FAM98B RNA-Seq in HepG2

Experiment Information (Status: Sequenced)

	BGHcLV50-57	BGHcLV50-58
idx	1876	1877
TRCN#_or_BGC#	BGC#0001423	BGC#0001423
shRNA_or_gRNA_sequence	GGGAGACGTGCTGGACACAC	GGGAGACGTGCTGGACACAC
PAM	TGG	TGG
Name	FAM98B_73	FAM98B_73
Sample_ID	BGHcLV50-57	BGHcLV50-58
transduction_Date	7/29/25	7/29/25
days	D6	D6
RBP_name	FAM98B	FAM98B
qPCR_result	36.4	34.9
Ave_qPCR	35.6
RT-qPCR_primer-F	ttccgcatatgctaaaccaa
RT-qPCR_primer-R	tcccacatgatttttctgga
protein_conc	3290	3237
WB_result	90.7	88.4
Ave_WB
WB_DONE_date	8/26/25
MW	46kd
IP
antibody_Cat#	A305-818A-M	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	10065	10066

Western Blot Western Blot info was not avaliable

Experiment Status

	BGHcLV50-57	BGHcLV50-58
Sample_ID	BGHcLV50-57	BGHcLV50-58
Sample Name
Sample Name	FAM98B-BGHcLV50-57	FAM98B-BGHcLV50-58
RBP	FAM98B	FAM98B
Cell_Line	HepG2	HepG2
Exp UID
Status	Sequenced	Sequenced
Status_date	2025-10-30	2025-10-30
Project	ENCORE2	ENCORE2
Note
ID	14460	14461

Library-Prep
Sequencing

Library-Prep Information

	BGHcLV50-57	BGHcLV50-58
Sample #	13	14
Sample Name	FAM98B-BGHcLV50-57	FAM98B-BGHcLV50-58
Sample_Name_Alias
Index Well Position	E11	F11
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	287	280
Peak_Molarity	64.00	72.20
libSampleQC_DNA_Well	DNA_Library_set80/set1/E11.png	DNA_Library_set80/set1/F11.png
RIN	10.0	10.0
libSample_RNA_Well	RNA_Library_set80/set1/E8.png	RNA_Library_set80/set1/F8.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2025-10-03	2025-10-03
Sample_ID	BGHcLV50-57	BGHcLV50-58
RBP	FAM98B	FAM98B
Batch_ID	BGHcLV50	BGHcLV50
WB_result	90.700	88.400
Library Description	TruSeq mRNA	TruSeq mRNA
Repeat_Library_Suffix
Lib_Status	SendToSequence	SendToSequence
Project	ENCORE2	ENCORE2
ID	4828	4829

Sequencing Information

	BGHcLV50-57	BGHcLV50-58
Sample_ID	BGHcLV50-57	BGHcLV50-58
Sample Name	FAM98B-BGHcLV50-57	FAM98B-BGHcLV50-58
Pool ID	Pool-251003	Pool-251003
LocalServer_folder	set80	set80
total_reads	26,089,621	20,454,501
total_aligned_reads	23,436,177	18,338,743
unique_aligned_reads	22,179,109	17,347,034
percent_uniqueAligned	0.85011	0.84808
correlation_replicates	0.993578	0.993578
spikein_reads	76,916	74,340
percent_spikeins	0.00295	0.00363
original_ReadLength	151	151
QC_Status	ReadyToSubmit	ReadyToSubmit
ID	3483	3484

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
FAM98B-BGHcLV50-57_S13_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set80/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3483	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	32984
FAM98B-BGHcLV50-57_S13_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set80/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3483	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	33008
FAM98B-BGHcLV50-57_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set80/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3483					GRCh38	V40	FAM98B-BGHcLV50-57_S13_L001_R1_001.filtered.trimmed.paired.fastq.gz,FAM98B-BGHcLV50-57_S13_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	33032
FAM98B-BGHcLV50-57_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	3483					GRCh38	V40	FAM98B-BGHcLV50-57_Aligned.sortedByCoord.out.bam		ENCORE2	33056
FAM98B-BGHcLV50-57_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	3483					GRCh38	V40	FAM98B-BGHcLV50-57_Aligned.sortedByCoord.out.bam		ENCORE2	33080
FAM98B-BGHcLV50-57_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	3483					GRCh38	V40	FAM98B-BGHcLV50-57_Aligned.sortedByCoord.out.bam		ENCORE2	33104
FAM98B-BGHcLV50-57_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	3483					GRCh38	V40	FAM98B-BGHcLV50-57_Aligned.sortedByCoord.out.bam		ENCORE2	33128
FAM98B-BGHcLV50-57_quant.sf	ENCODE_DATA/set80/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3483					GRCh38	V40	FAM98B-BGHcLV50-57_S13_L001_R1_001.filtered.trimmed.paired.fastq.gz,FAM98B-BGHcLV50-57_S13_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	33152
FAM98B-BGHcLV50-58_S14_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set80/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3484	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	32985
FAM98B-BGHcLV50-58_S14_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set80/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3484	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	33009
FAM98B-BGHcLV50-58_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set80/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3484					GRCh38	V40	FAM98B-BGHcLV50-58_S14_L001_R1_001.filtered.trimmed.paired.fastq.gz,FAM98B-BGHcLV50-58_S14_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	33033
FAM98B-BGHcLV50-58_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	3484					GRCh38	V40	FAM98B-BGHcLV50-58_Aligned.sortedByCoord.out.bam		ENCORE2	33057
FAM98B-BGHcLV50-58_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	3484					GRCh38	V40	FAM98B-BGHcLV50-58_Aligned.sortedByCoord.out.bam		ENCORE2	33081
FAM98B-BGHcLV50-58_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	3484					GRCh38	V40	FAM98B-BGHcLV50-58_Aligned.sortedByCoord.out.bam		ENCORE2	33105
FAM98B-BGHcLV50-58_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	3484					GRCh38	V40	FAM98B-BGHcLV50-58_Aligned.sortedByCoord.out.bam		ENCORE2	33129
FAM98B-BGHcLV50-58_quant.sf	ENCODE_DATA/set80/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3484					GRCh38	V40	FAM98B-BGHcLV50-58_S14_L001_R1_001.filtered.trimmed.paired.fastq.gz,FAM98B-BGHcLV50-58_S14_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	33153