HEXIM1 RNA-Seq in HepG2

General Information


RBP	HEXIM1
Cell_Line	HepG2
Method	CRISPR
Exp_Name	HEXIM1-BGHcLV43-HepG2
ENCODE_series_ID
Batch_ID	BGHcLV43
Pool ID	Pool-240723
Local_Set_Name	set74
ENCODE_KD_Exp_ID
ENCODE_CN_Exp_ID
Rep1	HEXIM1-BGHcLV43-23
Rep2	HEXIM1-BGHcLV43-24
CN1	NT-BGHcLV43-1
CN2	NT-BGHcLV43-2
Rep1_qPCR	17.3
Rep2_qPCR	37.1
Rep1_WB	96.8
Rep2_WB	95.7
Antibody Cat#	12604S
Antibody Lot#	lot # 1
Antibody DCC ID
Status	Submitted
Project	ENCORE2
ID	1577

Experiment Information (Status: Submitting)

	BGHcLV43-23	BGHcLV43-24
idx	1391	1392
TRCN#_or_BGC#	BGC#0001144	BGC#0001144
shRNA_or_gRNA_sequence	AGAAGTGGAACCGACGCCCG	AGAAGTGGAACCGACGCCCG
PAM	AGG	AGG
Name	HEXIM1_95	HEXIM1_95
Sample_ID	BGHcLV43-23	BGHcLV43-24
transduction_Date	6/6/24	6/6/24
days	D6	D6
RBP_name	HEXIM1	HEXIM1
qPCR_result	17.3	37.1
Ave_qPCR	27.2
RT-qPCR_primer-F	tgtccaggaagagctgaacc
RT-qPCR_primer-R	cgattgccacctactgtcct
protein_conc	3191	3179
WB_result	96.8	95.7
Ave_WB	96.2
WB_DONE_date	6/13/24
MW	60kd
IP
antibody_Cat#	12604S	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	9644	9645

Western Blot

RBP	Antibody Info	Primary-HepG2	Secondary-HepG2	Primary-K562	Secondary-K562	Primary-UBERON	Primary-Hela
HEXIM1	Product_ID: 12604S Lot_ID: 1 Source: Cell Signaling Technology Target Name: HEXIM1-human

Experiment Status

	BGHcLV43-23	BGHcLV43-24
Sample_ID	BGHcLV43-23	BGHcLV43-24
Sample Name
Sample Name	HEXIM1-BGHcLV43-23	HEXIM1-BGHcLV43-24
RBP	HEXIM1	HEXIM1
Cell_Line	HepG2	HepG2
Exp UID
Status	Submitting	Submitting
Status_date	2025-02-11	2025-02-11
Project	ENCORE2	ENCORE2
Note
ID	13244	13245

Library-Prep
Sequencing

Library-Prep Information

	BGHcLV43-23	BGHcLV43-24
Sample #	17	18
Sample Name	HEXIM1-BGHcLV43-23	HEXIM1-BGHcLV43-24
Sample_Name_Alias
Index Well Position	A08	B08
Index_table	IDT_UniqueDualIndex_96	IDT_UniqueDualIndex_96
LibPrep_date	2024-07-22	2024-07-22
Lib_ID	Lib-240722	Lib-240722
Tecan_Location
Tecan
Tecan_date
Size_bp	300	305
Peak_Molarity	108.00	117.00
libSampleQC_DNA_Well	DNA_Library_set74/set1/A3.png	DNA_Library_set74/set1/B3.png
RIN	10.0	10.0
libSample_RNA_Well	RNA_Library_set74/set1/E8.png	RNA_Library_set74/set1/F8.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2024-07-23	2024-07-23
Sample_ID	BGHcLV43-23	BGHcLV43-24
RBP	HEXIM1	HEXIM1
Batch_ID	BGHcLV43	BGHcLV43
WB_result	96.800	95.700
Library Description	TruSeq mRNA	TruSeq mRNA
Repeat_Library_Suffix
Lib_Status	SendToSequence	SendToSequence
Project	ENCORE2	ENCORE2
ID	4376	4377

Sequencing Information

	BGHcLV43-23	BGHcLV43-24
Sample_ID	BGHcLV43-23	BGHcLV43-24
Sample Name	HEXIM1-BGHcLV43-23	HEXIM1-BGHcLV43-24
Pool ID	Pool-240723	Pool-240723
LocalServer_folder	set74	set74
total_reads	31,437,123	41,809,600
total_aligned_reads	28,220,524	35,201,318
unique_aligned_reads	26,558,440	33,142,285
percent_uniqueAligned	0.84481	0.79270
correlation_replicates	0.997156	0.997156
spikein_reads	12,674	25,696
percent_spikeins	0.00040	0.00061
original_ReadLength	101	101
QC_Status	Submitting	Submitting
ID	3243	3244

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
HEXIM1-BGHcLV43-23_S107_L003_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set74/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3243	NovaSeq6000	100	paired-ended	1				NT-BGHcLV43-1_S91_L003_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV43-2_S92_L003_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	30534
HEXIM1-BGHcLV43-23_S107_L003_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set74/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3243	NovaSeq6000	100	paired-ended	2				NT-BGHcLV43-1_S91_L003_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV43-2_S92_L003_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	30586
HEXIM1-BGHcLV43-23_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set74/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3243					GRCh38	V40	HEXIM1-BGHcLV43-23_S107_L003_R1_001.filtered.trimmed.paired.fastq.gz,HEXIM1-BGHcLV43-23_S107_L003_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	30638
HEXIM1-BGHcLV43-23_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set74/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3243					GRCh38	V40	HEXIM1-BGHcLV43-23_Aligned.sortedByCoord.out.bam		ENCORE2	30690
HEXIM1-BGHcLV43-23_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set74/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3243					GRCh38	V40	HEXIM1-BGHcLV43-23_Aligned.sortedByCoord.out.bam		ENCORE2	30742
HEXIM1-BGHcLV43-23_Signal.Unique.strand-.bw	ENCODE_DATA/set74/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3243					GRCh38	V40	HEXIM1-BGHcLV43-23_Aligned.sortedByCoord.out.bam		ENCORE2	30794
HEXIM1-BGHcLV43-23_Signal.Unique.strand+.bw	ENCODE_DATA/set74/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3243					GRCh38	V40	HEXIM1-BGHcLV43-23_Aligned.sortedByCoord.out.bam		ENCORE2	30846
HEXIM1-BGHcLV43-23_quant.sf	ENCODE_DATA/set74/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3243					GRCh38	V40	HEXIM1-BGHcLV43-23_S107_L003_R1_001.filtered.trimmed.paired.fastq.gz,HEXIM1-BGHcLV43-23_S107_L003_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	30898
HEXIM1-BGHcLV43-24_S108_L003_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set74/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3244	NovaSeq6000	100	paired-ended	1				NT-BGHcLV43-1_S91_L003_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV43-2_S92_L003_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	30535
HEXIM1-BGHcLV43-24_S108_L003_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set74/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3244	NovaSeq6000	100	paired-ended	2				NT-BGHcLV43-1_S91_L003_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV43-2_S92_L003_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	30587
HEXIM1-BGHcLV43-24_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set74/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3244					GRCh38	V40	HEXIM1-BGHcLV43-24_S108_L003_R1_001.filtered.trimmed.paired.fastq.gz,HEXIM1-BGHcLV43-24_S108_L003_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	30639
HEXIM1-BGHcLV43-24_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set74/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3244					GRCh38	V40	HEXIM1-BGHcLV43-24_Aligned.sortedByCoord.out.bam		ENCORE2	30691
HEXIM1-BGHcLV43-24_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set74/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3244					GRCh38	V40	HEXIM1-BGHcLV43-24_Aligned.sortedByCoord.out.bam		ENCORE2	30743
HEXIM1-BGHcLV43-24_Signal.Unique.strand-.bw	ENCODE_DATA/set74/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3244					GRCh38	V40	HEXIM1-BGHcLV43-24_Aligned.sortedByCoord.out.bam		ENCORE2	30795
HEXIM1-BGHcLV43-24_Signal.Unique.strand+.bw	ENCODE_DATA/set74/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3244					GRCh38	V40	HEXIM1-BGHcLV43-24_Aligned.sortedByCoord.out.bam		ENCORE2	30847
HEXIM1-BGHcLV43-24_quant.sf	ENCODE_DATA/set74/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3244					GRCh38	V40	HEXIM1-BGHcLV43-24_S108_L003_R1_001.filtered.trimmed.paired.fastq.gz,HEXIM1-BGHcLV43-24_S108_L003_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	30899