non-target      CRISPR in HepG2      Control: NT-BGHcLV25

General Information

List KD experiments controlled by BGHcLV25-1 and BGHcLV25-2


NT-BGHcLV25-1,NT-BGHcLV25-2:
  • ACO2-BGHcLV25-HepG2
  • ACTN4-BGHcLV25-HepG2
  • ADAT1-BGHcLV25-HepG2
  • ADD3-BGHcLV25-HepG2
  • ADK-BGHcLV25-HepG2
  • AGFG1-BGHcLV25-HepG2
  • AHCYL2-BGHcLV25-HepG2
  • BARD1-BGHcLV25-HepG2
  • PSMA1-BGHcLV25-HepG2




    • Experiment Information (Status: Released)
    BGHcLV25-1BGHcLV25-2
    idx708709
    TRCN#_or_BGC#BGC#0000000BGC#0000000
    shRNA_or_gRNA_sequenceCAGTCGGGCGTCATCATGATCAGTCGGGCGTCATCATGAT
    PAM
    Namenon-targetnon-target
    Sample_IDBGHcLV25-1BGHcLV25-2
    transduction_Date2/18/212/18/21
    daysD6D6
    RBP_namenon-targetnon-target
    qPCR_result
    Ave_qPCR
    RT-qPCR_primer-F
    RT-qPCR_primer-R
    protein_conc03561
    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
    ID68636864




    Western Blot
    Western Blot info was not avaliable




    Experiment Status
    BGHcLV25-1BGHcLV25-2
    Sample_IDBGHcLV25-1BGHcLV25-2
    Sample Name
    Sample NameNT-BGHcLV25-1NT-BGHcLV25-2
    RBPnon-targetnon-target
    Cell_LineHepG2HepG2
    Exp UID
    StatusReleasedReleased
    Status_date2021-11-042021-11-04
    ProjectENCODE4ENCODE4
    Note
    ID78277828




    Library-Prep Information
    BGHcLV25-1BGHcLV25-2
    Sample #2526
    Sample NameNT-BGHcLV25-1NT-BGHcLV25-2
    Sample_Name_Alias
    Index Well PositionA10B10
    Index_tableIDT_UniqueDualIndex_96IDT_UniqueDualIndex_96
    LibPrep_date2021-06-042021-06-04
    Lib_IDLib-210604Lib-210604
    Tecan_Location
    Tecan
    Tecan_date
    Size_bp313303
    Peak_Molarity85.3059.70
    libSampleQC_DNA_WellDNA_Library_set47/set1/A7.pngDNA_Library_set47/set1/B7.png
    RIN9.89.8
    libSample_RNA_WellRNA_Library_set47/set1/A4.pngRNA_Library_set47/set1/B4.png
    SampleQC_methodTapeStationTapeStation
    SampleQC_date2021-06-222021-06-22
    Sample_IDBGHcLV25-1BGHcLV25-2
    RBPNTNT
    Batch_IDBGHcLV25BGHcLV25
    WB_result0.0000.000
    Library DescriptionTruSeq mRNATruSeq mRNA
    Repeat_Library_Suffix
    Lib_StatusSendToSequenceSendToSequence
    ProjectENCODE4ENCODE4
    ID14881489




    Sequencing Information
    BGHcLV25-1BGHcLV25-2
    Sample_IDBGHcLV25-1BGHcLV25-2
    Sample NameNT-BGHcLV25-1NT-BGHcLV25-2
    Pool IDPool-210622Pool-210622
    LocalServer_folderset47set47
    total_reads92,714,570145,940,332
    total_aligned_reads84,596,058134,523,568
    unique_aligned_reads79,915,784126,800,192
    percent_uniqueAligned0.861950.86885
    correlation_replicates0.9955050.995505
    spikein_reads54,99427,952
    percent_spikeins0.000590.00019
    original_ReadLength101101
    QC_StatusSubmittedSubmitted
    ID570571




    Data Submission Information
    BGHcLV25-1BGHcLV25-1BGHcLV25-1BGHcLV25-1BGHcLV25-1BGHcLV25-2BGHcLV25-2BGHcLV25-2BGHcLV25-2
    ENCODE_aliasbrenton-graveley:NT-BGHcLV25brenton-graveley:NT-BGHcLV25-1brenton-graveley:L-NT-BGHcLV25-1brenton-graveley:NT-BGHcLV25-1_S85_L002_R1_001.filtered.trimmed.paired.fastq.gzbrenton-graveley:NT-BGHcLV25-1_S85_L002_R2_001.filtered.trimmed.paired.fastq.gzbrenton-graveley:NT-BGHcLV25-2brenton-graveley:L-NT-BGHcLV25-2brenton-graveley:NT-BGHcLV25-2_S86_L002_R1_001.filtered.trimmed.paired.fastq.gzbrenton-graveley:NT-BGHcLV25-2_S86_L002_R2_001.filtered.trimmed.paired.fastq.gz
    ENCODE_accessionENCSR953VMBENCBS916PZFENCLB070USOENCFF390ATDENCFF819QVBENCBS968PYPENCLB726SJTENCFF923ZRVENCFF711KCZ
    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_IDBGHcLV25-1BGHcLV25-1BGHcLV25-1BGHcLV25-1BGHcLV25-1BGHcLV25-2BGHcLV25-2BGHcLV25-2BGHcLV25-2
    Sample NameNT-BGHcLV25-1NT-BGHcLV25-1NT-BGHcLV25-1NT-BGHcLV25-1NT-BGHcLV25-1NT-BGHcLV25-2NT-BGHcLV25-2NT-BGHcLV25-2NT-BGHcLV25-2
    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-BGHcLV25-1.pdfL-NT-BGHcLV25-1.pdfNT-BGHcLV25-2.pdfL-NT-BGHcLV25-2.pdf
    ID324732813325336934133282332633703414




    File Information
    file_namefile_pathfile_formatoutput_typeassay_typelabSample IDplatformread_lengthrun_typepaired_endassemblygenome_annotationderived_fromcontrolled_byProjectNoteFILE_ID
    NT-BGHcLV25-1_S85_L002_R1_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set47/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab570NovaSeq6000100paired-ended1ENCODE43728
    NT-BGHcLV25-1_S85_L002_R2_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set47/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab570NovaSeq6000100paired-ended2ENCODE43774
    NT-BGHcLV25-1_Aligned.sortedByCoord.out.bamENCODE_DATA/set47/STAR_ENCORE2_trimmed_file_linksbamalignmentsknockdown followed by RNA-seqGraveley Lab570GRCh38V40NT-BGHcLV25-1_S85_L002_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV25-1_S85_L002_R2_001.filtered.trimmed.paired.fastq.gzENCORE225417
    NT-BGHcLV25-1_quant.sfENCODE_DATA/set47/salmon_ENCORE2transcript_quantificationtranscript quantificationsknockdown followed by RNA-seqGraveley Lab570GRCh38V40NT-BGHcLV25-1_S85_L002_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV25-1_S85_L002_R2_001.filtered.trimmed.paired.fastq.gzENCORE225461
    NT-BGHcLV25-1_Signal.Unique.strand+.bwENCODE_DATA/set47/STAR_ENCORE2_trimmed_file_linksbigWig+uniqueplus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab570GRCh38V40NT-BGHcLV25-1/Aligned.sortedByCoord.out.bamENCORE226293
    NT-BGHcLV25-1_Signal.Unique.strand-.bwENCODE_DATA/set47/STAR_ENCORE2_trimmed_file_linksbigWig-uniqueminus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab570GRCh38V40NT-BGHcLV25-1/Aligned.sortedByCoord.out.bamENCORE226337
    NT-BGHcLV25-1_Signal.UniqueMultiple.strand+.bwENCODE_DATA/set47/STAR_ENCORE2_trimmed_file_linksbigWig+allplus strand signal of all readsknockdown followed by RNA-seqGraveley Lab570GRCh38V40NT-BGHcLV25-1/Aligned.sortedByCoord.out.bamENCORE226381
    NT-BGHcLV25-1_Signal.UniqueMultiple.strand-.bwENCODE_DATA/set47/STAR_ENCORE2_trimmed_file_linksbigWig-allminus strand signal of all readsknockdown followed by RNA-seqGraveley Lab570GRCh38V40NT-BGHcLV25-1/Aligned.sortedByCoord.out.bamENCORE226425
    NT-BGHcLV25-2_S86_L002_R1_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set47/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab571NovaSeq6000100paired-ended1ENCODE43729
    NT-BGHcLV25-2_S86_L002_R2_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set47/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab571NovaSeq6000100paired-ended2ENCODE43775
    NT-BGHcLV25-2_Aligned.sortedByCoord.out.bamENCODE_DATA/set47/STAR_ENCORE2_trimmed_file_linksbamalignmentsknockdown followed by RNA-seqGraveley Lab571GRCh38V40NT-BGHcLV25-2_S86_L002_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV25-2_S86_L002_R2_001.filtered.trimmed.paired.fastq.gzENCORE225418
    NT-BGHcLV25-2_quant.sfENCODE_DATA/set47/salmon_ENCORE2transcript_quantificationtranscript quantificationsknockdown followed by RNA-seqGraveley Lab571GRCh38V40NT-BGHcLV25-2_S86_L002_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV25-2_S86_L002_R2_001.filtered.trimmed.paired.fastq.gzENCORE225462
    NT-BGHcLV25-2_Signal.Unique.strand+.bwENCODE_DATA/set47/STAR_ENCORE2_trimmed_file_linksbigWig+uniqueplus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab571GRCh38V40NT-BGHcLV25-2/Aligned.sortedByCoord.out.bamENCORE226294
    NT-BGHcLV25-2_Signal.Unique.strand-.bwENCODE_DATA/set47/STAR_ENCORE2_trimmed_file_linksbigWig-uniqueminus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab571GRCh38V40NT-BGHcLV25-2/Aligned.sortedByCoord.out.bamENCORE226338
    NT-BGHcLV25-2_Signal.UniqueMultiple.strand+.bwENCODE_DATA/set47/STAR_ENCORE2_trimmed_file_linksbigWig+allplus strand signal of all readsknockdown followed by RNA-seqGraveley Lab571GRCh38V40NT-BGHcLV25-2/Aligned.sortedByCoord.out.bamENCORE226382
    NT-BGHcLV25-2_Signal.UniqueMultiple.strand-.bwENCODE_DATA/set47/STAR_ENCORE2_trimmed_file_linksbigWig-allminus strand signal of all readsknockdown followed by RNA-seqGraveley Lab571GRCh38V40NT-BGHcLV25-2/Aligned.sortedByCoord.out.bamENCORE226426