RNH1 RNA-Seq in K562

Experiment Information (Status: Sequenced)

	BGKcLV48-59	BGKcLV48-60
idx	0	0
TRCN#_or_BGC#	BGC#0001371	BGC#0001371
shRNA_or_gRNA_sequence	CCTTGCACCGTGCTTCCGTG	CCTTGCACCGTGCTTCCGTG
PAM	AGG	AGG
Name	RNH1_90	RNH1_90
Sample_ID	BGKcLV48-59	BGKcLV48-60
transduction_Date	4/15/25	4/15/25
days	D6	D6
RBP_name	RNH1	RNH1
qPCR_result	62.3	62.8
Ave_qPCR	62.6
RT-qPCR_primer-F	aaggagctcacggttagcaa
RT-qPCR_primer-R	cggcagttgtctgatgtcac
protein_conc	2008	2021
WB_result	58.0	56.7
Ave_WB
WB_DONE_date	5/14/25
MW	50KD
IP
antibody_Cat#	A305-357A	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	6207	6208

Western Blot

RBP	Antibody Info	Primary-HepG2	Secondary-HepG2	Primary-K562	Secondary-K562	Primary-UBERON	Primary-Hela
RNH1	Product_ID: A305-357A Lot_ID: 1 Source: Bethyl Labs Target Name: RNH1-human

Experiment Status

	BGKcLV48-59	BGKcLV48-60
Sample_ID	BGKcLV48-59	BGKcLV48-60
Sample Name
Sample Name	RNH1-BGKcLV48-59	RNH1-BGKcLV48-60
RBP	RNH1	RNH1
Cell_Line	K562	K562
Exp UID
Status	Sequenced	Sequenced
Status_date	2025-10-02	2025-10-02
Project	ENCORE2	ENCORE2
Note
ID	14250	14251

Library-Prep
Sequencing

Library-Prep Information

	BGKcLV48-59	BGKcLV48-60
Sample #	13	14
Sample Name	RNH1-BGKcLV48-59	RNH1-BGKcLV48-60
Sample_Name_Alias
Index Well Position	E02	F02
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	262	261
Peak_Molarity	108.00	74.10
libSampleQC_DNA_Well	DNA_Library_set79/set1/E2.png	DNA_Library_set79/set1/F2.png
RIN	10.0	10.0
libSample_RNA_Well	RNA_Library_set79/set1/E11.png	RNA_Library_set79/set1/F11.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2025-08-19	2025-08-19
Sample_ID	BGKcLV48-59	BGKcLV48-60
RBP	RNH1	RNH1
Batch_ID	BGKcLV48	BGKcLV48
WB_result	58.000	56.700
Library Description	TruSeq mRNA	TruSeq mRNA
Repeat_Library_Suffix
Lib_Status	SendToSequence	SendToSequence
Project	ENCORE2	ENCORE2
ID	4758	4759

Sequencing Information

	BGKcLV48-59	BGKcLV48-60
Sample_ID	BGKcLV48-59	BGKcLV48-60
Sample Name	RNH1-BGKcLV48-59	RNH1-BGKcLV48-60
Pool ID	Pool-250822	Pool-250822
LocalServer_folder	set79	set79
total_reads	26,149,918	29,072,317
total_aligned_reads	23,026,450	25,397,147
unique_aligned_reads	21,307,127	23,459,561
percent_uniqueAligned	0.81481	0.80694
correlation_replicates	0.997865	0.997865
spikein_reads	85,640	85,194
percent_spikeins	0.00327	0.00293
original_ReadLength	151	151
QC_Status	ReadyToSubmit	ReadyToSubmit
ID	3461	3462

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
RNH1-BGKcLV48-59_S177_L002_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set79/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3461	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	32832
RNH1-BGKcLV48-59_S177_L002_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set79/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3461	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	32854
RNH1-BGKcLV48-59_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set79/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3461					GRCh38	V40	RNH1-BGKcLV48-59_S177_L002_R1_001.filtered.trimmed.paired.fastq.gz,RNH1-BGKcLV48-59_S177_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	32876
RNH1-BGKcLV48-59_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	3461					GRCh38	V40	RNH1-BGKcLV48-59_Aligned.sortedByCoord.out.bam		ENCORE2	32898
RNH1-BGKcLV48-59_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	3461					GRCh38	V40	RNH1-BGKcLV48-59_Aligned.sortedByCoord.out.bam		ENCORE2	32920
RNH1-BGKcLV48-59_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	3461					GRCh38	V40	RNH1-BGKcLV48-59_Aligned.sortedByCoord.out.bam		ENCORE2	32942
RNH1-BGKcLV48-59_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	3461					GRCh38	V40	RNH1-BGKcLV48-59_Aligned.sortedByCoord.out.bam		ENCORE2	32964
RNH1-BGKcLV48-60_S178_L002_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set79/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3462	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	32833
RNH1-BGKcLV48-60_S178_L002_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set79/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3462	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	32855
RNH1-BGKcLV48-60_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set79/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3462					GRCh38	V40	RNH1-BGKcLV48-60_S178_L002_R1_001.filtered.trimmed.paired.fastq.gz,RNH1-BGKcLV48-60_S178_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	32877
RNH1-BGKcLV48-60_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	3462					GRCh38	V40	RNH1-BGKcLV48-60_Aligned.sortedByCoord.out.bam		ENCORE2	32899
RNH1-BGKcLV48-60_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	3462					GRCh38	V40	RNH1-BGKcLV48-60_Aligned.sortedByCoord.out.bam		ENCORE2	32921
RNH1-BGKcLV48-60_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	3462					GRCh38	V40	RNH1-BGKcLV48-60_Aligned.sortedByCoord.out.bam		ENCORE2	32943
RNH1-BGKcLV48-60_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	3462					GRCh38	V40	RNH1-BGKcLV48-60_Aligned.sortedByCoord.out.bam		ENCORE2	32965