NUFIP2 RNA-Seq in K562

Experiment Information (Status: Sequenced)

	BGKcLV48-41	BGKcLV48-42
idx	0	0
TRCN#_or_BGC#	BGC#0001036	BGC#0001036
shRNA_or_gRNA_sequence	GTCCCAGCCGCTTTCAATGG	GTCCCAGCCGCTTTCAATGG
PAM	AGG	AGG
Name	NUFIP2_88	NUFIP2_88
Sample_ID	BGKcLV48-41	BGKcLV48-42
transduction_Date	4/15/25	4/15/25
days	D6	D6
RBP_name	NUFIP2	NUFIP2
qPCR_result	33.6	17.7
Ave_qPCR	25.7
RT-qPCR_primer-F	tggaatttgcagaagcaaga
RT-qPCR_primer-R	tctggtccttcattgatctgg
protein_conc	1546	1624
WB_result	66.0	64.8
Ave_WB
WB_DONE_date	5/1/25
MW	76kd
IP
antibody_Cat#	A301-600A	lot # 1
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	6187	6188

Western Blot

RBP	Antibody Info	Primary-HepG2	Secondary-HepG2	Primary-K562	Secondary-K562	Primary-UBERON	Primary-Hela
NUFIP2	Product_ID: A301-600A Lot_ID: 1 Source: Bethyl Labs Target Name: NUFIP2-human

Experiment Status

	BGKcLV48-41	BGKcLV48-42
Sample_ID	BGKcLV48-41	BGKcLV48-42
Sample Name
Sample Name	NUFIP2-BGKcLV48-41	NUFIP2-BGKcLV48-42
RBP	NUFIP2	NUFIP2
Cell_Line	K562	K562
Exp UID
Status	Sequenced	Sequenced
Status_date	2025-10-02	2025-10-02
Project	ENCORE2	ENCORE2
Note
ID	14244	14245

Library-Prep
Sequencing

Library-Prep Information

	BGKcLV48-41	BGKcLV48-42
Sample #	7	8
Sample Name	NUFIP2-BGKcLV48-41	NUFIP2-BGKcLV48-42
Sample_Name_Alias
Index Well Position	G01	H01
Index_table	IDT_UniqueDualIndex_96_V2	IDT_UniqueDualIndex_96_V2
LibPrep_date	2025-08-18	2025-08-18
Lib_ID	Lib-250818	Lib-250818
Tecan_Location
Tecan
Tecan_date
Size_bp	254	254
Peak_Molarity	50.50	41.40
libSampleQC_DNA_Well	DNA_Library_set79/set1/G1.png	DNA_Library_set79/set1/H1.png
RIN	10.0	10.0
libSample_RNA_Well	RNA_Library_set79/set1/G10.png	RNA_Library_set79/set1/H10.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2025-08-19	2025-08-19
Sample_ID	BGKcLV48-41	BGKcLV48-42
RBP	NUFIP2	NUFIP2
Batch_ID	BGKcLV48	BGKcLV48
WB_result	66.000	64.800
Library Description	TruSeq mRNA	TruSeq mRNA
Repeat_Library_Suffix
Lib_Status	SendToSequence	SendToSequence
Project	ENCORE2	ENCORE2
ID	4752	4753

Sequencing Information

	BGKcLV48-41	BGKcLV48-42
Sample_ID	BGKcLV48-41	BGKcLV48-42
Sample Name	NUFIP2-BGKcLV48-41	NUFIP2-BGKcLV48-42
Pool ID	Pool-250822	Pool-250822
LocalServer_folder	set79	set79
total_reads	31,170,334	16,872,383
total_aligned_reads	26,753,318	12,667,763
unique_aligned_reads	24,629,125	11,667,470
percent_uniqueAligned	0.79015	0.69151
correlation_replicates	0.998086	0.998086
spikein_reads	127,330	57,490
percent_spikeins	0.00408	0.00341
original_ReadLength	151	151
QC_Status	ReadyToSubmit	ReadyToSubmit
ID	3455	3456

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
NUFIP2-BGKcLV48-41_S171_L002_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set79/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3455	NovaSeq6000	100	paired-ended	1				NT-BGKcLV48-1_S165_L002_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGKcLV48-2_S166_L002_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	32826
NUFIP2-BGKcLV48-41_S171_L002_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set79/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3455	NovaSeq6000	100	paired-ended	2				NT-BGKcLV48-1_S165_L002_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGKcLV48-2_S166_L002_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	32848
NUFIP2-BGKcLV48-41_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set79/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3455					GRCh38	V40	NUFIP2-BGKcLV48-41_S171_L002_R1_001.filtered.trimmed.paired.fastq.gz,NUFIP2-BGKcLV48-41_S171_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	32870
NUFIP2-BGKcLV48-41_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set79/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3455					GRCh38	V40	NUFIP2-BGKcLV48-41_Aligned.sortedByCoord.out.bam		ENCORE2	32892
NUFIP2-BGKcLV48-41_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set79/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3455					GRCh38	V40	NUFIP2-BGKcLV48-41_Aligned.sortedByCoord.out.bam		ENCORE2	32914
NUFIP2-BGKcLV48-41_Signal.Unique.strand-.bw	ENCODE_DATA/set79/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3455					GRCh38	V40	NUFIP2-BGKcLV48-41_Aligned.sortedByCoord.out.bam		ENCORE2	32936
NUFIP2-BGKcLV48-41_Signal.Unique.strand+.bw	ENCODE_DATA/set79/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3455					GRCh38	V40	NUFIP2-BGKcLV48-41_Aligned.sortedByCoord.out.bam		ENCORE2	32958
NUFIP2-BGKcLV48-42_S172_L002_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set79/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3456	NovaSeq6000	100	paired-ended	1				NT-BGKcLV48-1_S165_L002_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGKcLV48-2_S166_L002_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	32827
NUFIP2-BGKcLV48-42_S172_L002_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set79/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3456	NovaSeq6000	100	paired-ended	2				NT-BGKcLV48-1_S165_L002_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGKcLV48-2_S166_L002_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	32849
NUFIP2-BGKcLV48-42_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set79/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3456					GRCh38	V40	NUFIP2-BGKcLV48-42_S172_L002_R1_001.filtered.trimmed.paired.fastq.gz,NUFIP2-BGKcLV48-42_S172_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	32871
NUFIP2-BGKcLV48-42_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set79/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3456					GRCh38	V40	NUFIP2-BGKcLV48-42_Aligned.sortedByCoord.out.bam		ENCORE2	32893
NUFIP2-BGKcLV48-42_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set79/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3456					GRCh38	V40	NUFIP2-BGKcLV48-42_Aligned.sortedByCoord.out.bam		ENCORE2	32915
NUFIP2-BGKcLV48-42_Signal.Unique.strand-.bw	ENCODE_DATA/set79/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3456					GRCh38	V40	NUFIP2-BGKcLV48-42_Aligned.sortedByCoord.out.bam		ENCORE2	32937
NUFIP2-BGKcLV48-42_Signal.Unique.strand+.bw	ENCODE_DATA/set79/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3456					GRCh38	V40	NUFIP2-BGKcLV48-42_Aligned.sortedByCoord.out.bam		ENCORE2	32959