non-target      CRISPR in HepG2      Control: NT-BGHcLV32-B

General Information

List KD experiments controlled by BGHcLV32-1 and BGHcLV32-2


NT-BGHcLV32-1,NT-BGHcLV32-2:
  • RBM25-BGHcLV32-HepG2
  • REXO2-BGHcLV32-HepG2
  • RNASEH2A-BGHcLV32-HepG2
  • RNH1-BGHcLV32-HepG2
  • ROCK2-BGHcLV32-HepG2
  • RPL29-BGHcLV32-HepG2
  • RPRD1B-BGHcLV32-HepG2
  • RPS15A-BGHcLV32-HepG2

    • NT-BGHcLV32-1B,NT-BGHcLV32-2B:
  • RIOK2-BGHcLV32-HepG2




    • Experiment Information (Status: Released)
    BGHcLV32-1BGHcLV32-2
    idx994995
    TRCN#_or_BGC#BGC#0000000BGC#0000000
    shRNA_or_gRNA_sequenceCAGTCGGGCGTCATCATGATCAGTCGGGCGTCATCATGAT
    PAM
    Namenon-targetnon-target
    Sample_IDBGHcLV32-1BGHcLV32-2
    transduction_Date10/28/2110/28/21
    daysD6D6
    RBP_namenon-targetnon-target
    qPCR_result
    Ave_qPCR
    RT-qPCR_primer-F
    RT-qPCR_primer-R
    protein_conc03487
    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_date2/9/222/9/22
    repeat_library02/14/2202/14/22
    Note
    ID71737174




    Western Blot
    Western Blot info was not avaliable




    Experiment Status
    BGHcLV32-1BGHcLV32-1BGHcLV32-2BGHcLV32-2
    Sample_IDBGHcLV32-1BGHcLV32-1BGHcLV32-2BGHcLV32-2
    Sample Name
    Sample NameNT-BGHcLV32-1NT-BGHcLV32-1BNT-BGHcLV32-2NT-BGHcLV32-2B
    RBPnon-targetnon-targetnon-targetnon-target
    Cell_LineHepG2HepG2HepG2HepG2
    Exp UID
    StatusReleasedReleasedReleasedReleased
    Status_date2022-10-282022-10-282022-10-282022-10-28
    ProjectENCODE4ENCODE4ENCODE4ENCODE4
    Note
    ID10359104351036010436




    Library-Prep Information
    BGHcLV32-1BGHcLV32-1BGHcLV32-2BGHcLV32-2
    Sample #33553456
    Sample NameNT-BGHcLV32-1NT-BGHcLV32-1BNT-BGHcLV32-2NT-BGHcLV32-2B
    Sample_Name_Alias
    Index Well PositionA05G07B05H07
    Index_tableIDT_UniqueDualIndex_96IDT_UniqueDualIndex_96IDT_UniqueDualIndex_96IDT_UniqueDualIndex_96
    LibPrep_date2022-02-012022-02-152022-02-012022-02-15
    Lib_IDLib-220201Lib-220215Lib-220201Lib-220215
    Tecan_Location
    Tecan
    Tecan_date
    Size_bp293299335294
    Peak_Molarity40.3066.9064.0060.40
    libSampleQC_DNA_WellDNA_Library_set52/set2/A5.pngDNA_Library_set52/set3/G12.pngDNA_Library_set52/set2/B5.pngDNA_Library_set52/set3/H12.png
    RIN9.79.79.89.8
    libSample_RNA_WellRNA_Library_set52/set2/E7.pngRNA_Library_set52/set2/E7.pngRNA_Library_set52/set2/F7.pngRNA_Library_set52/set2/F7.png
    SampleQC_methodTapeStation_2022TapeStation_2022TapeStation_2022TapeStation_2022
    SampleQC_date2022-02-162022-02-162022-02-162022-02-16
    Sample_IDBGHcLV32-1BGHcLV32-1BGHcLV32-2BGHcLV32-2
    RBPNTNTNTNT
    Batch_IDBGHcLV32BGHcLV32BGHcLV32BGHcLV32
    WB_result0.0000.0000.0000.000
    Library DescriptionTruSeq mRNATruSeq mRNATruSeq mRNATruSeq mRNA
    Repeat_Library_SuffixBB
    Lib_StatusSendToSequenceSendToSequenceSendToSequenceSendToSequence
    ProjectENCODE4ENCODE4ENCODE4ENCODE4
    ID3210323232113233




    Sequencing Information
    BGHcLV32-1BGHcLV32-1BGHcLV32-2BGHcLV32-2
    Sample_IDBGHcLV32-1BGHcLV32-1BGHcLV32-2BGHcLV32-2
    Sample NameNT-BGHcLV32-1NT-BGHcLV32-1BNT-BGHcLV32-2NT-BGHcLV32-2B
    Pool IDPool-220331Pool-220331Pool-220331Pool-220331
    LocalServer_folderset52set52set52set52
    total_reads194,453,40487,924,180172,416,424121,880,294
    total_aligned_reads168,558,82475,190,526151,303,892105,579,240
    unique_aligned_reads158,361,52870,893,292142,368,12499,387,976
    percent_uniqueAligned0.814390.806300.825720.81546
    correlation_replicates0.9983670.9978060.9983670.997806
    spikein_reads19,0347,19232,2425,496
    percent_spikeins0.000100.000080.000190.00005
    original_ReadLength101101101101
    QC_StatusSubmittedSubmittedSubmittedSubmitted
    ID2007202720082028




    Data Submission Information
    BGHcLV32-1BGHcLV32-1BGHcLV32-1BGHcLV32-1BGHcLV32-1BGHcLV32-1BGHcLV32-1BGHcLV32-1BGHcLV32-1BGHcLV32-2BGHcLV32-2BGHcLV32-2BGHcLV32-2BGHcLV32-2BGHcLV32-2BGHcLV32-2
    ENCODE_aliasbrenton-graveley:NT-BGHcLV32brenton-graveley:NT-BGHcLV32-Bbrenton-graveley:NT-BGHcLV32-1brenton-graveley:L-NT-BGHcLV32-1brenton-graveley:L-NT-BGHcLV32-1Bbrenton-graveley:NT-BGHcLV32-1_S33_L001_R1_001.filtered.trimmed.paired.fastq.gzbrenton-graveley:NT-BGHcLV32-1B_S53_L001_R1_001.filtered.trimmed.paired.fastq.gzbrenton-graveley:NT-BGHcLV32-1_S33_L001_R2_001.filtered.trimmed.paired.fastq.gzbrenton-graveley:NT-BGHcLV32-1B_S53_L001_R2_001.filtered.trimmed.paired.fastq.gzbrenton-graveley:NT-BGHcLV32-2brenton-graveley:L-NT-BGHcLV32-2brenton-graveley:L-NT-BGHcLV32-2Bbrenton-graveley:NT-BGHcLV32-2_S34_L001_R1_001.filtered.trimmed.paired.fastq.gzbrenton-graveley:NT-BGHcLV32-2B_S54_L001_R1_001.filtered.trimmed.paired.fastq.gzbrenton-graveley:NT-BGHcLV32-2_S34_L001_R2_001.filtered.trimmed.paired.fastq.gzbrenton-graveley:NT-BGHcLV32-2B_S54_L001_R2_001.filtered.trimmed.paired.fastq.gz
    ENCODE_accessionENCSR232ERYENCSR911CLDENCBS907MRZENCLB518OWPENCLB509YARENCFF352CIJENCFF844DKYENCFF952SNNENCFF097FZWENCBS969BWMENCLB881WRBENCLB427SNFENCFF952XNOENCFF770IANENCFF700KFPENCFF922OJA
    object_typeexperimentexperimentbiosamplelibrarylibraryfile_fastq1file_fastq1file_fastq2file_fastq2biosamplelibrarylibraryfile_fastq1file_fastq1file_fastq2file_fastq2
    assay_typeknockdown followed by RNA-seqknockdown followed by RNA-seqknockdown followed by RNA-seqknockdown followed by RNA-seqknockdown followed by RNA-seqknockdown followed by RNA-seqknockdown followed by RNA-seqknockdown followed by RNA-seqknockdown followed by RNA-seqknockdown followed by RNA-seqknockdown followed by RNA-seqknockdown followed by RNA-seqknockdown followed by RNA-seqknockdown followed by RNA-seqknockdown followed by RNA-seqknockdown followed by RNA-seq
    Sample_IDBGHcLV32-1BGHcLV32-1BGHcLV32-1BGHcLV32-1BGHcLV32-1BGHcLV32-1BGHcLV32-1BGHcLV32-1BGHcLV32-1BGHcLV32-2BGHcLV32-2BGHcLV32-2BGHcLV32-2BGHcLV32-2BGHcLV32-2BGHcLV32-2
    Sample NameNT-BGHcLV32-1NT-BGHcLV32-1BNT-BGHcLV32-1NT-BGHcLV32-1NT-BGHcLV32-1BNT-BGHcLV32-1NT-BGHcLV32-1BNT-BGHcLV32-1NT-BGHcLV32-1BNT-BGHcLV32-2NT-BGHcLV32-2NT-BGHcLV32-2BNT-BGHcLV32-2NT-BGHcLV32-2BNT-BGHcLV32-2NT-BGHcLV32-2B
    SelectedYesYesYesYesYesYesYesYesYesYesYesYesYesYesYesYes
    StatusReleasedReleasedReleasedReleasedReleasedReleasedReleasedReleasedReleasedReleasedReleasedReleasedReleasedReleasedReleasedReleased
    Status_Date2022-10-282022-10-282022-10-282022-10-282022-10-282022-10-282022-10-282022-10-282022-10-282022-10-282022-10-282022-10-282022-10-282022-10-282022-10-282022-10-28
    ProjectENCODE4ENCODE4ENCODE4ENCODE4ENCODE4ENCODE4ENCODE4ENCODE4ENCODE4ENCODE4ENCODE4ENCODE4ENCODE4ENCODE4ENCODE4ENCODE4
    LV52_biosample_protocolLV52_library_protocolLV52_library_protocolLV52_biosample_protocolLV52_library_protocolLV52_library_protocol
    protocol_URLNT-BGHcLV32-1.pdfL-NT-BGHcLV32-1.pdfL-NT-BGHcLV32-1B.pdfNT-BGHcLV32-2.pdfL-NT-BGHcLV32-2.pdfL-NT-BGHcLV32-2B.pdf
    ID7460746175477639764077497767785978777548764176427750776878607878




    File Information
    file_namefile_pathfile_formatoutput_typeassay_typelabSample IDplatformread_lengthrun_typepaired_endassemblygenome_annotationderived_fromcontrolled_byProjectNoteFILE_ID
    NT-BGHcLV32-1B_S53_L001_R1_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set52/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab2027NovaSeq6000100paired-ended1ENCODE46503
    NT-BGHcLV32-1_S33_L001_R1_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set52/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab2007NovaSeq6000100paired-ended1ENCODE46504
    NT-BGHcLV32-1B_S53_L001_R2_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set52/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab2027NovaSeq6000100paired-ended2ENCODE46557
    NT-BGHcLV32-1_S33_L001_R2_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set52/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab2007NovaSeq6000100paired-ended2ENCODE46558
    NT-BGHcLV32-1_Aligned.sortedByCoord.out.bamENCODE_DATA/set52/STAR_ENCORE2_trimmed_file_linksbamalignmentsknockdown followed by RNA-seqGraveley Lab2007GRCh38V40NT-BGHcLV32-1B_S53_L001_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV32-1B_S53_L001_R2_001.filtered.trimmed.paired.fastq.gzENCORE218424
    NT-BGHcLV32-1B_Aligned.sortedByCoord.out.bamENCODE_DATA/set52/STAR_ENCORE2_trimmed_file_linksbamalignmentsknockdown followed by RNA-seqGraveley Lab2027GRCh38V40NT-BGHcLV32-1_S33_L001_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV32-1_S33_L001_R2_001.filtered.trimmed.paired.fastq.gzENCORE218425
    NT-BGHcLV32-1B_Signal.Unique.strand+.bwENCODE_DATA/set52/STAR_ENCORE2_trimmed_file_linksbigWig+uniqueplus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab2007GRCh38V40NT-BGHcLV32-1/Aligned.sortedByCoord.out.bamENCORE218478
    NT-BGHcLV32-1_Signal.Unique.strand+.bwENCODE_DATA/set52/STAR_ENCORE2_trimmed_file_linksbigWig+uniqueplus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab2027GRCh38V40NT-BGHcLV32-1B/Aligned.sortedByCoord.out.bamENCORE218479
    NT-BGHcLV32-1B_Signal.Unique.strand-.bwENCODE_DATA/set52/STAR_ENCORE2_trimmed_file_linksbigWig-uniqueminus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab2007GRCh38V40NT-BGHcLV32-1/Aligned.sortedByCoord.out.bamENCORE218532
    NT-BGHcLV32-1_Signal.Unique.strand-.bwENCODE_DATA/set52/STAR_ENCORE2_trimmed_file_linksbigWig-uniqueminus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab2027GRCh38V40NT-BGHcLV32-1B/Aligned.sortedByCoord.out.bamENCORE218533
    NT-BGHcLV32-1B_Signal.UniqueMultiple.strand+.bwENCODE_DATA/set52/STAR_ENCORE2_trimmed_file_linksbigWig+allplus strand signal of all readsknockdown followed by RNA-seqGraveley Lab2007GRCh38V40NT-BGHcLV32-1/Aligned.sortedByCoord.out.bamENCORE218586
    NT-BGHcLV32-1_Signal.UniqueMultiple.strand+.bwENCODE_DATA/set52/STAR_ENCORE2_trimmed_file_linksbigWig+allplus strand signal of all readsknockdown followed by RNA-seqGraveley Lab2027GRCh38V40NT-BGHcLV32-1B/Aligned.sortedByCoord.out.bamENCORE218587
    NT-BGHcLV32-1B_Signal.UniqueMultiple.strand-.bwENCODE_DATA/set52/STAR_ENCORE2_trimmed_file_linksbigWig-allminus strand signal of all readsknockdown followed by RNA-seqGraveley Lab2007GRCh38V40NT-BGHcLV32-1/Aligned.sortedByCoord.out.bamENCORE218640
    NT-BGHcLV32-1_Signal.UniqueMultiple.strand-.bwENCODE_DATA/set52/STAR_ENCORE2_trimmed_file_linksbigWig-allminus strand signal of all readsknockdown followed by RNA-seqGraveley Lab2027GRCh38V40NT-BGHcLV32-1B/Aligned.sortedByCoord.out.bamENCORE218641
    NT-BGHcLV32-1B_quant.sfENCODE_DATA/set52/salmon_ENCORE2transcript_quantificationtranscript quantificationsknockdown followed by RNA-seqGraveley Lab2007GRCh38V40NT-BGHcLV32-1B_S53_L001_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV32-1B_S53_L001_R2_001.filtered.trimmed.paired.fastq.gzENCORE218694
    NT-BGHcLV32-1_quant.sfENCODE_DATA/set52/salmon_ENCORE2transcript_quantificationtranscript quantificationsknockdown followed by RNA-seqGraveley Lab2027GRCh38V40NT-BGHcLV32-1_S33_L001_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV32-1_S33_L001_R2_001.filtered.trimmed.paired.fastq.gzENCORE218695
    NT-BGHcLV32-2B_S54_L001_R1_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set52/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab2028NovaSeq6000100paired-ended1ENCODE46505
    NT-BGHcLV32-2_S34_L001_R1_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set52/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab2008NovaSeq6000100paired-ended1ENCODE46506
    NT-BGHcLV32-2B_S54_L001_R2_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set52/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab2028NovaSeq6000100paired-ended2ENCODE46559
    NT-BGHcLV32-2_S34_L001_R2_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set52/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab2008NovaSeq6000100paired-ended2ENCODE46560
    NT-BGHcLV32-2_Aligned.sortedByCoord.out.bamENCODE_DATA/set52/STAR_ENCORE2_trimmed_file_linksbamalignmentsknockdown followed by RNA-seqGraveley Lab2008GRCh38V40NT-BGHcLV32-2B_S54_L001_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV32-2B_S54_L001_R2_001.filtered.trimmed.paired.fastq.gzENCORE218426
    NT-BGHcLV32-2B_Aligned.sortedByCoord.out.bamENCODE_DATA/set52/STAR_ENCORE2_trimmed_file_linksbamalignmentsknockdown followed by RNA-seqGraveley Lab2028GRCh38V40NT-BGHcLV32-2_S34_L001_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV32-2_S34_L001_R2_001.filtered.trimmed.paired.fastq.gzENCORE218427
    NT-BGHcLV32-2B_Signal.Unique.strand+.bwENCODE_DATA/set52/STAR_ENCORE2_trimmed_file_linksbigWig+uniqueplus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab2008GRCh38V40NT-BGHcLV32-2/Aligned.sortedByCoord.out.bamENCORE218480
    NT-BGHcLV32-2_Signal.Unique.strand+.bwENCODE_DATA/set52/STAR_ENCORE2_trimmed_file_linksbigWig+uniqueplus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab2028GRCh38V40NT-BGHcLV32-2B/Aligned.sortedByCoord.out.bamENCORE218481
    NT-BGHcLV32-2B_Signal.Unique.strand-.bwENCODE_DATA/set52/STAR_ENCORE2_trimmed_file_linksbigWig-uniqueminus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab2008GRCh38V40NT-BGHcLV32-2/Aligned.sortedByCoord.out.bamENCORE218534
    NT-BGHcLV32-2_Signal.Unique.strand-.bwENCODE_DATA/set52/STAR_ENCORE2_trimmed_file_linksbigWig-uniqueminus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab2028GRCh38V40NT-BGHcLV32-2B/Aligned.sortedByCoord.out.bamENCORE218535
    NT-BGHcLV32-2B_Signal.UniqueMultiple.strand+.bwENCODE_DATA/set52/STAR_ENCORE2_trimmed_file_linksbigWig+allplus strand signal of all readsknockdown followed by RNA-seqGraveley Lab2008GRCh38V40NT-BGHcLV32-2/Aligned.sortedByCoord.out.bamENCORE218588
    NT-BGHcLV32-2_Signal.UniqueMultiple.strand+.bwENCODE_DATA/set52/STAR_ENCORE2_trimmed_file_linksbigWig+allplus strand signal of all readsknockdown followed by RNA-seqGraveley Lab2028GRCh38V40NT-BGHcLV32-2B/Aligned.sortedByCoord.out.bamENCORE218589
    NT-BGHcLV32-2B_Signal.UniqueMultiple.strand-.bwENCODE_DATA/set52/STAR_ENCORE2_trimmed_file_linksbigWig-allminus strand signal of all readsknockdown followed by RNA-seqGraveley Lab2008GRCh38V40NT-BGHcLV32-2/Aligned.sortedByCoord.out.bamENCORE218642
    NT-BGHcLV32-2_Signal.UniqueMultiple.strand-.bwENCODE_DATA/set52/STAR_ENCORE2_trimmed_file_linksbigWig-allminus strand signal of all readsknockdown followed by RNA-seqGraveley Lab2028GRCh38V40NT-BGHcLV32-2B/Aligned.sortedByCoord.out.bamENCORE218643
    NT-BGHcLV32-2B_quant.sfENCODE_DATA/set52/salmon_ENCORE2transcript_quantificationtranscript quantificationsknockdown followed by RNA-seqGraveley Lab2008GRCh38V40NT-BGHcLV32-2B_S54_L001_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV32-2B_S54_L001_R2_001.filtered.trimmed.paired.fastq.gzENCORE218696
    NT-BGHcLV32-2_quant.sfENCODE_DATA/set52/salmon_ENCORE2transcript_quantificationtranscript quantificationsknockdown followed by RNA-seqGraveley Lab2028GRCh38V40NT-BGHcLV32-2_S34_L001_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV32-2_S34_L001_R2_001.filtered.trimmed.paired.fastq.gzENCORE218697