HEXIM1 RNA-Seq in K562

General Information


RBP	HEXIM1
Cell_Line	K562
Method	CRISPR
Exp_Name	HEXIM1-BGKcLV42-K562
ENCODE_series_ID
Batch_ID	BGKcLV42
Pool ID	Pool-240715
Local_Set_Name	set73
ENCODE_KD_Exp_ID
ENCODE_CN_Exp_ID
Rep1	HEXIM1-BGKcLV42-39
Rep2	HEXIM1-BGKcLV42-40
CN1	NT-BGKcLV42-1
CN2	NT-BGKcLV42-2
Rep1_qPCR	17.0
Rep2_qPCR	2.9
Rep1_WB	94.7
Rep2_WB	96.0
Antibody Cat#	12604S
Antibody Lot#	lot # 1
Antibody DCC ID
Status	Submitted
Project	ENCORE2
ID	1542

Experiment Information (Status: Submitting)

	BGKcLV42-39	BGKcLV42-40
idx	0	0
TRCN#_or_BGC#	BGC#0001142	BGC#0001142
shRNA_or_gRNA_sequence	AGAAGTGGAACCGACGCCCG	AGAAGTGGAACCGACGCCCG
PAM	AGG	AGG
Name	HEXIM1_95	HEXIM1_95
Sample_ID	BGKcLV42-39	BGKcLV42-40
transduction_Date	4/23/24	4/23/24
days	D6	D6
RBP_name	HEXIM1	HEXIM1
qPCR_result	17.0	2.9
Ave_qPCR	10.0
RT-qPCR_primer-F	tgtccaggaagagctgaacc
RT-qPCR_primer-R	cgattgccacctactgtcct
protein_conc	3072	3212
WB_result	94.7	96.0
Ave_WB	95.4
WB_DONE_date	5/6/24
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	5801	5802

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

	BGKcLV42-39	BGKcLV42-40
Sample_ID	BGKcLV42-39	BGKcLV42-40
Sample Name
Sample Name	HEXIM1-BGKcLV42-39	HEXIM1-BGKcLV42-40
RBP	HEXIM1	HEXIM1
Cell_Line	K562	K562
Exp UID
Status	Submitting	Submitting
Status_date	2025-02-13	2025-02-13
Project	ENCORE2	ENCORE2
Note
ID	13078	13079

Library-Prep
Sequencing

Library-Prep Information

	BGKcLV42-39	BGKcLV42-40
Sample #	35	36
Sample Name	HEXIM1-BGKcLV42-39	HEXIM1-BGKcLV42-40
Sample_Name_Alias
Index Well Position	C05	D05
Index_table	IDT_UniqueDualIndex_96	IDT_UniqueDualIndex_96
LibPrep_date	2024-06-21	2024-06-21
Lib_ID	Lib-240621	Lib-240621
Tecan_Location
Tecan
Tecan_date
Size_bp	296	313
Peak_Molarity	115.00	115.00
libSampleQC_DNA_Well	DNA_Library_set73/set1/C5.png	DNA_Library_set73/set1/D5.png
RIN	10.0	9.9
libSample_RNA_Well	RNA_Library_set73/set1/C5.png	RNA_Library_set73/set1/D5.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2024-07-15	2024-07-15
Sample_ID	BGKcLV42-39	BGKcLV42-40
RBP	HEXIM1	HEXIM1
Batch_ID	BGKcLV42	BGKcLV42
WB_result	94.700	96.000
Library Description	TruSeq mRNA	TruSeq mRNA
Repeat_Library_Suffix
Lib_Status	SendToSequence	SendToSequence
Project	ENCORE2	ENCORE2
ID	4304	4305

Sequencing Information

	BGKcLV42-39	BGKcLV42-40
Sample_ID	BGKcLV42-39	BGKcLV42-40
Sample Name	HEXIM1-BGKcLV42-39	HEXIM1-BGKcLV42-40
Pool ID	Pool-240715	Pool-240715
LocalServer_folder	set73	set73
total_reads	42,918,966	31,623,673
total_aligned_reads	37,134,033	27,503,021
unique_aligned_reads	34,276,912	25,336,803
percent_uniqueAligned	0.79864	0.80120
correlation_replicates	0.999222	0.999222
spikein_reads	390	1,530
percent_spikeins	0.00001	0.00005
original_ReadLength	101	101
QC_Status	Submitting	Submitting
ID	3171	3172

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-BGKcLV42-39_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set73/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3171	NovaSeq6000	100	paired-ended	1				NT-BGKcLV42-1_L001_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGKcLV42-2_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	30372
HEXIM1-BGKcLV42-39_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set73/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3171	NovaSeq6000	100	paired-ended	2				NT-BGKcLV42-1_L001_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGKcLV42-2_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	30462
HEXIM1-BGKcLV42-39_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set73/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3171					GRCh38	V40	HEXIM1-BGKcLV42-39_L001_R1_001.filtered.trimmed.paired.fastq.gz,HEXIM1-BGKcLV42-39_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	31304
HEXIM1-BGKcLV42-39_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set73/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3171					GRCh38	V40	HEXIM1-BGKcLV42-39_Aligned.sortedByCoord.out.bam		ENCORE2	31394
HEXIM1-BGKcLV42-39_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set73/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3171					GRCh38	V40	HEXIM1-BGKcLV42-39_Aligned.sortedByCoord.out.bam		ENCORE2	31484
HEXIM1-BGKcLV42-39_Signal.Unique.strand-.bw	ENCODE_DATA/set73/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3171					GRCh38	V40	HEXIM1-BGKcLV42-39_Aligned.sortedByCoord.out.bam		ENCORE2	31574
HEXIM1-BGKcLV42-39_Signal.Unique.strand+.bw	ENCODE_DATA/set73/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3171					GRCh38	V40	HEXIM1-BGKcLV42-39_Aligned.sortedByCoord.out.bam		ENCORE2	31664
HEXIM1-BGKcLV42-39_quant.sf	ENCODE_DATA/set73/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3171					GRCh38	V40	HEXIM1-BGKcLV42-39_L001_R1_001.filtered.trimmed.paired.fastq.gz,HEXIM1-BGKcLV42-39_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	31754
HEXIM1-BGKcLV42-40_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set73/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3172	NovaSeq6000	100	paired-ended	1				NT-BGKcLV42-1_L001_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGKcLV42-2_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	30373
HEXIM1-BGKcLV42-40_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set73/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3172	NovaSeq6000	100	paired-ended	2				NT-BGKcLV42-1_L001_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGKcLV42-2_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	30463
HEXIM1-BGKcLV42-40_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set73/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3172					GRCh38	V40	HEXIM1-BGKcLV42-40_L001_R1_001.filtered.trimmed.paired.fastq.gz,HEXIM1-BGKcLV42-40_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	31305
HEXIM1-BGKcLV42-40_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set73/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3172					GRCh38	V40	HEXIM1-BGKcLV42-40_Aligned.sortedByCoord.out.bam		ENCORE2	31395
HEXIM1-BGKcLV42-40_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set73/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3172					GRCh38	V40	HEXIM1-BGKcLV42-40_Aligned.sortedByCoord.out.bam		ENCORE2	31485
HEXIM1-BGKcLV42-40_Signal.Unique.strand-.bw	ENCODE_DATA/set73/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3172					GRCh38	V40	HEXIM1-BGKcLV42-40_Aligned.sortedByCoord.out.bam		ENCORE2	31575
HEXIM1-BGKcLV42-40_Signal.Unique.strand+.bw	ENCODE_DATA/set73/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3172					GRCh38	V40	HEXIM1-BGKcLV42-40_Aligned.sortedByCoord.out.bam		ENCORE2	31665
HEXIM1-BGKcLV42-40_quant.sf	ENCODE_DATA/set73/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3172					GRCh38	V40	HEXIM1-BGKcLV42-40_L001_R1_001.filtered.trimmed.paired.fastq.gz,HEXIM1-BGKcLV42-40_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	31755