non-target      CRISPR in HepG2      Control: NT-BGHcLV24

General Information

List KD experiments controlled by BGHcLV24-1 and BGHcLV24-2


NT-BGHcLV24-1,NT-BGHcLV24-2:
  • ADAT3-BGHcLV24-HepG2
  • ALKBH1-BGHcLV24-HepG2
  • APTX-BGHcLV24-HepG2
  • BRIX1-BGHcLV24-HepG2
  • CNOT2-BGHcLV24-HepG2
  • CPSF4-BGHcLV24-HepG2
  • EIF6-BGHcLV24-HepG2
  • ELAC2-BGHcLV24-HepG2
  • LARS-BGHcLV24-HepG2
  • METTL1-BGHcLV24-HepG2
  • SF3A2-BGHcLV24-HepG2




    • Experiment Information (Status: Released)
    BGHcLV24-1BGHcLV24-2
    idx659660
    TRCN#_or_BGC#BGC#0000000BGC#0000000
    shRNA_or_gRNA_sequenceCAGTCGGGCGTCATCATGATCAGTCGGGCGTCATCATGAT
    PAM
    Namenon-targetnon-target
    Sample_IDBGHcLV24-1BGHcLV24-2
    transduction_Date10/30/2010/30/20
    daysD6D6
    RBP_namenon-targetnon-target
    qPCR_result
    Ave_qPCR
    RT-qPCR_primer-F
    RT-qPCR_primer-R
    protein_conc04023
    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_date06/16/2106/16/21
    repeat_library
    Note
    ID68146815




    Western Blot
    Western Blot info was not avaliable




    Experiment Status
    BGHcLV24-1BGHcLV24-2
    Sample_IDBGHcLV24-1BGHcLV24-2
    Sample Name
    Sample NameNT-BGHcLV24-1NT-BGHcLV24-2
    RBPnon-targetnon-target
    Cell_LineHepG2HepG2
    Exp UID
    StatusReleasedReleased
    Status_date2021-11-042021-11-04
    ProjectENCODE4ENCODE4
    Note
    ID77797780




    Library-Prep Information
    BGHcLV24-1BGHcLV24-2
    Sample #12
    Sample NameNT-BGHcLV24-1NT-BGHcLV24-2
    Sample_Name_Alias
    Index Well PositionA07B07
    Index_tableIDT_UniqueDualIndex_96IDT_UniqueDualIndex_96
    LibPrep_date2021-06-042021-06-04
    Lib_IDLib-210604Lib-210604
    Tecan_Location
    Tecan
    Tecan_date
    Size_bp299309
    Peak_Molarity110.0073.20
    libSampleQC_DNA_WellDNA_Library_set47/set1/A4.pngDNA_Library_set47/set1/B4.png
    RIN9.39.7
    libSample_RNA_WellRNA_Library_set47/set1/A1.pngRNA_Library_set47/set1/B1.png
    SampleQC_methodTapeStationTapeStation
    SampleQC_date2021-06-222021-06-22
    Sample_IDBGHcLV24-1BGHcLV24-2
    RBPNTNT
    Batch_IDBGHcLV24BGHcLV24
    WB_result0.0000.000
    Library DescriptionTruSeq mRNATruSeq mRNA
    Repeat_Library_Suffix
    Lib_StatusSendToSequenceSendToSequence
    ProjectENCODE4ENCODE4
    ID14641465




    Sequencing Information
    BGHcLV24-1BGHcLV24-2
    Sample_IDBGHcLV24-1BGHcLV24-2
    Sample NameNT-BGHcLV24-1NT-BGHcLV24-2
    Pool IDPool-210622Pool-210622
    LocalServer_folderset47set47
    total_reads144,416,514140,822,246
    total_aligned_reads128,436,102128,837,416
    unique_aligned_reads120,943,336121,359,666
    percent_uniqueAligned0.837460.86179
    correlation_replicates0.9911780.991178
    spikein_reads82,93484,254
    percent_spikeins0.000570.00060
    original_ReadLength101101
    QC_StatusSubmittedSubmitted
    ID546547




    Data Submission Information
    BGHcLV24-1BGHcLV24-1BGHcLV24-1BGHcLV24-1BGHcLV24-1BGHcLV24-2BGHcLV24-2BGHcLV24-2BGHcLV24-2
    ENCODE_aliasbrenton-graveley:NT-BGHcLV24brenton-graveley:NT-BGHcLV24-1brenton-graveley:L-NT-BGHcLV24-1brenton-graveley:NT-BGHcLV24-1_S61_L002_R1_001.filtered.trimmed.paired.fastq.gzbrenton-graveley:NT-BGHcLV24-1_S61_L002_R2_001.filtered.trimmed.paired.fastq.gzbrenton-graveley:NT-BGHcLV24-2brenton-graveley:L-NT-BGHcLV24-2brenton-graveley:NT-BGHcLV24-2_S62_L002_R1_001.filtered.trimmed.paired.fastq.gzbrenton-graveley:NT-BGHcLV24-2_S62_L002_R2_001.filtered.trimmed.paired.fastq.gz
    ENCODE_accessionENCSR671FDZENCBS044WRFENCLB584JCEENCFF345XFSENCFF307VBUENCBS835XBGENCLB543YEFENCFF287OZAENCFF580SJG
    object_typeexperimentbiosamplelibraryfile_fastq1file_fastq2biosamplelibraryfile_fastq1file_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-seq
    Sample_IDBGHcLV24-1BGHcLV24-1BGHcLV24-1BGHcLV24-1BGHcLV24-1BGHcLV24-2BGHcLV24-2BGHcLV24-2BGHcLV24-2
    Sample NameNT-BGHcLV24-1NT-BGHcLV24-1NT-BGHcLV24-1NT-BGHcLV24-1NT-BGHcLV24-1NT-BGHcLV24-2NT-BGHcLV24-2NT-BGHcLV24-2NT-BGHcLV24-2
    SelectedYesYesYesYesYesYesYesYesYes
    StatusReleasedReleasedReleasedReleasedReleasedReleasedReleasedReleasedReleased
    Status_Date2021-11-042021-11-042021-11-042021-11-042021-11-042021-11-042021-11-042021-11-042021-11-04
    ProjectENCODE4ENCODE4ENCODE4ENCODE4ENCODE4ENCODE4ENCODE4ENCODE4ENCODE4
    LV47_biosample_protocolLV47_library_protocolLV47_biosample_protocolLV47_library_protocol
    protocol_URLNT-BGHcLV24-1.pdfL-NT-BGHcLV24-1.pdfNT-BGHcLV24-2.pdfL-NT-BGHcLV24-2.pdf
    ID323532573301334533893258330233463390




    File Information
    file_namefile_pathfile_formatoutput_typeassay_typelabSample IDplatformread_lengthrun_typepaired_endassemblygenome_annotationderived_fromcontrolled_byProjectNoteFILE_ID
    NT-BGHcLV24-1_S61_L002_R1_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set47/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab546NovaSeq6000100paired-ended1ENCODE43726
    NT-BGHcLV24-1_S61_L002_R2_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set47/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab546NovaSeq6000100paired-ended2ENCODE43772
    NT-BGHcLV24-1_Aligned.sortedByCoord.out.bamENCODE_DATA/set47/STAR_ENCORE2_trimmed_file_linksbamalignmentsknockdown followed by RNA-seqGraveley Lab546GRCh38V40NT-BGHcLV24-1_S61_L002_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV24-1_S61_L002_R2_001.filtered.trimmed.paired.fastq.gzENCORE225415
    NT-BGHcLV24-1_quant.sfENCODE_DATA/set47/salmon_ENCORE2transcript_quantificationtranscript quantificationsknockdown followed by RNA-seqGraveley Lab546GRCh38V40NT-BGHcLV24-1_S61_L002_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV24-1_S61_L002_R2_001.filtered.trimmed.paired.fastq.gzENCORE225459
    NT-BGHcLV24-1_Signal.Unique.strand+.bwENCODE_DATA/set47/STAR_ENCORE2_trimmed_file_linksbigWig+uniqueplus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab546GRCh38V40NT-BGHcLV24-1/Aligned.sortedByCoord.out.bamENCORE226291
    NT-BGHcLV24-1_Signal.Unique.strand-.bwENCODE_DATA/set47/STAR_ENCORE2_trimmed_file_linksbigWig-uniqueminus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab546GRCh38V40NT-BGHcLV24-1/Aligned.sortedByCoord.out.bamENCORE226335
    NT-BGHcLV24-1_Signal.UniqueMultiple.strand+.bwENCODE_DATA/set47/STAR_ENCORE2_trimmed_file_linksbigWig+allplus strand signal of all readsknockdown followed by RNA-seqGraveley Lab546GRCh38V40NT-BGHcLV24-1/Aligned.sortedByCoord.out.bamENCORE226379
    NT-BGHcLV24-1_Signal.UniqueMultiple.strand-.bwENCODE_DATA/set47/STAR_ENCORE2_trimmed_file_linksbigWig-allminus strand signal of all readsknockdown followed by RNA-seqGraveley Lab546GRCh38V40NT-BGHcLV24-1/Aligned.sortedByCoord.out.bamENCORE226423
    NT-BGHcLV24-2_S62_L002_R1_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set47/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab547NovaSeq6000100paired-ended1ENCODE43727
    NT-BGHcLV24-2_S62_L002_R2_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set47/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab547NovaSeq6000100paired-ended2ENCODE43773
    NT-BGHcLV24-2_Aligned.sortedByCoord.out.bamENCODE_DATA/set47/STAR_ENCORE2_trimmed_file_linksbamalignmentsknockdown followed by RNA-seqGraveley Lab547GRCh38V40NT-BGHcLV24-2_S62_L002_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV24-2_S62_L002_R2_001.filtered.trimmed.paired.fastq.gzENCORE225416
    NT-BGHcLV24-2_quant.sfENCODE_DATA/set47/salmon_ENCORE2transcript_quantificationtranscript quantificationsknockdown followed by RNA-seqGraveley Lab547GRCh38V40NT-BGHcLV24-2_S62_L002_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV24-2_S62_L002_R2_001.filtered.trimmed.paired.fastq.gzENCORE225460
    NT-BGHcLV24-2_Signal.Unique.strand+.bwENCODE_DATA/set47/STAR_ENCORE2_trimmed_file_linksbigWig+uniqueplus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab547GRCh38V40NT-BGHcLV24-2/Aligned.sortedByCoord.out.bamENCORE226292
    NT-BGHcLV24-2_Signal.Unique.strand-.bwENCODE_DATA/set47/STAR_ENCORE2_trimmed_file_linksbigWig-uniqueminus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab547GRCh38V40NT-BGHcLV24-2/Aligned.sortedByCoord.out.bamENCORE226336
    NT-BGHcLV24-2_Signal.UniqueMultiple.strand+.bwENCODE_DATA/set47/STAR_ENCORE2_trimmed_file_linksbigWig+allplus strand signal of all readsknockdown followed by RNA-seqGraveley Lab547GRCh38V40NT-BGHcLV24-2/Aligned.sortedByCoord.out.bamENCORE226380
    NT-BGHcLV24-2_Signal.UniqueMultiple.strand-.bwENCODE_DATA/set47/STAR_ENCORE2_trimmed_file_linksbigWig-allminus strand signal of all readsknockdown followed by RNA-seqGraveley Lab547GRCh38V40NT-BGHcLV24-2/Aligned.sortedByCoord.out.bamENCORE226424