SESN2 RNA-Seq in K562

General Information


RBP	SESN2
Cell_Line	K562
Method	CRISPR
Exp_Name	SESN2-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	SESN2-BGKcLV42-87
Rep2	SESN2-BGKcLV42-88
CN1	NT-BGKcLV42-1
CN2	NT-BGKcLV42-2
Rep1_qPCR	0.0
Rep2_qPCR	0.0
Rep1_WB	98.4
Rep2_WB	92.4
Antibody Cat#	8487S
Antibody Lot#	lot # 3
Antibody DCC ID
Status	Submitted
Project	ENCORE2
ID	1560

Experiment Information (Status: Submitting)

	BGKcLV42-87	BGKcLV42-88
idx	0	0
TRCN#_or_BGC#	BGC#0001186	BGC#0001186
shRNA_or_gRNA_sequence	TGTAGCGGGTGATGGCACGG	TGTAGCGGGTGATGGCACGG
PAM	AGG	AGG
Name	SESN2_81	SESN2_81
Sample_ID	BGKcLV42-87	BGKcLV42-88
transduction_Date	4/23/24	4/23/24
days	D6	D6
RBP_name	SESN2	SESN2
qPCR_result	0.0	0.0
Ave_qPCR	0.0
RT-qPCR_primer-F	cgctttgagctggagaagtc
RT-qPCR_primer-R	tccgaaagtagggtcttcca
protein_conc	1466	1571
WB_result	98.4	92.4
Ave_WB	95.4
WB_DONE_date	5/10/24
MW	56kd
IP
antibody_Cat#	8487S	lot # 3
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	5855	5856

Western Blot

RBP	Antibody Info	Primary-HepG2	Secondary-HepG2	Primary-K562	Secondary-K562	Primary-UBERON	Primary-Hela
SESN2	Product_ID: 8487S Lot_ID: 3 Source: Cell Signaling Technology Target Name: SESN2-human

Experiment Status

	BGKcLV42-87	BGKcLV42-88
Sample_ID	BGKcLV42-87	BGKcLV42-88
Sample Name
Sample Name	SESN2-BGKcLV42-87	SESN2-BGKcLV42-88
RBP	SESN2	SESN2
Cell_Line	K562	K562
Exp UID
Status	Submitting	Submitting
Status_date	2025-02-13	2025-02-13
Project	ENCORE2	ENCORE2
Note
ID	13114	13115

Library-Prep
Sequencing

Library-Prep Information

	BGKcLV42-87	BGKcLV42-88
Sample #	71	72
Sample Name	SESN2-BGKcLV42-87	SESN2-BGKcLV42-88
Sample_Name_Alias
Index Well Position	G09	H09
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	294	304
Peak_Molarity	45.80	76.70
libSampleQC_DNA_Well	DNA_Library_set73/set1/G9.png	DNA_Library_set73/set1/H9.png
RIN	10.0	10.0
libSample_RNA_Well	RNA_Library_set73/set1/G9.png	RNA_Library_set73/set1/H9.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2024-07-15	2024-07-15
Sample_ID	BGKcLV42-87	BGKcLV42-88
RBP	SESN2	SESN2
Batch_ID	BGKcLV42	BGKcLV42
WB_result	98.400	92.400
Library Description	TruSeq mRNA	TruSeq mRNA
Repeat_Library_Suffix
Lib_Status	SendToSequence	SendToSequence
Project	ENCORE2	ENCORE2
ID	4340	4341

Sequencing Information

	BGKcLV42-87	BGKcLV42-88
Sample_ID	BGKcLV42-87	BGKcLV42-88
Sample Name	SESN2-BGKcLV42-87	SESN2-BGKcLV42-88
Pool ID	Pool-240715	Pool-240715
LocalServer_folder	set73	set73
total_reads	71,745,668	33,443,367
total_aligned_reads	58,661,113	26,619,261
unique_aligned_reads	54,031,842	24,601,465
percent_uniqueAligned	0.75310	0.73562
correlation_replicates	0.995454	0.995454
spikein_reads	10,488	5,750
percent_spikeins	0.00015	0.00017
original_ReadLength	101	101
QC_Status	Submitting	Submitting
ID	3207	3208

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
SESN2-BGKcLV42-87_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set73/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3207	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	30410
SESN2-BGKcLV42-87_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set73/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3207	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	30500
SESN2-BGKcLV42-87_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set73/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3207					GRCh38	V40	SESN2-BGKcLV42-87_L001_R1_001.filtered.trimmed.paired.fastq.gz,SESN2-BGKcLV42-87_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	31342
SESN2-BGKcLV42-87_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	3207					GRCh38	V40	SESN2-BGKcLV42-87_Aligned.sortedByCoord.out.bam		ENCORE2	31432
SESN2-BGKcLV42-87_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	3207					GRCh38	V40	SESN2-BGKcLV42-87_Aligned.sortedByCoord.out.bam		ENCORE2	31522
SESN2-BGKcLV42-87_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	3207					GRCh38	V40	SESN2-BGKcLV42-87_Aligned.sortedByCoord.out.bam		ENCORE2	31612
SESN2-BGKcLV42-87_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	3207					GRCh38	V40	SESN2-BGKcLV42-87_Aligned.sortedByCoord.out.bam		ENCORE2	31702
SESN2-BGKcLV42-87_quant.sf	ENCODE_DATA/set73/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3207					GRCh38	V40	SESN2-BGKcLV42-87_L001_R1_001.filtered.trimmed.paired.fastq.gz,SESN2-BGKcLV42-87_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	31792
SESN2-BGKcLV42-88_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set73/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3208	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	30411
SESN2-BGKcLV42-88_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set73/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3208	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	30501
SESN2-BGKcLV42-88_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set73/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3208					GRCh38	V40	SESN2-BGKcLV42-88_L001_R1_001.filtered.trimmed.paired.fastq.gz,SESN2-BGKcLV42-88_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	31343
SESN2-BGKcLV42-88_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	3208					GRCh38	V40	SESN2-BGKcLV42-88_Aligned.sortedByCoord.out.bam		ENCORE2	31433
SESN2-BGKcLV42-88_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	3208					GRCh38	V40	SESN2-BGKcLV42-88_Aligned.sortedByCoord.out.bam		ENCORE2	31523
SESN2-BGKcLV42-88_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	3208					GRCh38	V40	SESN2-BGKcLV42-88_Aligned.sortedByCoord.out.bam		ENCORE2	31613
SESN2-BGKcLV42-88_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	3208					GRCh38	V40	SESN2-BGKcLV42-88_Aligned.sortedByCoord.out.bam		ENCORE2	31703
SESN2-BGKcLV42-88_quant.sf	ENCODE_DATA/set73/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3208					GRCh38	V40	SESN2-BGKcLV42-88_L001_R1_001.filtered.trimmed.paired.fastq.gz,SESN2-BGKcLV42-88_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	31793