DYNC1LI1 RNA-Seq in HepG2

Experiment Information (Status: Sequenced)

	BGHcLV50-31	BGHcLV50-32
idx	1850	1851
TRCN#_or_BGC#	BGC#0001411	BGC#0001411
shRNA_or_gRNA_sequence	ACGCTATCTCGTTGCCCAAG	ACGCTATCTCGTTGCCCAAG
PAM	GGG	GGG
Name	DYNC1LI1_95	DYNC1LI1_95
Sample_ID	BGHcLV50-31	BGHcLV50-32
transduction_Date	7/29/25	7/29/25
days	D6	D6
RBP_name	DYNC1LI1	DYNC1LI1
qPCR_result	22.3	29.2
Ave_qPCR	25.7
RT-qPCR_primer-F	GCAAAGCAACCACCAACTGCAG
RT-qPCR_primer-R	ATGGGTGACACGCTGGCAACAT
protein_conc	2966	3377
WB_result	77.4	78.5
Ave_WB
WB_DONE_date	8/14/25
MW	57KD
IP
antibody_Cat#	A304-208A	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	10039	10040

Western Blot Western Blot info was not avaliable

Experiment Status

	BGHcLV50-31	BGHcLV50-32
Sample_ID	BGHcLV50-31	BGHcLV50-32
Sample Name
Sample Name	DYNC1LI1-BGHcLV50-31	DYNC1LI1-BGHcLV50-32
RBP	DYNC1LI1	DYNC1LI1
Cell_Line	HepG2	HepG2
Exp UID
Status	Sequenced	Sequenced
Status_date	2025-10-30	2025-10-30
Project	ENCORE2	ENCORE2
Note
ID	14454	14455

Library-Prep
Sequencing

Library-Prep Information

	BGHcLV50-31	BGHcLV50-32
Sample #	7	8
Sample Name	DYNC1LI1-BGHcLV50-31	DYNC1LI1-BGHcLV50-32
Sample_Name_Alias
Index Well Position	G10	H10
Index_table	IDT_UniqueDualIndex_96_V2	IDT_UniqueDualIndex_96_V2
LibPrep_date	2025-10-01	2025-10-01
Lib_ID	Lib-251001	Lib-251001
Tecan_Location
Tecan
Tecan_date
Size_bp	280	269
Peak_Molarity	32.30	35.60
libSampleQC_DNA_Well	DNA_Library_set80/set1/G10.png	DNA_Library_set80/set1/H10.png
RIN	9.9	9.9
libSample_RNA_Well	RNA_Library_set80/set1/G7.png	RNA_Library_set80/set1/H7.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2025-10-03	2025-10-03
Sample_ID	BGHcLV50-31	BGHcLV50-32
RBP	DYNC1LI1	DYNC1LI1
Batch_ID	BGHcLV50	BGHcLV50
WB_result	77.400	78.500
Library Description	TruSeq mRNA	TruSeq mRNA
Repeat_Library_Suffix
Lib_Status	SendToSequence	SendToSequence
Project	ENCORE2	ENCORE2
ID	4822	4823

Sequencing Information

	BGHcLV50-31	BGHcLV50-32
Sample_ID	BGHcLV50-31	BGHcLV50-32
Sample Name	DYNC1LI1-BGHcLV50-31	DYNC1LI1-BGHcLV50-32
Pool ID	Pool-251003	Pool-251003
LocalServer_folder	set80	set80
total_reads	27,149,056	33,899,946
total_aligned_reads	24,090,557	30,311,393
unique_aligned_reads	22,638,073	28,510,987
percent_uniqueAligned	0.83384	0.84103
correlation_replicates	0.995050	0.995050
spikein_reads	73,000	45,280
percent_spikeins	0.00269	0.00134
original_ReadLength	151	151
QC_Status	ReadyToSubmit	ReadyToSubmit
ID	3477	3478

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
DYNC1LI1-BGHcLV50-31_S7_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set80/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3477	NovaSeq6000	100	paired-ended	1				NT-BGHcLV50-1_S1_L001_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV50-2_S2_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	32978
DYNC1LI1-BGHcLV50-31_S7_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set80/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3477	NovaSeq6000	100	paired-ended	2				NT-BGHcLV50-1_S1_L001_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV50-2_S2_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	33002
DYNC1LI1-BGHcLV50-31_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set80/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3477					GRCh38	V40	DYNC1LI1-BGHcLV50-31_S7_L001_R1_001.filtered.trimmed.paired.fastq.gz,DYNC1LI1-BGHcLV50-31_S7_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	33026
DYNC1LI1-BGHcLV50-31_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set80/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3477					GRCh38	V40	DYNC1LI1-BGHcLV50-31_Aligned.sortedByCoord.out.bam		ENCORE2	33050
DYNC1LI1-BGHcLV50-31_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set80/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3477					GRCh38	V40	DYNC1LI1-BGHcLV50-31_Aligned.sortedByCoord.out.bam		ENCORE2	33074
DYNC1LI1-BGHcLV50-31_Signal.Unique.strand-.bw	ENCODE_DATA/set80/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3477					GRCh38	V40	DYNC1LI1-BGHcLV50-31_Aligned.sortedByCoord.out.bam		ENCORE2	33098
DYNC1LI1-BGHcLV50-31_Signal.Unique.strand+.bw	ENCODE_DATA/set80/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3477					GRCh38	V40	DYNC1LI1-BGHcLV50-31_Aligned.sortedByCoord.out.bam		ENCORE2	33122
DYNC1LI1-BGHcLV50-31_quant.sf	ENCODE_DATA/set80/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3477					GRCh38	V40	DYNC1LI1-BGHcLV50-31_S7_L001_R1_001.filtered.trimmed.paired.fastq.gz,DYNC1LI1-BGHcLV50-31_S7_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	33146
DYNC1LI1-BGHcLV50-32_S8_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set80/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3478	NovaSeq6000	100	paired-ended	1				NT-BGHcLV50-1_S1_L001_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV50-2_S2_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	32979
DYNC1LI1-BGHcLV50-32_S8_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set80/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3478	NovaSeq6000	100	paired-ended	2				NT-BGHcLV50-1_S1_L001_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV50-2_S2_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	33003
DYNC1LI1-BGHcLV50-32_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set80/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3478					GRCh38	V40	DYNC1LI1-BGHcLV50-32_S8_L001_R1_001.filtered.trimmed.paired.fastq.gz,DYNC1LI1-BGHcLV50-32_S8_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	33027
DYNC1LI1-BGHcLV50-32_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set80/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3478					GRCh38	V40	DYNC1LI1-BGHcLV50-32_Aligned.sortedByCoord.out.bam		ENCORE2	33051
DYNC1LI1-BGHcLV50-32_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set80/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3478					GRCh38	V40	DYNC1LI1-BGHcLV50-32_Aligned.sortedByCoord.out.bam		ENCORE2	33075
DYNC1LI1-BGHcLV50-32_Signal.Unique.strand-.bw	ENCODE_DATA/set80/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3478					GRCh38	V40	DYNC1LI1-BGHcLV50-32_Aligned.sortedByCoord.out.bam		ENCORE2	33099
DYNC1LI1-BGHcLV50-32_Signal.Unique.strand+.bw	ENCODE_DATA/set80/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3478					GRCh38	V40	DYNC1LI1-BGHcLV50-32_Aligned.sortedByCoord.out.bam		ENCORE2	33123
DYNC1LI1-BGHcLV50-32_quant.sf	ENCODE_DATA/set80/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3478					GRCh38	V40	DYNC1LI1-BGHcLV50-32_S8_L001_R1_001.filtered.trimmed.paired.fastq.gz,DYNC1LI1-BGHcLV50-32_S8_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	33147