non-target      CRISPR in HepG2      Control: NT-BGHcLV31

General Information

List KD experiments controlled by BGHcLV31-1 and BGHcLV31-2


NT-BGHcLV31-1,NT-BGHcLV31-2:
  • SKIV2L2-BGHcLV31-HepG2
  • RPS8-BGHcLV31-HepG2
  • RPUSD2-BGHcLV31-HepG2
  • RTCB-BGHcLV31-HepG2
  • RUVBL1-BGHcLV31-HepG2
  • RUVBL2-BGHcLV31-HepG2
  • SAMHD1-BGHcLV31-HepG2
  • SAP30BP-BGHcLV31-HepG2
  • SARNP-BGHcLV31-HepG2
  • SCAF8-BGHcLV31-HepG2
  • SEC23IP-BGHcLV31-HepG2
  • SEC62-BGHcLV31-HepG2
  • SEC63-BGHcLV31-HepG2
  • SEPT11-BGHcLV31-HepG2
  • SPAG9-BGHcLV31-HepG2




    • Experiment Information (Status: Released)
    BGHcLV31-1BGHcLV31-2
    idx917918
    TRCN#_or_BGC#BGC#0000000BGC#0000000
    shRNA_or_gRNA_sequenceCAGTCGGGCGTCATCATGATCAGTCGGGCGTCATCATGAT
    PAM
    Namenon-targetnon-target
    Sample_IDBGHcLV31-1BGHcLV31-2
    transduction_Date9/23/219/23/21
    daysD6D6
    RBP_namenon-targetnon-target
    qPCR_result
    Ave_qPCR
    RT-qPCR_primer-F
    RT-qPCR_primer-R
    protein_conc03505
    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_date12/16/2112/16/21
    repeat_library
    Note
    ID70967097




    Western Blot
    Western Blot info was not avaliable




    Experiment Status
    BGHcLV31-1BGHcLV31-2
    Sample_IDBGHcLV31-1BGHcLV31-2
    Sample Name
    Sample NameNT-BGHcLV31-1NT-BGHcLV31-2
    RBPnon-targetnon-target
    Cell_LineHepG2HepG2
    Exp UID
    StatusReleasedReleased
    Status_date2022-10-282022-10-28
    ProjectENCODE4ENCODE4
    Note
    ID1028710288




    Library-Prep Information
    BGHcLV31-1BGHcLV31-2
    Sample #12
    Sample NameNT-BGHcLV31-1NT-BGHcLV31-2
    Sample_Name_Alias
    Index Well PositionA01B01
    Index_tableIDT_UniqueDualIndex_96IDT_UniqueDualIndex_96
    LibPrep_date2021-12-162021-12-16
    Lib_IDLib-211216Lib-211216
    Tecan_Location
    Tecan
    Tecan_date
    Size_bp288283
    Peak_Molarity57.8074.40
    libSampleQC_DNA_WellDNA_Library_set52/set1/A8.pngDNA_Library_set52/set1/B8.png
    RIN9.59.6
    libSample_RNA_WellRNA_Library_set52/set1/A1.pngRNA_Library_set52/set1/B1.png
    SampleQC_methodTapeStationTapeStation
    SampleQC_date2022-01-042022-01-04
    Sample_IDBGHcLV31-1BGHcLV31-2
    RBPNTNT
    Batch_IDBGHcLV31BGHcLV31
    WB_result0.0000.000
    Library DescriptionTruSeq mRNATruSeq mRNA
    Repeat_Library_Suffix
    Lib_StatusSendToSequenceSendToSequence
    ProjectENCODE4ENCODE4
    ID31783179




    Sequencing Information
    BGHcLV31-1BGHcLV31-2
    Sample_IDBGHcLV31-1BGHcLV31-2
    Sample NameNT-BGHcLV31-1NT-BGHcLV31-2
    Pool IDPool-220331Pool-220331
    LocalServer_folderset52set52
    total_reads161,976,48264,057,964
    total_aligned_reads137,807,32454,213,528
    unique_aligned_reads129,627,92051,029,964
    percent_uniqueAligned0.800290.79662
    correlation_replicates0.9995430.999543
    spikein_reads30,1766,146
    percent_spikeins0.000190.00010
    original_ReadLength101101
    QC_StatusSubmittedSubmitted
    ID19751976




    Data Submission Information
    BGHcLV31-1BGHcLV31-1BGHcLV31-1BGHcLV31-1BGHcLV31-1BGHcLV31-2BGHcLV31-2BGHcLV31-2BGHcLV31-2
    ENCODE_aliasbrenton-graveley:NT-BGHcLV31brenton-graveley:NT-BGHcLV31-1brenton-graveley:L-NT-BGHcLV31-1brenton-graveley:NT-BGHcLV31-1_S1_L001_R1_001.filtered.trimmed.paired.fastq.gzbrenton-graveley:NT-BGHcLV31-1_S1_L001_R2_001.filtered.trimmed.paired.fastq.gzbrenton-graveley:NT-BGHcLV31-2brenton-graveley:L-NT-BGHcLV31-2brenton-graveley:NT-BGHcLV31-2_S2_L001_R1_001.filtered.trimmed.paired.fastq.gzbrenton-graveley:NT-BGHcLV31-2_S2_L001_R2_001.filtered.trimmed.paired.fastq.gz
    ENCODE_accessionENCSR452TFVENCBS426VMTENCLB518ERQENCFF802OSJENCFF566QBOENCBS143SBNENCLB439RFXENCFF330LGVENCFF232USH
    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_IDBGHcLV31-1BGHcLV31-1BGHcLV31-1BGHcLV31-1BGHcLV31-1BGHcLV31-2BGHcLV31-2BGHcLV31-2BGHcLV31-2
    Sample NameNT-BGHcLV31-1NT-BGHcLV31-1NT-BGHcLV31-1NT-BGHcLV31-1NT-BGHcLV31-1NT-BGHcLV31-2NT-BGHcLV31-2NT-BGHcLV31-2NT-BGHcLV31-2
    SelectedYesYesYesYesYesYesYesYesYes
    StatusReleasedReleasedReleasedReleasedReleasedReleasedReleasedReleasedReleased
    Status_Date2022-10-282022-10-282022-10-282022-10-282022-10-282022-10-282022-10-282022-10-282022-10-28
    ProjectENCODE4ENCODE4ENCODE4ENCODE4ENCODE4ENCODE4ENCODE4ENCODE4ENCODE4
    LV52_biosample_protocolLV52_library_protocolLV52_biosample_protocolLV52_library_protocol
    protocol_URLNT-BGHcLV31-1.pdfL-NT-BGHcLV31-1.pdfNT-BGHcLV31-2.pdfL-NT-BGHcLV31-2.pdf
    ID744474997607771778277500760877187828




    File Information
    file_namefile_pathfile_formatoutput_typeassay_typelabSample IDplatformread_lengthrun_typepaired_endassemblygenome_annotationderived_fromcontrolled_byProjectNoteFILE_ID
    NT-BGHcLV31-1_S1_L001_R1_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set52/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab1975NovaSeq6000100paired-ended1ENCODE46501
    NT-BGHcLV31-1_S1_L001_R2_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set52/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab1975NovaSeq6000100paired-ended2ENCODE46555
    NT-BGHcLV31-1_Aligned.sortedByCoord.out.bamENCODE_DATA/set52/STAR_ENCORE2_trimmed_file_linksbamalignmentsknockdown followed by RNA-seqGraveley Lab1975GRCh38V40NT-BGHcLV31-1_S1_L001_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV31-1_S1_L001_R2_001.filtered.trimmed.paired.fastq.gzENCORE218422
    NT-BGHcLV31-1_Signal.Unique.strand+.bwENCODE_DATA/set52/STAR_ENCORE2_trimmed_file_linksbigWig+uniqueplus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab1975GRCh38V40NT-BGHcLV31-1/Aligned.sortedByCoord.out.bamENCORE218476
    NT-BGHcLV31-1_Signal.Unique.strand-.bwENCODE_DATA/set52/STAR_ENCORE2_trimmed_file_linksbigWig-uniqueminus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab1975GRCh38V40NT-BGHcLV31-1/Aligned.sortedByCoord.out.bamENCORE218530
    NT-BGHcLV31-1_Signal.UniqueMultiple.strand+.bwENCODE_DATA/set52/STAR_ENCORE2_trimmed_file_linksbigWig+allplus strand signal of all readsknockdown followed by RNA-seqGraveley Lab1975GRCh38V40NT-BGHcLV31-1/Aligned.sortedByCoord.out.bamENCORE218584
    NT-BGHcLV31-1_Signal.UniqueMultiple.strand-.bwENCODE_DATA/set52/STAR_ENCORE2_trimmed_file_linksbigWig-allminus strand signal of all readsknockdown followed by RNA-seqGraveley Lab1975GRCh38V40NT-BGHcLV31-1/Aligned.sortedByCoord.out.bamENCORE218638
    NT-BGHcLV31-1_quant.sfENCODE_DATA/set52/salmon_ENCORE2transcript_quantificationtranscript quantificationsknockdown followed by RNA-seqGraveley Lab1975GRCh38V40NT-BGHcLV31-1_S1_L001_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV31-1_S1_L001_R2_001.filtered.trimmed.paired.fastq.gzENCORE218692
    NT-BGHcLV31-2_S2_L001_R1_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set52/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab1976NovaSeq6000100paired-ended1ENCODE46502
    NT-BGHcLV31-2_S2_L001_R2_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set52/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab1976NovaSeq6000100paired-ended2ENCODE46556
    NT-BGHcLV31-2_Aligned.sortedByCoord.out.bamENCODE_DATA/set52/STAR_ENCORE2_trimmed_file_linksbamalignmentsknockdown followed by RNA-seqGraveley Lab1976GRCh38V40NT-BGHcLV31-2_S2_L001_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV31-2_S2_L001_R2_001.filtered.trimmed.paired.fastq.gzENCORE218423
    NT-BGHcLV31-2_Signal.Unique.strand+.bwENCODE_DATA/set52/STAR_ENCORE2_trimmed_file_linksbigWig+uniqueplus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab1976GRCh38V40NT-BGHcLV31-2/Aligned.sortedByCoord.out.bamENCORE218477
    NT-BGHcLV31-2_Signal.Unique.strand-.bwENCODE_DATA/set52/STAR_ENCORE2_trimmed_file_linksbigWig-uniqueminus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab1976GRCh38V40NT-BGHcLV31-2/Aligned.sortedByCoord.out.bamENCORE218531
    NT-BGHcLV31-2_Signal.UniqueMultiple.strand+.bwENCODE_DATA/set52/STAR_ENCORE2_trimmed_file_linksbigWig+allplus strand signal of all readsknockdown followed by RNA-seqGraveley Lab1976GRCh38V40NT-BGHcLV31-2/Aligned.sortedByCoord.out.bamENCORE218585
    NT-BGHcLV31-2_Signal.UniqueMultiple.strand-.bwENCODE_DATA/set52/STAR_ENCORE2_trimmed_file_linksbigWig-allminus strand signal of all readsknockdown followed by RNA-seqGraveley Lab1976GRCh38V40NT-BGHcLV31-2/Aligned.sortedByCoord.out.bamENCORE218639
    NT-BGHcLV31-2_quant.sfENCODE_DATA/set52/salmon_ENCORE2transcript_quantificationtranscript quantificationsknockdown followed by RNA-seqGraveley Lab1976GRCh38V40NT-BGHcLV31-2_S2_L001_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV31-2_S2_L001_R2_001.filtered.trimmed.paired.fastq.gzENCORE218693