ZNF106 RNA-Seq in HepG2

Experiment Information (Status: NotSatisfied)

	BGHcLV07-45	BGHcLV07-46
idx	157	158
TRCN#_or_BGC#	BGC#0000096	BGC#0000096
shRNA_or_gRNA_sequence	CTTCTGTGACCCCGCACACT+CCACTGGAATCCTTCTAGAC	CTTCTGTGACCCCGCACACT+CCACTGGAATCCTTCTAGAC
PAM
Name	ZNF106_83-1+ZNF106_76-1	ZNF106_83-1+ZNF106_76-1
Sample_ID	BGHcLV07-45	BGHcLV07-46
transduction_Date	6/13/17	6/13/17
days	D6	D6
RBP_name	ZNF106	ZNF106
qPCR_result	6.0	0.0
Ave_qPCR	3.0
RT-qPCR_primer-F	tcttctcctgaactcccaagtc
RT-qPCR_primer-R	attcagcagctggtcaacct
protein_conc	3544	4158
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	12/18/17	12/18/17
repeat_library
Note
ID	6300	6301

Western Blot Western Blot info was not avaliable

Experiment Status

	BGHcLV07-45	BGHcLV07-46
Sample_ID	BGHcLV07-45	BGHcLV07-46
Sample Name	ZNF106-BGHcLV07-45B	ZNF106-BGHcLV07-46B
Sample Name
RBP	ZNF106	ZNF106
Cell_Line	HepG2	HepG2
Exp UID
Status	NotSatisfied	NotSatisfied
Status_date	2020-11-04	2020-11-04
Project	ENCODE4	ENCODE4
Note	bad KD%	bad KD%
ID	6429	6430

Library-Prep
Sequencing

Library-Prep Information

	BGHcLV07-45	BGHcLV07-46
Sample #	13	14
Sample Name	ZNF106-BGHcLV07-45B	ZNF106-BGHcLV07-46B
Sample_Name_Alias
Index Well Position	S07	S08
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	312	289
Peak_Molarity	7.67	4.65
libSampleQC_DNA_Well	DNA_Library_set40/set1/G8.png	DNA_Library_set40/set1/H8.png
RIN	9.3	9.4
libSample_RNA_Well	RNA_Library_set40/set1/A4.png	RNA_Library_set40/set1/B4.png
SampleQC_method	TapeStation	TapeStation
SampleQC_date	2018-01-02	2018-01-02
Sample_ID	BGHcLV07-45	BGHcLV07-46
RBP	ZNF106	ZNF106
Batch_ID	BGHcLV07	BGHcLV07
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	936	937

Sequencing Information

	BGHcLV07-45	BGHcLV07-46
Sample_ID	BGHcLV07-45	BGHcLV07-46
Sample Name	ZNF106-BGHcLV07-45B	ZNF106-BGHcLV07-46B
Pool ID	Pool-180109	Pool-180109
LocalServer_folder	set40_H	set40_H
total_reads	47,875,764	67,711,502
total_aligned_reads	39,071,694	56,603,640
unique_aligned_reads	36,791,618	53,294,740
percent_uniqueAligned	0.76848	0.78709
correlation_replicates	0.999321	0.999321
spikein_reads	11,386	9,936
percent_spikeins	0.00024	0.00015
original_ReadLength	100	100
QC_Status	OtherReasonsNotToSubmit	OtherReasonsNotToSubmit
ID	339	340

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-BGHcLV07-45B_CAGATC_ACBYWVANXX_L004_001.R1.fastq.gz	ENCODE_DATA/set40_H/fastq	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	339	HiSeq2500	100	paired-ended	1				NT-BGHcLV07-1B_ATCACG_ACBYWVANXX_L003_001.R1.fastq.gz,NT-BGHcLV07-2B_CGATGT_ACBYWVANXX_L003_001.R1.fastq.gz	ENCODE4	677
ZNF106-BGHcLV07-45B_CAGATC_ACBYWVANXX_L004_001.R2.fastq.gz	ENCODE_DATA/set40_H/fastq	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	339	HiSeq2500	100	paired-ended	2				NT-BGHcLV07-1B_ATCACG_ACBYWVANXX_L003_001.R2.fastq.gz,NT-BGHcLV07-2B_CGATGT_ACBYWVANXX_L003_001.R2.fastq.gz	ENCODE4	719
ZNF106-BGHcLV07-45B_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set40_H/STAR_ENCORE2_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	339					GRCh38	V40	ZNF106-BGHcLV07-45B_CAGATC_ACBYWVANXX_L004_001.R1.fastq.gz,ZNF106-BGHcLV07-45B_CAGATC_ACBYWVANXX_L004_001.R2.fastq.gz		ENCORE2	23278
ZNF106-BGHcLV07-45B_Signal.Unique.strand+.bw	ENCODE_DATA/set40_H/STAR_ENCORE2_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	339					GRCh38	V40	ZNF106-BGHcLV07-45B/Aligned.sortedByCoord.out.bam		ENCORE2	23312
ZNF106-BGHcLV07-45B_Signal.Unique.strand-.bw	ENCODE_DATA/set40_H/STAR_ENCORE2_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	339					GRCh38	V40	ZNF106-BGHcLV07-45B/Aligned.sortedByCoord.out.bam		ENCORE2	23346
ZNF106-BGHcLV07-45B_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set40_H/STAR_ENCORE2_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	339					GRCh38	V40	ZNF106-BGHcLV07-45B/Aligned.sortedByCoord.out.bam		ENCORE2	23380
ZNF106-BGHcLV07-45B_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set40_H/STAR_ENCORE2_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	339					GRCh38	V40	ZNF106-BGHcLV07-45B/Aligned.sortedByCoord.out.bam		ENCORE2	23414
ZNF106-BGHcLV07-45B_quant.sf	ENCODE_DATA/set40_H/salmon_ENCORE2	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	339					GRCh38	V40	ZNF106-BGHcLV07-45B_CAGATC_ACBYWVANXX_L004_001.R1.fastq.gz,ZNF106-BGHcLV07-45B_CAGATC_ACBYWVANXX_L004_001.R2.fastq.gz		ENCORE2	23448
ZNF106-BGHcLV07-46B_ACTTGA_ACBYWVANXX_L004_001.R1.fastq.gz	ENCODE_DATA/set40_H/fastq	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	340	HiSeq2500	100	paired-ended	1				NT-BGHcLV07-1B_ATCACG_ACBYWVANXX_L003_001.R1.fastq.gz,NT-BGHcLV07-2B_CGATGT_ACBYWVANXX_L003_001.R1.fastq.gz	ENCODE4	678
ZNF106-BGHcLV07-46B_ACTTGA_ACBYWVANXX_L004_001.R2.fastq.gz	ENCODE_DATA/set40_H/fastq	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	340	HiSeq2500	100	paired-ended	2				NT-BGHcLV07-1B_ATCACG_ACBYWVANXX_L003_001.R2.fastq.gz,NT-BGHcLV07-2B_CGATGT_ACBYWVANXX_L003_001.R2.fastq.gz	ENCODE4	720
ZNF106-BGHcLV07-46B_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set40_H/STAR_ENCORE2_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	340					GRCh38	V40	ZNF106-BGHcLV07-46B_ACTTGA_ACBYWVANXX_L004_001.R1.fastq.gz,ZNF106-BGHcLV07-46B_ACTTGA_ACBYWVANXX_L004_001.R2.fastq.gz		ENCORE2	23279
ZNF106-BGHcLV07-46B_Signal.Unique.strand+.bw	ENCODE_DATA/set40_H/STAR_ENCORE2_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	340					GRCh38	V40	ZNF106-BGHcLV07-46B/Aligned.sortedByCoord.out.bam		ENCORE2	23313
ZNF106-BGHcLV07-46B_Signal.Unique.strand-.bw	ENCODE_DATA/set40_H/STAR_ENCORE2_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	340					GRCh38	V40	ZNF106-BGHcLV07-46B/Aligned.sortedByCoord.out.bam		ENCORE2	23347
ZNF106-BGHcLV07-46B_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set40_H/STAR_ENCORE2_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	340					GRCh38	V40	ZNF106-BGHcLV07-46B/Aligned.sortedByCoord.out.bam		ENCORE2	23381
ZNF106-BGHcLV07-46B_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set40_H/STAR_ENCORE2_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	340					GRCh38	V40	ZNF106-BGHcLV07-46B/Aligned.sortedByCoord.out.bam		ENCORE2	23415
ZNF106-BGHcLV07-46B_quant.sf	ENCODE_DATA/set40_H/salmon_ENCORE2	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	340					GRCh38	V40	ZNF106-BGHcLV07-46B_ACTTGA_ACBYWVANXX_L004_001.R1.fastq.gz,ZNF106-BGHcLV07-46B_ACTTGA_ACBYWVANXX_L004_001.R2.fastq.gz		ENCORE2	23449