_qPCR	0.0
RT-qPCR_primer-F	CCCCCAACACGTCTCTGTT
RT-qPCR_primer-R	AAATTCACGCCGCAAGTCT
protein_conc	3255	2870
WB_result	59.0	69.5
Ave_WB
WB_DONE_date	10/22/24,11/15/24
MW	40KD
IP
antibody_Cat#	RN064PW/4	LOT# 001
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	9755	9756

Western Blot Western Blot info was not avaliable

Experiment Status

	BGHcLV45-65	BGHcLV45-66
Sample_ID	BGHcLV45-65	BGHcLV45-66
Sample Name
Sample Name	SRSF10-BGHcLV45-65	SRSF10-BGHcLV45-66
RBP	SRSF10	SRSF10
Cell_Line	HepG2	HepG2
Exp UID
Status	Submitting	Submitting
Status_date	2025-04-21	2025-04-21
Project	ENCORE2	ENCORE2
Note
ID	13716	13717

Library-Prep
Sequencing

Library-Prep Information

	BGHcLV45-65	BGHcLV45-66
Sample #	31	32
Sample Name	SRSF10-BGHcLV45-65	SRSF10-BGHcLV45-66
Sample_Name_Alias
Index Well Position	G10	H10
Index_table	IDT_UniqueDualIndex_96_V2	IDT_UniqueDualIndex_96_V2
LibPrep_date	2024-12-02	2024-12-02
Lib_ID	Lib-241202	Lib-241202
Tecan_Location
Tecan
Tecan_date
Size_bp	286	289
Peak_Molarity	64.60	38.50
libSampleQC_DNA_Well	DNA_Library_set76/set1/G10.png	DNA_Library_set76/set1/H10.png
RIN	10.0	10.0
libSample_RNA_Well	RNA_Library_set76/set1/G4.png	RNA_Library_set76/set1/H4.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2024-12-05	2024-12-05
Sample_ID	BGHcLV45-65	BGHcLV45-66
RBP	SRSF10	SRSF10
Batch_ID	BGHcLV45	BGHcLV45
WB_result	59.000	69.500
Library Description	TruSeq mRNA	TruSeq mRNA
Repeat_Library_Suffix
Lib_Status	SendToSequence	SendToSequence
Project	ENCORE2	ENCORE2
ID	4640	4641

Sequencing Information

	BGHcLV45-65	BGHcLV45-66
Sample_ID	BGHcLV45-65	BGHcLV45-66
Sample Name	SRSF10-BGHcLV45-65	SRSF10-BGHcLV45-66
Pool ID	Pool-241205	Pool-241205
LocalServer_folder	set76	set76
total_reads	46,388,064	80,901,994
total_aligned_reads	42,657,977	75,088,232
unique_aligned_reads	40,180,924	70,625,998
percent_uniqueAligned	0.86619	0.87298
correlation_replicates	0.998160	0.998160
spikein_reads	20,544	90,354
percent_spikeins	0.00044	0.00112
original_ReadLength	101	101
QC_Status	Submitting	Submitting
ID	3351	3352

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
SRSF10-BGHcLV45-65_S31_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set76/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3351	NovaSeq6000	100	paired-ended	1				NT-BGHcLV45-1_S1_L001_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV45-2_S2_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	31842
SRSF10-BGHcLV45-65_S31_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set76/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3351	NovaSeq6000	100	paired-ended	2				NT-BGHcLV45-1_S1_L001_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV45-2_S2_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	31884
SRSF10-BGHcLV45-65_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set76/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3351					GRCh38	V40	SRSF10-BGHcLV45-65_S31_L001_R1_001.filtered.trimmed.paired.fastq.gz,SRSF10-BGHcLV45-65_S31_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	31926
SRSF10-BGHcLV45-65_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set76/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3351					GRCh38	V40	SRSF10-BGHcLV45-65_Aligned.sortedByCoord.out.bam		ENCORE2	31968
SRSF10-BGHcLV45-65_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set76/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3351					GRCh38	V40	SRSF10-BGHcLV45-65_Aligned.sortedByCoord.out.bam		ENCORE2	32010
SRSF10-BGHcLV45-65_Signal.Unique.strand-.bw	ENCODE_DATA/set76/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3351					GRCh38	V40	SRSF10-BGHcLV45-65_Aligned.sortedByCoord.out.bam		ENCORE2	32052
SRSF10-BGHcLV45-65_Signal.Unique.strand+.bw	ENCODE_DATA/set76/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3351					GRCh38	V40	SRSF10-BGHcLV45-65_Aligned.sortedByCoord.out.bam		ENCORE2	32094
SRSF10-BGHcLV45-65_quant.sf	ENCODE_DATA/set76/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3351					GRCh38	V40	SRSF10-BGHcLV45-65_S31_L001_R1_001.filtered.trimmed.paired.fastq.gz,SRSF10-BGHcLV45-65_S31_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	32136
SRSF10-BGHcLV45-66_S32_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set76/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3352	NovaSeq6000	100	paired-ended	1				NT-BGHcLV45-1_S1_L001_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV45-2_S2_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	31843
SRSF10-BGHcLV45-66_S32_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set76/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3352	NovaSeq6000	100	paired-ended	2				NT-BGHcLV45-1_S1_L001_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV45-2_S2_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	31885
SRSF10-BGHcLV45-66_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set76/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3352					GRCh38	V40	SRSF10-BGHcLV45-66_S32_L001_R1_001.filtered.trimmed.paired.fastq.gz,SRSF10-BGHcLV45-66_S32_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	31927
SRSF10-BGHcLV45-66_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set76/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3352					GRCh38	V40	SRSF10-BGHcLV45-66_Aligned.sortedByCoord.out.bam		ENCORE2	31969
SRSF10-BGHcLV45-66_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set76/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3352					GRCh38	V40	SRSF10-BGHcLV45-66_Aligned.sortedByCoord.out.bam		ENCORE2	32011
SRSF10-BGHcLV45-66_Signal.Unique.strand-.bw	ENCODE_DATA/set76/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3352					GRCh38	V40	SRSF10-BGHcLV45-66_Aligned.sortedByCoord.out.bam		ENCORE2	32053
SRSF10-BGHcLV45-66_Signal.Unique.strand+.bw	ENCODE_DATA/set76/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3352					GRCh38	V40	SRSF10-BGHcLV45-66_Aligned.sortedByCoord.out.bam		ENCORE2	32095
SRSF10-BGHcLV45-66_quant.sf	ENCODE_DATA/set76/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3352					GRCh38	V40	SRSF10-BGHcLV45-66_S32_L001_R1_001.filtered.trimmed.paired.fastq.gz,SRSF10-BGHcLV45-66_S32_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	32137