ZNF106 RNA-Seq in K562

Experiment Information (Status: NotSatisfied)

	BGKcLV06-45	BGKcLV06-46
idx	221	222
TRCN#_or_BGC#	BGC#0000095	BGC#0000095
shRNA_or_gRNA_sequence	TCATGAGTGCCGAGTGTGCG+	TCATGAGTGCCGAGTGTGCG+TCATGAGTGCCGAGTGTGCG
PAM
Name	ZNF106_85+ZNF106_78	ZNF106_85+ZNF106_78
Sample_ID	BGKcLV06-45	BGKcLV06-46
transduction_Date	6/9/17	6/9/17
days	Day 6	Day 6
RBP_name	ZNF106	ZNF106
qPCR_result	22.2	16.9
Ave_qPCR	19.6
RT-qPCR_primer-F	tcttctcctgaactcccaagtc
RT-qPCR_primer-R	attcagcagctggtcaacct
protein_conc	4027	4159
WB_result
Ave_WB
WB_DONE_date
MW	269kDa
IP
antibody_Cat#	A301-527A
Antibody DCC ID
submitted_to_DCC_date
Rep1_TPM	0	0
Rep2_TPM	0	0
Action	Ready	Ready
Library_start_date	12/19/17	12/19/17
repeat_library
Note
ID	4319	4320

Western Blot Western Blot info was not avaliable

Experiment Status

	BGKcLV06-45	BGKcLV06-46
Sample_ID	BGKcLV06-45	BGKcLV06-46
Sample Name	ZNF106-BGKcLV06-45B	ZNF106-BGKcLV06-46B
Sample Name
RBP	ZNF106	ZNF106
Cell_Line	K562	K562
Exp UID
Status	NotSatisfied	NotSatisfied
Status_date	2020-11-04	2020-11-04
Project	ENCODE4	ENCODE4
Note	bad KD%	bad KD%
ID	6453	6454

Library-Prep
Sequencing

Library-Prep Information

	BGKcLV06-45	BGKcLV06-46
Sample #	37	38
Sample Name	ZNF106-BGKcLV06-45B	ZNF106-BGKcLV06-46B
Sample_Name_Alias
Index Well Position	S11	S12
Index_table	IDT_TruSeqSingleIndex_24	IDT_TruSeqSingleIndex_24
LibPrep_date	2018-01-02	2018-01-02
Lib_ID	Lib-180102	Lib-180102
Tecan_Location
Tecan
Tecan_date
Size_bp	313	297
Peak_Molarity	20.50	13.70
libSampleQC_DNA_Well	DNA_Library_set40/set1/C12.png	DNA_Library_set40/set1/D12.png
RIN	9.7	9.6
libSample_RNA_Well	RNA_Library_set40/set1/E6.png	RNA_Library_set40/set1/F6.png
SampleQC_method	TapeStation	TapeStation
SampleQC_date	2018-01-02	2018-01-02
Sample_ID	BGKcLV06-45	BGKcLV06-46
RBP	ZNF106	ZNF106
Batch_ID	BGKcLV06	BGKcLV06
WB_result	0.000	0.000
Library Description	TruSeq mRNA	TruSeq mRNA
Repeat_Library_Suffix	B	B
Lib_Status	SendToSequence	SendToSequence
Project	ENCODE4	ENCODE4
ID	960	961

Sequencing Information

	BGKcLV06-45	BGKcLV06-46
Sample_ID	BGKcLV06-45	BGKcLV06-46
Sample Name	ZNF106-BGKcLV06-45B	ZNF106-BGKcLV06-46B
Pool ID	Pool-180109	Pool-180109
LocalServer_folder	set40_K	set40_K
total_reads	33,526,594	62,269,454
total_aligned_reads	30,440,002	57,252,342
unique_aligned_reads	28,019,250	52,483,984
percent_uniqueAligned	0.83573	0.84285
correlation_replicates	0.998525	0.998525
spikein_reads	8,360	19,702
percent_spikeins	0.00025	0.00032
original_ReadLength	100	100
QC_Status	OtherReasonsNotToSubmit	OtherReasonsNotToSubmit
ID	363	364

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
ZNF106-BGKcLV06-45B_GGCTAC_ACBYWVANXX_L008_001.R1.fastq.gz	ENCODE_DATA/set40_K/fastq	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	363	HiSeq2500	100	paired-ended	1				NT-BGKcLV06-1B_L001_001.R1.fastq.gz,NT-BGKcLV06-2B_L001_001.R1.fastq.gz	ENCODE4	762
ZNF106-BGKcLV06-45B_GGCTAC_ACBYWVANXX_L008_001.R2.fastq.gz	ENCODE_DATA/set40_K/fastq	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	363	HiSeq2500	100	paired-ended	2				NT-BGKcLV06-1B_L001_001.R2.fastq.gz,NT-BGKcLV06-2B_L001_001.R2.fastq.gz	ENCODE4	805
ZNF106-BGKcLV06-45B_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set40_K/STAR_ENCORE2_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	363					GRCh38	V40	ZNF106-BGKcLV06-45B_GGCTAC_ACBYWVANXX_L008_001.R1.fastq.gz,ZNF106-BGKcLV06-45B_GGCTAC_ACBYWVANXX_L008_001.R2.fastq.gz		ENCORE2	23500
ZNF106-BGKcLV06-45B_Signal.Unique.strand+.bw	ENCODE_DATA/set40_K/STAR_ENCORE2_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	363					GRCh38	V40	ZNF106-BGKcLV06-45B/Aligned.sortedByCoord.out.bam		ENCORE2	23534
ZNF106-BGKcLV06-45B_Signal.Unique.strand-.bw	ENCODE_DATA/set40_K/STAR_ENCORE2_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	363					GRCh38	V40	ZNF106-BGKcLV06-45B/Aligned.sortedByCoord.out.bam		ENCORE2	23568
ZNF106-BGKcLV06-45B_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set40_K/STAR_ENCORE2_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	363					GRCh38	V40	ZNF106-BGKcLV06-45B/Aligned.sortedByCoord.out.bam		ENCORE2	23602
ZNF106-BGKcLV06-45B_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set40_K/STAR_ENCORE2_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	363					GRCh38	V40	ZNF106-BGKcLV06-45B/Aligned.sortedByCoord.out.bam		ENCORE2	23636
ZNF106-BGKcLV06-45B_quant.sf	ENCODE_DATA/set40_K/salmon_ENCORE2	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	363					GRCh38	V40	ZNF106-BGKcLV06-45B_GGCTAC_ACBYWVANXX_L008_001.R1.fastq.gz,ZNF106-BGKcLV06-45B_GGCTAC_ACBYWVANXX_L008_001.R2.fastq.gz		ENCORE2	23670
ZNF106-BGKcLV06-46B_CTTGTA_ACBYWVANXX_L008_001.R1.fastq.gz	ENCODE_DATA/set40_K/fastq	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	364	HiSeq2500	100	paired-ended	1				NT-BGKcLV06-1B_L001_001.R1.fastq.gz,NT-BGKcLV06-2B_L001_001.R1.fastq.gz	ENCODE4	763
ZNF106-BGKcLV06-46B_CTTGTA_ACBYWVANXX_L008_001.R2.fastq.gz	ENCODE_DATA/set40_K/fastq	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	364	HiSeq2500	100	paired-ended	2				NT-BGKcLV06-1B_L001_001.R2.fastq.gz,NT-BGKcLV06-2B_L001_001.R2.fastq.gz	ENCODE4	806
ZNF106-BGKcLV06-46B_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set40_K/STAR_ENCORE2_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	364					GRCh38	V40	ZNF106-BGKcLV06-46B_CTTGTA_ACBYWVANXX_L008_001.R1.fastq.gz,ZNF106-BGKcLV06-46B_CTTGTA_ACBYWVANXX_L008_001.R2.fastq.gz		ENCORE2	23501
ZNF106-BGKcLV06-46B_Signal.Unique.strand+.bw	ENCODE_DATA/set40_K/STAR_ENCORE2_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	364					GRCh38	V40	ZNF106-BGKcLV06-46B/Aligned.sortedByCoord.out.bam		ENCORE2	23535
ZNF106-BGKcLV06-46B_Signal.Unique.strand-.bw	ENCODE_DATA/set40_K/STAR_ENCORE2_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	364					GRCh38	V40	ZNF106-BGKcLV06-46B/Aligned.sortedByCoord.out.bam		ENCORE2	23569
ZNF106-BGKcLV06-46B_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set40_K/STAR_ENCORE2_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	364					GRCh38	V40	ZNF106-BGKcLV06-46B/Aligned.sortedByCoord.out.bam		ENCORE2	23603
ZNF106-BGKcLV06-46B_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set40_K/STAR_ENCORE2_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	364					GRCh38	V40	ZNF106-BGKcLV06-46B/Aligned.sortedByCoord.out.bam		ENCORE2	23637
ZNF106-BGKcLV06-46B_quant.sf	ENCODE_DATA/set40_K/salmon_ENCORE2	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	364					GRCh38	V40	ZNF106-BGKcLV06-46B_CTTGTA_ACBYWVANXX_L008_001.R1.fastq.gz,ZNF106-BGKcLV06-46B_CTTGTA_ACBYWVANXX_L008_001.R2.fastq.gz		ENCORE2	23671