SRSF10 RNA-Seq in K562

General Information


RBP	SRSF10
Cell_Line	K562
Method	CRISPR
Exp_Name	SRSF10-BGKcLV44-K562
ENCODE_series_ID
Batch_ID	BGKcLV44
Pool ID	Pool-241015
Local_Set_Name	set75
ENCODE_KD_Exp_ID
ENCODE_CN_Exp_ID
Rep1	SRSF10-BGKcLV44-69
Rep2	SRSF10-BGKcLV44-70
CN1	NT-BGKcLV44-1
CN2	NT-BGKcLV44-2
Rep1_qPCR	10.0
Rep2_qPCR	22.7
Rep1_WB	79.0
Rep2_WB	76.8
Antibody Cat#	RN064PW/4
Antibody Lot#
Antibody DCC ID
Status	Submitted
Project	ENCORE2
ID	1610

Experiment Information (Status: Submitting)

	BGKcLV44-69	BGKcLV44-70
idx	0	0
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	BGKcLV44-69	BGKcLV44-70
transduction_Date	7/30/24	7/30/24
days	D6	D6
RBP_name	SRSF10	SRSF10
qPCR_result	10.0	22.7
Ave_qPCR	16.4
RT-qPCR_primer-F	CCCCCAACACGTCTCTGTT
RT-qPCR_primer-R	AAATTCACGCCGCAAGTCT
protein_conc	4878	4258
WB_result	79.0	76.8
Ave_WB
WB_DONE_date	8/14/24,8/28/24
MW
IP
antibody_Cat#	RN064PW/4
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	5952	5953

Western Blot

RBP	Antibody Info	Primary-HepG2	Secondary-HepG2	Primary-K562	Secondary-K562	Primary-UBERON	Primary-Hela
SRSF10	Product_ID: RN064PW Lot_ID: 001 Source: MBLI Target Name: SRSF10-human

Experiment Status

	BGKcLV44-69	BGKcLV44-70
Sample_ID	BGKcLV44-69	BGKcLV44-70
Sample Name
Sample Name	SRSF10-BGKcLV44-69	SRSF10-BGKcLV44-70
RBP	SRSF10	SRSF10
Cell_Line	K562	K562
Exp UID
Status	Submitting	Submitting
Status_date	2025-02-11	2025-02-11
Project	ENCORE2	ENCORE2
Note
ID	13612	13613

Library-Prep
Sequencing

Library-Prep Information

	BGKcLV44-69	BGKcLV44-70
Sample #	41	42
Sample Name	SRSF10-BGKcLV44-69	SRSF10-BGKcLV44-70
Sample_Name_Alias
Index Well Position	A11	B11
Index_table	IDT_UniqueDualIndex_96_V2	IDT_UniqueDualIndex_96_V2
LibPrep_date	2024-10-10	2024-10-10
Lib_ID	Lib-241010	Lib-241010
Tecan_Location
Tecan
Tecan_date
Size_bp	288	287
Peak_Molarity	65.90	74.90
libSampleQC_DNA_Well	DNA_Library_set75/set1/A11.png	DNA_Library_set75/set1/B11.png
RIN	10.0	10.0
libSample_RNA_Well	RNA_Library_set75/set1/A5.png	RNA_Library_set75/set1/B5.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2024-10-15	2024-10-15
Sample_ID	BGKcLV44-69	BGKcLV44-70
RBP	SRSF10	SRSF10
Batch_ID	BGKcLV44	BGKcLV44
WB_result	79.000	76.800
Library Description	TruSeq mRNA	TruSeq mRNA
Repeat_Library_Suffix
Lib_Status	SendToSequence	SendToSequence
Project	ENCORE2	ENCORE2
ID	4600	4601

Sequencing Information

	BGKcLV44-69	BGKcLV44-70
Sample_ID	BGKcLV44-69	BGKcLV44-70
Sample Name	SRSF10-BGKcLV44-69	SRSF10-BGKcLV44-70
Pool ID	Pool-241015	Pool-241015
LocalServer_folder	set75	set75
total_reads	63,820,034	46,536,027
total_aligned_reads	61,005,094	43,397,168
unique_aligned_reads	56,512,595	40,176,585
percent_uniqueAligned	0.88550	0.86334
correlation_replicates	0.995578	0.995578
spikein_reads	162,994	106,952
percent_spikeins	0.00255	0.00230
original_ReadLength	101	101
QC_Status	Submitting	Submitting
ID	3311	3312

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-BGKcLV44-69_S33_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set75/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3311	NovaSeq6000	100	paired-ended	1				NT-BGKcLV44-1_S1_L001_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGKcLV44-2_S2_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	30970
SRSF10-BGKcLV44-69_S33_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set75/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3311	NovaSeq6000	100	paired-ended	2				NT-BGKcLV44-1_S1_L001_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGKcLV44-2_S2_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	31012
SRSF10-BGKcLV44-69_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set75/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3311					GRCh38	V40	SRSF10-BGKcLV44-69_S33_L001_R1_001.filtered.trimmed.paired.fastq.gz,SRSF10-BGKcLV44-69_S33_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	31054
SRSF10-BGKcLV44-69_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set75/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3311					GRCh38	V40	SRSF10-BGKcLV44-69_Aligned.sortedByCoord.out.bam		ENCORE2	31096
SRSF10-BGKcLV44-69_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set75/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3311					GRCh38	V40	SRSF10-BGKcLV44-69_Aligned.sortedByCoord.out.bam		ENCORE2	31138
SRSF10-BGKcLV44-69_Signal.Unique.strand-.bw	ENCODE_DATA/set75/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3311					GRCh38	V40	SRSF10-BGKcLV44-69_Aligned.sortedByCoord.out.bam		ENCORE2	31180
SRSF10-BGKcLV44-69_Signal.Unique.strand+.bw	ENCODE_DATA/set75/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3311					GRCh38	V40	SRSF10-BGKcLV44-69_Aligned.sortedByCoord.out.bam		ENCORE2	31222
SRSF10-BGKcLV44-69_quant.sf	ENCODE_DATA/set75/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3311					GRCh38	V40	SRSF10-BGKcLV44-69_S33_L001_R1_001.filtered.trimmed.paired.fastq.gz,SRSF10-BGKcLV44-69_S33_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	31264
SRSF10-BGKcLV44-70_S34_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set75/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3312	NovaSeq6000	100	paired-ended	1				NT-BGKcLV44-1_S1_L001_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGKcLV44-2_S2_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	30971
SRSF10-BGKcLV44-70_S34_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set75/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3312	NovaSeq6000	100	paired-ended	2				NT-BGKcLV44-1_S1_L001_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGKcLV44-2_S2_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	31013
SRSF10-BGKcLV44-70_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set75/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3312					GRCh38	V40	SRSF10-BGKcLV44-70_S34_L001_R1_001.filtered.trimmed.paired.fastq.gz,SRSF10-BGKcLV44-70_S34_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	31055
SRSF10-BGKcLV44-70_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set75/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3312					GRCh38	V40	SRSF10-BGKcLV44-70_Aligned.sortedByCoord.out.bam		ENCORE2	31097
SRSF10-BGKcLV44-70_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set75/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3312					GRCh38	V40	SRSF10-BGKcLV44-70_Aligned.sortedByCoord.out.bam		ENCORE2	31139
SRSF10-BGKcLV44-70_Signal.Unique.strand-.bw	ENCODE_DATA/set75/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3312					GRCh38	V40	SRSF10-BGKcLV44-70_Aligned.sortedByCoord.out.bam		ENCORE2	31181
SRSF10-BGKcLV44-70_Signal.Unique.strand+.bw	ENCODE_DATA/set75/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3312					GRCh38	V40	SRSF10-BGKcLV44-70_Aligned.sortedByCoord.out.bam		ENCORE2	31223
SRSF10-BGKcLV44-70_quant.sf	ENCODE_DATA/set75/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3312					GRCh38	V40	SRSF10-BGKcLV44-70_S34_L001_R1_001.filtered.trimmed.paired.fastq.gz,SRSF10-BGKcLV44-70_S34_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	31265