non-target      CRISPR in HepG2      Batch: BGHcLV47

General Information

List KD experiments controlled by BGHcLV47-1 and BGHcLV47-2


NT-BGHcLV47-1,NT-BGHcLV47-2:No KD experiments controlled by NT-BGHcLV47-1 and NT-BGHcLV47-2 are available on the database




Experiment Information (Status: Sequenced)
BGHcLV47-1BGHcLV47-2
idx16051606
TRCN#_or_BGC#BGC#0000000BGC#0000000
shRNA_or_gRNA_sequenceCAGTCGGGCGTCATCATGATCAGTCGGGCGTCATCATGAT
PAM
Namenon-targetnon-target
Sample_IDBGHcLV47-1BGHcLV47-2
transduction_Date1/28/251/28/25
daysD6D6
RBP_namenon-targetnon-target
qPCR_result
Ave_qPCR
RT-qPCR_primer-F
RT-qPCR_primer-R
protein_conc04277
WB_result
Ave_WB
WB_DONE_date
MW
IP
antibody_Cat#
Antibody DCC ID
submitted_to_DCC_date
Rep1_TPM00
Rep2_TPM00
ActionReadyReady
Library_start_date
repeat_library
Note
ID97949795




Western Blot
Western Blot info was not avaliable




Experiment Status
BGHcLV47-1BGHcLV47-2
Sample_IDBGHcLV47-1BGHcLV47-2
Sample Name
Sample NameNT-BGHcLV47-1NT-BGHcLV47-2
RBPnon-targetnon-target
Cell_LineHepG2HepG2
Exp UID
StatusSequencedSequenced
Status_date2025-05-142025-05-14
ProjectENCORE2ENCORE2
Note
ID1414814149




Library-Prep Information
BGHcLV47-1BGHcLV47-2
Sample #12
Sample NameNT-BGHcLV47-1NT-BGHcLV47-2
Sample_Name_Alias
Index Well PositionA08B08
Index_tableIDT_UniqueDualIndex_96_V2IDT_UniqueDualIndex_96_V2
LibPrep_date2025-04-232025-04-23
Lib_IDLib-250423Lib-250423
Tecan_Location
Tecan
Tecan_date
Size_bp258260
Peak_Molarity41.2046.50
libSampleQC_DNA_WellDNA_Library_set78/set1/A6.pngDNA_Library_set78/set1/B6.png
RIN10.010.0
libSample_RNA_WellRNA_Library_set78/set1/A1.pngRNA_Library_set78/set1/B1.png
SampleQC_methodTapeStation_2022TapeStation_2022
SampleQC_date2025-04-222025-04-22
Sample_IDBGHcLV47-1BGHcLV47-2
RBPNTNT
Batch_IDBGHcLV47BGHcLV47
WB_result0.0000.000
Library DescriptionTruSeq mRNATruSeq mRNA
Repeat_Library_Suffix
Lib_StatusSendToSequenceSendToSequence
ProjectENCORE2ENCORE2
ID47124713




Sequencing Information
BGHcLV47-1BGHcLV47-2
Sample_IDBGHcLV47-1BGHcLV47-2
Sample NameNT-BGHcLV47-1NT-BGHcLV47-2
Pool IDPool-250422Pool-250422
LocalServer_folderset78set78
total_reads24,486,86918,392,475
total_aligned_reads19,098,22215,210,567
unique_aligned_reads17,895,40014,298,503
percent_uniqueAligned0.730820.77741
correlation_replicates0.9975480.997548
spikein_reads12,82627,144
percent_spikeins0.000520.00148
original_ReadLength101101
QC_StatusReadyToSubmitReadyToSubmit
ID34153416




Data Submission Information
DCC submission information was not avaliable




File Information
file_namefile_pathfile_formatoutput_typeassay_typelabSample IDplatformread_lengthrun_typepaired_endassemblygenome_annotationderived_fromcontrolled_byProjectNoteFILE_ID
NT-BGHcLV47-1_S42_L002_R1_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set78/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab3415NovaSeq6000100paired-ended1ENCORE232566
NT-BGHcLV47-1_S42_L002_R2_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set78/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab3415NovaSeq6000100paired-ended2ENCORE232600
NT-BGHcLV47-1_Aligned.sortedByCoord.out.bamENCODE_DATA/set78/STAR_ENCORE2_trimmed_file_linksbamalignmentsknockdown followed by RNA-seqGraveley Lab3415GRCh38V40NT-BGHcLV47-1_S42_L002_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV47-1_S42_L002_R2_001.filtered.trimmed.paired.fastq.gzENCORE232634
NT-BGHcLV47-1_Signal.UniqueMultiple.strand-.bwENCODE_DATA/set78/STAR_ENCORE2_trimmed_file_linksbigWig-allminus strand signal of all readsknockdown followed by RNA-seqGraveley Lab3415GRCh38V40NT-BGHcLV47-1_Aligned.sortedByCoord.out.bamENCORE232668
NT-BGHcLV47-1_Signal.UniqueMultiple.strand+.bwENCODE_DATA/set78/STAR_ENCORE2_trimmed_file_linksbigWig+allplus strand signal of all readsknockdown followed by RNA-seqGraveley Lab3415GRCh38V40NT-BGHcLV47-1_Aligned.sortedByCoord.out.bamENCORE232702
NT-BGHcLV47-1_Signal.Unique.strand-.bwENCODE_DATA/set78/STAR_ENCORE2_trimmed_file_linksbigWig-uniqueminus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab3415GRCh38V40NT-BGHcLV47-1_Aligned.sortedByCoord.out.bamENCORE232736
NT-BGHcLV47-1_Signal.Unique.strand+.bwENCODE_DATA/set78/STAR_ENCORE2_trimmed_file_linksbigWig+uniqueplus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab3415GRCh38V40NT-BGHcLV47-1_Aligned.sortedByCoord.out.bamENCORE232770
NT-BGHcLV47-1_quant.sfENCODE_DATA/set78/salmon_ENCORE2_file_linkstranscript_quantificationtranscript quantificationsknockdown followed by RNA-seqGraveley Lab3415GRCh38V40NT-BGHcLV47-1_S42_L002_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV47-1_S42_L002_R2_001.filtered.trimmed.paired.fastq.gzENCORE232804
NT-BGHcLV47-2_S43_L002_R1_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set78/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab3416NovaSeq6000100paired-ended1ENCORE232567
NT-BGHcLV47-2_S43_L002_R2_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set78/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab3416NovaSeq6000100paired-ended2ENCORE232601
NT-BGHcLV47-2_Aligned.sortedByCoord.out.bamENCODE_DATA/set78/STAR_ENCORE2_trimmed_file_linksbamalignmentsknockdown followed by RNA-seqGraveley Lab3416GRCh38V40NT-BGHcLV47-2_S43_L002_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV47-2_S43_L002_R2_001.filtered.trimmed.paired.fastq.gzENCORE232635
NT-BGHcLV47-2_Signal.UniqueMultiple.strand-.bwENCODE_DATA/set78/STAR_ENCORE2_trimmed_file_linksbigWig-allminus strand signal of all readsknockdown followed by RNA-seqGraveley Lab3416GRCh38V40NT-BGHcLV47-2_Aligned.sortedByCoord.out.bamENCORE232669
NT-BGHcLV47-2_Signal.UniqueMultiple.strand+.bwENCODE_DATA/set78/STAR_ENCORE2_trimmed_file_linksbigWig+allplus strand signal of all readsknockdown followed by RNA-seqGraveley Lab3416GRCh38V40NT-BGHcLV47-2_Aligned.sortedByCoord.out.bamENCORE232703
NT-BGHcLV47-2_Signal.Unique.strand-.bwENCODE_DATA/set78/STAR_ENCORE2_trimmed_file_linksbigWig-uniqueminus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab3416GRCh38V40NT-BGHcLV47-2_Aligned.sortedByCoord.out.bamENCORE232737
NT-BGHcLV47-2_Signal.Unique.strand+.bwENCODE_DATA/set78/STAR_ENCORE2_trimmed_file_linksbigWig+uniqueplus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab3416GRCh38V40NT-BGHcLV47-2_Aligned.sortedByCoord.out.bamENCORE232771
NT-BGHcLV47-2_quant.sfENCODE_DATA/set78/salmon_ENCORE2_file_linkstranscript_quantificationtranscript quantificationsknockdown followed by RNA-seqGraveley Lab3416GRCh38V40NT-BGHcLV47-2_S43_L002_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV47-2_S43_L002_R2_001.filtered.trimmed.paired.fastq.gzENCORE232805