METTL1 RNA-Seq in K562

General Information


RBP	METTL1
Cell_Line	K562
Method	CRISPR
Exp_Name	METTL1-BGKcLV23-K562
ENCODE_series_ID	ENCSR352DZX
Batch_ID	BGKcLV23
Pool ID	Pool-201204
Local_Set_Name	set46_K
ENCODE_KD_Exp_ID	ENCSR607SRH
ENCODE_CN_Exp_ID	ENCSR877JEM
Rep1	METTL1-BGKcLV23-51
Rep2	METTL1-BGKcLV23-52
CN1	NT-BGKcLV23-1
CN2	NT-BGKcLV23-2
Rep1_qPCR	52.0
Rep2_qPCR	59.0
Rep1_WB	83.2
Rep2_WB	76.6
Antibody Cat#	PA5-80810
Antibody Lot#	LOT# UL2893376
Antibody DCC ID	ENCAB061GXO
Status	Released
Project	ENCODE4
ID	32

Experiment Information (Status: Released)

	BGKcLV23-51	BGKcLV23-52
idx	837	838
TRCN#_or_BGC#	BGC#0000579	BGC#0000579
shRNA_or_gRNA_sequence	CTCCTCACTAGCGCAGCGTG	CTCCTCACTAGCGCAGCGTG
PAM	TGG	TGG
Name	METTL1_91B	METTL1_91B
Sample_ID	BGKcLV23-51	BGKcLV23-52
transduction_Date	9/17/20	9/17/20
days	Day 6	Day 6
RBP_name	METTL1	METTL1
qPCR_result	52.0	59.0
Ave_qPCR	55.5
RT-qPCR_primer-F	GTTTGCAGACATAGGCTGTGG
RT-qPCR_primer-R	ATGATTCGCCACTTGTGCTT
protein_conc	2562	2118
WB_result	83.2	76.6
Ave_WB	79.9
WB_DONE_date	10/26/20
MW	31.5KD
IP	Rabbit / I
antibody_Cat#	PA5-80810	LOT# UL2893376
Antibody DCC ID	ENCAB061GXO
submitted_to_DCC_date	11/16/20
Rep1_TPM	0	0
Rep2_TPM	0	0
Action	Ready	Ready
Library_start_date	11/24/20	11/24/20
repeat_library
Note
ID	4967	4968

Western Blot

RBP	Antibody Info	Primary-HepG2	Secondary-HepG2	Primary-K562	Secondary-K562	Primary-UBERON	Primary-Hela
METTL1	Product_ID: PA5-80810 Lot_ID: UL2893376 Source: Thermo Fisher Target Name: METTL1-human

Experiment Status

	BGKcLV23-51	BGKcLV23-52
Sample_ID	BGKcLV23-51	BGKcLV23-52
Sample Name
Sample Name	METTL1-BGKcLV23-51	METTL1-BGKcLV23-52
RBP	METTL1	METTL1
Cell_Line	K562	K562
Exp UID
Status	Released	Released
Status_date	2021-06-02	2021-06-02
Project	ENCODE4	ENCODE4
Note
ID	7453	7454

Library-Prep
Sequencing

Library-Prep Information

	BGKcLV23-51	BGKcLV23-52
Sample #	55	56
Sample Name	METTL1-BGKcLV23-51	METTL1-BGKcLV23-52
Sample_Name_Alias
Index Well Position	G07	H07
Index_table	IDT_UniqueDualIndex_96	IDT_UniqueDualIndex_96
LibPrep_date	2020-11-24	2020-11-24
Lib_ID	Lib-201124	Lib-201124
Tecan_Location
Tecan
Tecan_date
Size_bp	289	288
Peak_Molarity	140.00	121.00
libSampleQC_DNA_Well	DNA_Library_set46/set1/G7.png	DNA_Library_set46/set1/H7.png
RIN	9.4	9.5
libSample_RNA_Well	RNA_Library_set46/set2/G11.png	RNA_Library_set46/set2/H11.png
SampleQC_method	TapeStation	TapeStation
SampleQC_date	2020-12-04	2020-12-04
Sample_ID	BGKcLV23-51	BGKcLV23-52
RBP	METTL1	METTL1
Batch_ID	BGKcLV23	BGKcLV23
WB_result	83.200	76.600
Library Description	TruSeq mRNA	TruSeq mRNA
Repeat_Library_Suffix
Lib_Status	SendToSequence	SendToSequence
Project	ENCODE4	ENCODE4
ID	1430	1431

Sequencing Information

	BGKcLV23-51	BGKcLV23-52
Sample_ID	BGKcLV23-51	BGKcLV23-52
Sample Name	METTL1-BGKcLV23-51	METTL1-BGKcLV23-52
Pool ID	Pool-201204	Pool-201204
LocalServer_folder	set46_K	set46_K
total_reads	206,654,398	155,089,756
total_aligned_reads	192,931,498	142,653,328
unique_aligned_reads	174,997,984	129,583,932
percent_uniqueAligned	0.84681	0.83554
correlation_replicates	0.999049	0.999049
spikein_reads	82,646	53,960
percent_spikeins	0.00040	0.00035
original_ReadLength	101	101
QC_Status	Submitted	Submitted
ID	536	537

Data Submission Information

	BGKcLV23-51	BGKcLV23-51	BGKcLV23-51	BGKcLV23-51	BGKcLV23-51	BGKcLV23-51	BGKcLV23-52	BGKcLV23-52	BGKcLV23-52	BGKcLV23-52
ENCODE_alias	brenton-graveley:METTL1-BGKcLV23	brenton-graveley:METTL1-BGKcLV23-51	brenton-graveley:L-METTL1-BGKcLV23-51	brenton-graveley:METTL1-BGKcLV23-51_AGGCAGAG+GGCATTCT_HVKGLDSXY_L001_R1_001.filtered.trimmed.paired.fastq.gz	brenton-graveley:METTL1-BGKcLV23-51_AGGCAGAG+GGCATTCT_HVKGLDSXY_L001_R2_001.filtered.trimmed.paired.fastq.gz	brenton-graveley:METTL1-BGKcLV23-K562	brenton-graveley:METTL1-BGKcLV23-52	brenton-graveley:L-METTL1-BGKcLV23-52	brenton-graveley:METTL1-BGKcLV23-52_GAATGAGA+AATGCCTC_HVKGLDSXY_L001_R1_001.filtered.trimmed.paired.fastq.gz	brenton-graveley:METTL1-BGKcLV23-52_GAATGAGA+AATGCCTC_HVKGLDSXY_L001_R2_001.filtered.trimmed.paired.fastq.gz
ENCODE_accession	ENCSR607SRH	ENCBS724UMH	ENCLB429FQQ	ENCFF250GGC	ENCFF180VEL	ENCSR352DZX	ENCBS677VYZ	ENCLB977HHR	ENCFF433QAX	ENCFF292RTO
object_type	experiment	biosample	library	file_fastq1	file_fastq2	gene_silencing_series	biosample	library	file_fastq1	file_fastq2
assay_type	knockdown followed by RNA-seq	knockdown followed by RNA-seq	knockdown followed by RNA-seq	knockdown followed by RNA-seq	knockdown followed by RNA-seq	knockdown followed by RNA-seq	knockdown followed by RNA-seq	knockdown followed by RNA-seq	knockdown followed by RNA-seq	knockdown followed by RNA-seq
Sample_ID	BGKcLV23-51	BGKcLV23-51	BGKcLV23-51	BGKcLV23-51	BGKcLV23-51	BGKcLV23-51	BGKcLV23-52	BGKcLV23-52	BGKcLV23-52	BGKcLV23-52
Sample Name	METTL1-BGKcLV23-51	METTL1-BGKcLV23-51	METTL1-BGKcLV23-51	METTL1-BGKcLV23-51	METTL1-BGKcLV23-51	METTL1-BGKcLV23-51	METTL1-BGKcLV23-52	METTL1-BGKcLV23-52	METTL1-BGKcLV23-52	METTL1-BGKcLV23-52
Selected	Yes	Yes	Yes	Yes	Yes	Yes	Yes	Yes	Yes	Yes
Status	Released	Released	Released	Released	Released	Released	Released	Released	Released	Released
Status_Date	2021-06-02	2021-06-02	2021-06-02	2021-06-02	2021-06-02	2022-03-02	2021-06-02	2021-06-02	2021-06-02	2021-06-02
Project	ENCODE4	ENCODE4	ENCODE4	ENCODE4	ENCODE4	ENCODE4	ENCODE4	ENCODE4	ENCODE4	ENCODE4
		LV46K_biosample_protocol	LV46K_library_protocol				LV46K_biosample_protocol	LV46K_library_protocol
protocol_URL		METTL1-BGKcLV23-51.pdf	L-METTL1-BGKcLV23-51.pdf				METTL1-BGKcLV23-52.pdf	L-METTL1-BGKcLV23-52.pdf
ID	2422	2481	2545	2639	2673	7256	2482	2546	2640	2674

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
METTL1-BGKcLV23-51_AGGCAGAG+GGCATTCT_HVKGLDSXY_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set46_K/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	536	NovaSeq6000	100	paired-ended	1				NT-BGKcLV23-1_GGCATTCT+CAAGCTAG_HVKGLDSXY_L001_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGKcLV23-2_AATGCCTC+TGGATCGA_HVKGLDSXY_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE4	1400
METTL1-BGKcLV23-51_AGGCAGAG+GGCATTCT_HVKGLDSXY_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set46_K/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	536	NovaSeq6000	100	paired-ended	2				NT-BGKcLV23-1_GGCATTCT+CAAGCTAG_HVKGLDSXY_L001_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGKcLV23-2_AATGCCTC+TGGATCGA_HVKGLDSXY_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE4	1464
METTL1-BGKcLV23-51_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set46_K/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	536					GRCh38	V40	METTL1-BGKcLV23-51_AGGCAGAG+GGCATTCT_HVKGLDSXY_L001_R1_001.filtered.trimmed.paired.fastq.gz,METTL1-BGKcLV23-51_AGGCAGAG+GGCATTCT_HVKGLDSXY_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	25303
METTL1-BGKcLV23-51_quant.sf	ENCODE_DATA/set46_K/salmon_ENCORE2	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	536					GRCh38	V40	METTL1-BGKcLV23-51_AGGCAGAG+GGCATTCT_HVKGLDSXY_L001_R1_001.filtered.trimmed.paired.fastq.gz,METTL1-BGKcLV23-51_AGGCAGAG+GGCATTCT_HVKGLDSXY_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	25337
METTL1-BGKcLV23-51_Signal.Unique.strand+.bw	ENCODE_DATA/set46_K/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	536					GRCh38	V40	METTL1-BGKcLV23-51/Aligned.sortedByCoord.out.bam		ENCORE2	26141
METTL1-BGKcLV23-51_Signal.Unique.strand-.bw	ENCODE_DATA/set46_K/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	536					GRCh38	V40	METTL1-BGKcLV23-51/Aligned.sortedByCoord.out.bam		ENCORE2	26175
METTL1-BGKcLV23-51_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set46_K/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	536					GRCh38	V40	METTL1-BGKcLV23-51/Aligned.sortedByCoord.out.bam		ENCORE2	26209
METTL1-BGKcLV23-51_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set46_K/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	536					GRCh38	V40	METTL1-BGKcLV23-51/Aligned.sortedByCoord.out.bam		ENCORE2	26243
METTL1-BGKcLV23-52_GAATGAGA+AATGCCTC_HVKGLDSXY_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set46_K/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	537	NovaSeq6000	100	paired-ended	1				NT-BGKcLV23-1_GGCATTCT+CAAGCTAG_HVKGLDSXY_L001_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGKcLV23-2_AATGCCTC+TGGATCGA_HVKGLDSXY_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE4	1401
METTL1-BGKcLV23-52_GAATGAGA+AATGCCTC_HVKGLDSXY_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set46_K/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	537	NovaSeq6000	100	paired-ended	2				NT-BGKcLV23-1_GGCATTCT+CAAGCTAG_HVKGLDSXY_L001_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGKcLV23-2_AATGCCTC+TGGATCGA_HVKGLDSXY_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE4	1465
METTL1-BGKcLV23-52_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set46_K/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	537					GRCh38	V40	METTL1-BGKcLV23-52_GAATGAGA+AATGCCTC_HVKGLDSXY_L001_R1_001.filtered.trimmed.paired.fastq.gz,METTL1-BGKcLV23-52_GAATGAGA+AATGCCTC_HVKGLDSXY_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	25304
METTL1-BGKcLV23-52_quant.sf	ENCODE_DATA/set46_K/salmon_ENCORE2	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	537					GRCh38	V40	METTL1-BGKcLV23-52_GAATGAGA+AATGCCTC_HVKGLDSXY_L001_R1_001.filtered.trimmed.paired.fastq.gz,METTL1-BGKcLV23-52_GAATGAGA+AATGCCTC_HVKGLDSXY_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	25338
METTL1-BGKcLV23-52_Signal.Unique.strand+.bw	ENCODE_DATA/set46_K/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	537					GRCh38	V40	METTL1-BGKcLV23-52/Aligned.sortedByCoord.out.bam		ENCORE2	26142
METTL1-BGKcLV23-52_Signal.Unique.strand-.bw	ENCODE_DATA/set46_K/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	537					GRCh38	V40	METTL1-BGKcLV23-52/Aligned.sortedByCoord.out.bam		ENCORE2	26176
METTL1-BGKcLV23-52_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set46_K/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	537					GRCh38	V40	METTL1-BGKcLV23-52/Aligned.sortedByCoord.out.bam		ENCORE2	26210
METTL1-BGKcLV23-52_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set46_K/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	537					GRCh38	V40	METTL1-BGKcLV23-52/Aligned.sortedByCoord.out.bam		ENCORE2	26244