RBM12 RNA-Seq in HepG2

General Information


RBP	RBM12
Cell_Line	HepG2
Method	CRISPR
Exp_Name	RBM12-BGHcLV50-HepG2
ENCODE_series_ID
Batch_ID	BGHcLV50
Pool ID	Pool-251003
Local_Set_Name	set80
ENCODE_KD_Exp_ID
ENCODE_CN_Exp_ID
Rep1	RBM12-BGHcLV50-81
Rep2	RBM12-BGHcLV50-82
CN1	NT-BGHcLV50-1
CN2	NT-BGHcLV50-2
Rep1_qPCR	0.0
Rep2_qPCR	0.0
Rep1_WB	55.9
Rep2_WB	54.5
Antibody Cat#	A301-198A
Antibody Lot#	LOT #1
Antibody DCC ID
Status	Submitted
Project	ENCORE2
ID	1691

Experiment Information (Status: Sequenced)

	BGHcLV50-81	BGHcLV50-81	BGHcLV50-82	BGHcLV50-82
idx	1900	1902	1901	1903
TRCN#_or_BGC#	BGC#0001251	BGC#0001251	BGC#0001251	BGC#0001251
shRNA_or_gRNA_sequence	GGGCCACTTCCAAACCCCGG	GGGCCACTTCCAAACCCCGG	GGGCCACTTCCAAACCCCGG	GGGCCACTTCCAAACCCCGG
PAM	GGG	GGG	GGG	GGG
Name	RBM12_85	RBM12_85	RBM12_85	RBM12_85
Sample_ID	BGHcLV50-81	BGHcLV50-81	BGHcLV50-82	BGHcLV50-82
transduction_Date	7/29/25	7/29/25	7/29/25	7/29/25
days	D6	D6	D6	D6
RBP_name	RBM12	RBM12	RBM12	RBM12
qPCR_result	0.0		0.0
Ave_qPCR	0.0
RT-qPCR_primer-F	catcgtttttgccactgatg
RT-qPCR_primer-R	ggcagtttcaaaacgcctac
protein_conc	3089	3089	2560	2560
WB_result	55.9	65.5	54.5	61.3
Ave_WB
WB_DONE_date	8/28/25,8/21/25	8/28/25
MW	97KD	97KD
IP
antibody_Cat#	A301-198A	A301-199A	LOT #1	LOT #1
Antibody DCC ID
submitted_to_DCC_date
Rep1_TPM	0	0	0	0
Rep2_TPM	0	0	0	0
Action	Ready		Ready
Library_start_date
repeat_library
Note
ID	10089	10091	10090	10092

Western Blot Western Blot info was not avaliable

Experiment Status

	BGHcLV50-81	BGHcLV50-81	BGHcLV50-82	BGHcLV50-82
Sample_ID	BGHcLV50-81	BGHcLV50-81	BGHcLV50-82	BGHcLV50-82
Sample Name
Sample Name	RBM12-BGHcLV50-81		RBM12-BGHcLV50-82
RBP	RBM12	RBM12	RBM12	RBM12
Cell_Line	HepG2	HepG2	HepG2	HepG2
Exp UID
Status	Sequenced	NotSatisfied	Sequenced	NotSatisfied
Status_date	2025-10-30	2025-09-30	2025-10-30	2025-09-30
Project	ENCORE2	ENCORE2	ENCORE2	ENCORE2
Note
ID	14464	14536	14465	14537

Library-Prep
Sequencing

Library-Prep Information

	BGHcLV50-81	BGHcLV50-82
Sample #	17	18
Sample Name	RBM12-BGHcLV50-81	RBM12-BGHcLV50-82
Sample_Name_Alias
Index Well Position	A12	B12
Index_table	IDT_UniqueDualIndex_96_V2	IDT_UniqueDualIndex_96_V2
LibPrep_date	2025-10-01	2025-10-01
Lib_ID	Lib-251001	Lib-251001
Tecan_Location
Tecan
Tecan_date
Size_bp	287	292
Peak_Molarity	72.90	61.50
libSampleQC_DNA_Well	DNA_Library_set80/set1/A12.png	DNA_Library_set80/set1/B12.png
RIN	9.9	10.0
libSample_RNA_Well	RNA_Library_set80/set1/A9.png	RNA_Library_set80/set1/B9.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2025-10-03	2025-10-03
Sample_ID	BGHcLV50-81	BGHcLV50-82
RBP	RBM12	RBM12
Batch_ID	BGHcLV50	BGHcLV50
WB_result	55.900	54.500
Library Description	TruSeq mRNA	TruSeq mRNA
Repeat_Library_Suffix
Lib_Status	SendToSequence	SendToSequence
Project	ENCORE2	ENCORE2
ID	4832	4833

Sequencing Information

	BGHcLV50-81	BGHcLV50-82
Sample_ID	BGHcLV50-81	BGHcLV50-82
Sample Name	RBM12-BGHcLV50-81	RBM12-BGHcLV50-82
Pool ID	Pool-251003	Pool-251003
LocalServer_folder	set80	set80
total_reads	16,452,157	17,178,102
total_aligned_reads	14,625,915	15,202,218
unique_aligned_reads	13,820,716	14,371,831
percent_uniqueAligned	0.84005	0.83664
correlation_replicates	0.991057	0.991057
spikein_reads	67,268	78,258
percent_spikeins	0.00409	0.00456
original_ReadLength	151	151
QC_Status	ReadyToSubmit	ReadyToSubmit
ID	3487	3488

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
RBM12-BGHcLV50-81_S17_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set80/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3487	NovaSeq6000	100	paired-ended	1				NT-BGHcLV50-1_S1_L001_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV50-2_S2_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	32990
RBM12-BGHcLV50-81_S17_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set80/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3487	NovaSeq6000	100	paired-ended	2				NT-BGHcLV50-1_S1_L001_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV50-2_S2_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	33014
RBM12-BGHcLV50-81_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set80/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3487					GRCh38	V40	RBM12-BGHcLV50-81_S17_L001_R1_001.filtered.trimmed.paired.fastq.gz,RBM12-BGHcLV50-81_S17_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	33038
RBM12-BGHcLV50-81_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set80/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3487					GRCh38	V40	RBM12-BGHcLV50-81_Aligned.sortedByCoord.out.bam		ENCORE2	33062
RBM12-BGHcLV50-81_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set80/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3487					GRCh38	V40	RBM12-BGHcLV50-81_Aligned.sortedByCoord.out.bam		ENCORE2	33086
RBM12-BGHcLV50-81_Signal.Unique.strand-.bw	ENCODE_DATA/set80/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3487					GRCh38	V40	RBM12-BGHcLV50-81_Aligned.sortedByCoord.out.bam		ENCORE2	33110
RBM12-BGHcLV50-81_Signal.Unique.strand+.bw	ENCODE_DATA/set80/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3487					GRCh38	V40	RBM12-BGHcLV50-81_Aligned.sortedByCoord.out.bam		ENCORE2	33134
RBM12-BGHcLV50-81_quant.sf	ENCODE_DATA/set80/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3487					GRCh38	V40	RBM12-BGHcLV50-81_S17_L001_R1_001.filtered.trimmed.paired.fastq.gz,RBM12-BGHcLV50-81_S17_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	33158
RBM12-BGHcLV50-82_S18_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set80/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3488	NovaSeq6000	100	paired-ended	1				NT-BGHcLV50-1_S1_L001_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV50-2_S2_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	32991
RBM12-BGHcLV50-82_S18_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set80/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3488	NovaSeq6000	100	paired-ended	2				NT-BGHcLV50-1_S1_L001_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV50-2_S2_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	33015
RBM12-BGHcLV50-82_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set80/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3488					GRCh38	V40	RBM12-BGHcLV50-82_S18_L001_R1_001.filtered.trimmed.paired.fastq.gz,RBM12-BGHcLV50-82_S18_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	33039
RBM12-BGHcLV50-82_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set80/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3488					GRCh38	V40	RBM12-BGHcLV50-82_Aligned.sortedByCoord.out.bam		ENCORE2	33063
RBM12-BGHcLV50-82_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set80/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3488					GRCh38	V40	RBM12-BGHcLV50-82_Aligned.sortedByCoord.out.bam		ENCORE2	33087
RBM12-BGHcLV50-82_Signal.Unique.strand-.bw	ENCODE_DATA/set80/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3488					GRCh38	V40	RBM12-BGHcLV50-82_Aligned.sortedByCoord.out.bam		ENCORE2	33111
RBM12-BGHcLV50-82_Signal.Unique.strand+.bw	ENCODE_DATA/set80/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3488					GRCh38	V40	RBM12-BGHcLV50-82_Aligned.sortedByCoord.out.bam		ENCORE2	33135
RBM12-BGHcLV50-82_quant.sf	ENCODE_DATA/set80/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3488					GRCh38	V40	RBM12-BGHcLV50-82_S18_L001_R1_001.filtered.trimmed.paired.fastq.gz,RBM12-BGHcLV50-82_S18_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	33159