HNRNPCL1 RNA-Seq in 293T

Experiment Information (Status: Released)

	BG293LV06-123	BG293LV06-124
idx	0	0
TRCN#_or_BGC#	TRCN0000075086	TRCN0000075086
shRNA_or_gRNA_sequence	CCGGGCTTCAATTCTAAGAGTGGAACTCGAGTTCCACTCTTAGAATTGAAGCTTTTTG	CCGGGCTTCAATTCTAAGAGTGGAACTCGAGTTCCACTCTTAGAATTGAAGCTTTTTG
PAM
Name	HNRNPCL1	HNRNPCL1
Sample_ID	BG293LV06-123	BG293LV06-124
transduction_Date	9/5/24	9/5/24
days	D4	D4
RBP_name	HNRNPCL1	HNRNPCL1
qPCR_result	63.4	62.4
Ave_qPCR	62.9
RT-qPCR_primer-F
RT-qPCR_primer-R
protein_conc	0	0
WB_result
Ave_WB
WB_DONE_date
MW
IP
antibody_Cat#
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	12258	12259

Western Blot Western Blot info was not avaliable

Experiment Status

	BG293LV06-123	BG293LV06-124
Sample_ID	BG293LV06-123	BG293LV06-124
Sample Name
Sample Name	HNRNPCL1-BG293LV06-123B	HNRNPCL1-BG293LV06-124B
RBP	HNRNPCL1	HNRNPCL1
Cell_Line	293T	293T
Exp UID
Status	Released	Released
Status_date	2025-04-21	2025-04-21
Project	ENCORE2	ENCORE2
Note
ID	13560	13561

Library-Prep
Sequencing

Library-Prep Information

	BG293LV06-123	BG293LV06-124
Sample #	123	124
Sample Name	HNRNPCL1-BG293LV06-123B	HNRNPCL1-BG293LV06-124B
Sample_Name_Alias
Index Well Position	C09	D09
Index_table	IDT_UniqueDualIndex_96_V2	IDT_UniqueDualIndex_96_V2
LibPrep_date	2024-10-02	2024-10-02
Lib_ID	Lib-241002	Lib-241002
Tecan_Location
Tecan
Tecan_date
Size_bp	273	280
Peak_Molarity	90.90	91.40
libSampleQC_DNA_Well	DNA_Library_set72/set1/C9.png	DNA_Library_set72/set1/D9.png
RIN	10.0	9.9
libSample_RNA_Well	RNA_Library_set72/set1/C9.png	RNA_Library_set72/set1/D9.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2024-10-04	2024-10-04
Sample_ID	BG293LV06-123	BG293LV06-124
RBP	HNRNPCL1	HNRNPCL1
Batch_ID	BG293LV06	BG293LV06
WB_result	0.000	0.000
Library Description	TruSeq mRNA	TruSeq mRNA
Repeat_Library_Suffix	B	B
Lib_Status	SendToSequence	SendToSequence
Project	ENCORE2	ENCORE2
ID	4548	4549

Sequencing Information

	BG293LV06-123	BG293LV06-124
Sample_ID	BG293LV06-123	BG293LV06-124
Sample Name	HNRNPCL1-BG293LV06-123B	HNRNPCL1-BG293LV06-124B
Pool ID	Pool-241004	Pool-241004
LocalServer_folder	set72	set72
total_reads	43,356,394	36,328,670
total_aligned_reads	40,934,706	34,449,192
unique_aligned_reads	38,497,413	32,562,042
percent_uniqueAligned	0.88793	0.89632
correlation_replicates	0.975429	0.975429
spikein_reads	116,358	90,676
percent_spikeins	0.00268	0.00250
original_ReadLength	101	101
QC_Status	Submitted	Submitted
ID	3117	3118

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
HNRNPCL1-BG293LV06-123B_S75_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set72/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3117	NovaSeq6000	100	paired-ended	1				NT-BG293LV06-1Bmerged_S9_L001_R1_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV06-2Bmerged_S10_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	29780
HNRNPCL1-BG293LV06-123B_S75_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set72/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3117	NovaSeq6000	100	paired-ended	2				NT-BG293LV06-1Bmerged_S9_L001_R2_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV06-2Bmerged_S10_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	29852
HNRNPCL1-BG293LV06-123B_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set72/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3117					GRCh38	V40	HNRNPCL1-BG293LV06-123B_S75_L001_R1_001.filtered.trimmed.paired.fastq.gz,HNRNPCL1-BG293LV06-123B_S75_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	29924
HNRNPCL1-BG293LV06-123B_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set72/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3117					GRCh38	V40	HNRNPCL1-BG293LV06-123B_Aligned.sortedByCoord.out.bam		ENCORE2	29996
HNRNPCL1-BG293LV06-123B_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set72/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3117					GRCh38	V40	HNRNPCL1-BG293LV06-123B_Aligned.sortedByCoord.out.bam		ENCORE2	30068
HNRNPCL1-BG293LV06-123B_Signal.Unique.strand-.bw	ENCODE_DATA/set72/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3117					GRCh38	V40	HNRNPCL1-BG293LV06-123B_Aligned.sortedByCoord.out.bam		ENCORE2	30140
HNRNPCL1-BG293LV06-123B_Signal.Unique.strand+.bw	ENCODE_DATA/set72/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3117					GRCh38	V40	HNRNPCL1-BG293LV06-123B_Aligned.sortedByCoord.out.bam		ENCORE2	30212
HNRNPCL1-BG293LV06-123B_quant.sf	ENCODE_DATA/set72/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3117					GRCh38	V40	HNRNPCL1-BG293LV06-123B_S75_L001_R1_001.filtered.trimmed.paired.fastq.gz,HNRNPCL1-BG293LV06-123B_S75_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	30284
HNRNPCL1-BG293LV06-124B_S76_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set72/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3118	NovaSeq6000	100	paired-ended	1				NT-BG293LV06-1Bmerged_S9_L001_R1_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV06-2Bmerged_S10_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	29781
HNRNPCL1-BG293LV06-124B_S76_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set72/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3118	NovaSeq6000	100	paired-ended	2				NT-BG293LV06-1Bmerged_S9_L001_R2_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV06-2Bmerged_S10_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	29853
HNRNPCL1-BG293LV06-124B_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set72/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3118					GRCh38	V40	HNRNPCL1-BG293LV06-124B_S76_L001_R1_001.filtered.trimmed.paired.fastq.gz,HNRNPCL1-BG293LV06-124B_S76_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	29925
HNRNPCL1-BG293LV06-124B_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set72/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3118					GRCh38	V40	HNRNPCL1-BG293LV06-124B_Aligned.sortedByCoord.out.bam		ENCORE2	29997
HNRNPCL1-BG293LV06-124B_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set72/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3118					GRCh38	V40	HNRNPCL1-BG293LV06-124B_Aligned.sortedByCoord.out.bam		ENCORE2	30069
HNRNPCL1-BG293LV06-124B_Signal.Unique.strand-.bw	ENCODE_DATA/set72/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3118					GRCh38	V40	HNRNPCL1-BG293LV06-124B_Aligned.sortedByCoord.out.bam		ENCORE2	30141
HNRNPCL1-BG293LV06-124B_Signal.Unique.strand+.bw	ENCODE_DATA/set72/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3118					GRCh38	V40	HNRNPCL1-BG293LV06-124B_Aligned.sortedByCoord.out.bam		ENCORE2	30213
HNRNPCL1-BG293LV06-124B_quant.sf	ENCODE_DATA/set72/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3118					GRCh38	V40	HNRNPCL1-BG293LV06-124B_S76_L001_R1_001.filtered.trimmed.paired.fastq.gz,HNRNPCL1-BG293LV06-124B_S76_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	30285