non-target      CRISPR in HepG2      Control: NT-BGHcLV27

General Information

List KD experiments controlled by BGHcLV27-1 and BGHcLV27-2


NT-BGHcLV27-1,NT-BGHcLV27-2:
  • AIMP1-BGHcLV27-HepG2
  • ALDOA-BGHcLV27-HepG2
  • APEH-BGHcLV27-HepG2
  • API5-BGHcLV27-HepG2
  • ARHGEF1-BGHcLV27-HepG2
  • BZW2-BGHcLV27-HepG2
  • C1QBP-BGHcLV27-HepG2
  • CAND1-BGHcLV27-HepG2
  • CARHSP1-BGHcLV27-HepG2
  • CARS-BGHcLV27-HepG2
  • CAT-BGHcLV27-HepG2
  • CCDC47-BGHcLV27-HepG2




    • Experiment Information (Status: Released)
    BGHcLV27-1BGHcLV27-2
    idx767768
    TRCN#_or_BGC#BGC#0000000BGC#0000000
    shRNA_or_gRNA_sequenceCAGTCGGGCGTCATCATGATCAGTCGGGCGTCATCATGAT
    PAM
    Namenon-targetnon-target
    Sample_IDBGHcLV27-1BGHcLV27-2
    transduction_Date5/18/215/18/21
    daysD6D6
    RBP_namenon-targetnon-target
    qPCR_result
    Ave_qPCR
    RT-qPCR_primer-F
    RT-qPCR_primer-R
    protein_conc03645
    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_date09/03/2109/03/21
    repeat_library
    Note
    ID69266927




    Western Blot
    Western Blot info was not avaliable




    Experiment Status
    BGHcLV27-1BGHcLV27-2
    Sample_IDBGHcLV27-1BGHcLV27-2
    Sample Name
    Sample NameNT-BGHcLV27-1NT-BGHcLV27-2
    RBPnon-targetnon-target
    Cell_LineHepG2HepG2
    Exp UID
    StatusReleasedReleased
    Status_date2021-11-192021-11-19
    ProjectENCODE4ENCODE4
    Note
    ID96739674




    Library-Prep Information
    BGHcLV27-1BGHcLV27-2
    Sample #7778
    Sample NameNT-BGHcLV27-1NT-BGHcLV27-2
    Sample_Name_Alias
    Index Well PositionA08B08
    Index_tableIDT_UniqueDualIndex_96IDT_UniqueDualIndex_96
    LibPrep_date2021-09-022021-09-02
    Lib_IDLib-210902Lib-210902
    Tecan_Location
    Tecan
    Tecan_date
    Size_bp283295
    Peak_Molarity129.00148.00
    libSampleQC_DNA_WellDNA_Library_set48-49/set2/A7.pngDNA_Library_set48-49/set2/B7.png
    RIN9.69.7
    libSample_RNA_WellRNA_Library_set48-49/set1/C7.pngRNA_Library_set48-49/set1/D7.png
    SampleQC_methodTapeStationTapeStation
    SampleQC_date2021-09-082021-09-08
    Sample_IDBGHcLV27-1BGHcLV27-2
    RBPNTNT
    Batch_IDBGHcLV27BGHcLV27
    WB_result0.0000.000
    Library DescriptionTruSeq mRNATruSeq mRNA
    Repeat_Library_Suffix
    Lib_StatusSendToSequenceSendToSequence
    ProjectENCODE4ENCODE4
    ID16361637




    Sequencing Information
    BGHcLV27-1BGHcLV27-2
    Sample_IDBGHcLV27-1BGHcLV27-2
    Sample NameNT-BGHcLV27-1NT-BGHcLV27-2
    Pool IDPool-210908Pool-210908
    LocalServer_folderset48_Hset48_H
    total_reads59,117,87265,246,958
    total_aligned_reads50,667,02857,329,614
    unique_aligned_reads47,727,08454,099,628
    percent_uniqueAligned0.807320.82915
    correlation_replicates0.9989930.998993
    spikein_reads19,97014,668
    percent_spikeins0.000340.00022
    original_ReadLength150150
    QC_StatusSubmittedSubmitted
    ID17871788




    Data Submission Information
    BGHcLV27-1BGHcLV27-1BGHcLV27-1BGHcLV27-1BGHcLV27-1BGHcLV27-2BGHcLV27-2BGHcLV27-2BGHcLV27-2
    ENCODE_aliasbrenton-graveley:NT-BGHcLV27brenton-graveley:NT-BGHcLV27-1brenton-graveley:L-NT-BGHcLV27-1brenton-graveley:NT-BGHcLV27-1_S57_L003_R1_001.filtered.trimmed.paired.fastq.gzbrenton-graveley:NT-BGHcLV27-1_S57_L003_R2_001.filtered.trimmed.paired.fastq.gzbrenton-graveley:NT-BGHcLV27-2brenton-graveley:L-NT-BGHcLV27-2brenton-graveley:NT-BGHcLV27-2_S58_L003_R1_001.filtered.trimmed.paired.fastq.gzbrenton-graveley:NT-BGHcLV27-2_S58_L003_R2_001.filtered.trimmed.paired.fastq.gz
    ENCODE_accessionENCSR650TTUENCBS622KXDENCLB426TCIENCFF295JEJENCFF280CRKENCBS462HZRENCLB019FUIENCFF216IFEENCFF742CMY
    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_IDBGHcLV27-1BGHcLV27-1BGHcLV27-1BGHcLV27-1BGHcLV27-1BGHcLV27-2BGHcLV27-2BGHcLV27-2BGHcLV27-2
    Sample NameNT-BGHcLV27-1NT-BGHcLV27-1NT-BGHcLV27-1NT-BGHcLV27-1NT-BGHcLV27-1NT-BGHcLV27-2NT-BGHcLV27-2NT-BGHcLV27-2NT-BGHcLV27-2
    SelectedYesYesYesYesYesYesYesYesYes
    StatusReleasedReleasedReleasedReleasedReleasedReleasedReleasedReleasedReleased
    Status_Date2021-11-192021-11-192021-11-192021-11-192021-11-192021-11-192021-11-192021-11-192021-11-19
    ProjectENCODE4ENCODE4ENCODE4ENCODE4ENCODE4ENCODE4ENCODE4ENCODE4ENCODE4
    LV48H_biosample_protocolLV48H_library_protocolLV48H_biosample_protocolLV48H_library_protocol
    protocol_URLNT-BGHcLV27-1.pdfL-NT-BGHcLV27-1.pdfNT-BGHcLV27-2.pdfL-NT-BGHcLV27-2.pdf
    ID343335003634376839023501363537693903




    File Information
    file_namefile_pathfile_formatoutput_typeassay_typelabSample IDplatformread_lengthrun_typepaired_endassemblygenome_annotationderived_fromcontrolled_byProjectNoteFILE_ID
    NT-BGHcLV27-1_S57_L003_R1_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set48_H/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab1787NovaSeq6000100paired-ended1ENCODE43804
    NT-BGHcLV27-1_S57_L003_R2_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set48_H/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab1787NovaSeq6000100paired-ended2ENCODE43830
    NT-BGHcLV27-1_Aligned.sortedByCoord.out.bamENCODE_DATA/set48_H/STAR_ENCORE2_trimmed_file_linksbamalignmentsknockdown followed by RNA-seqGraveley Lab1787GRCh38V40NT-BGHcLV27-1_S57_L003_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV27-1_S57_L003_R2_001.filtered.trimmed.paired.fastq.gzENCORE225491
    NT-BGHcLV27-1_quant.sfENCODE_DATA/set48_H/salmon_ENCORE2transcript_quantificationtranscript quantificationsknockdown followed by RNA-seqGraveley Lab1787GRCh38V40NT-BGHcLV27-1_S57_L003_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV27-1_S57_L003_R2_001.filtered.trimmed.paired.fastq.gzENCORE225517
    NT-BGHcLV27-1_Signal.Unique.strand+.bwENCODE_DATA/set48_H/STAR_ENCORE2_trimmed_file_linksbigWig+uniqueplus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab1787GRCh38V40NT-BGHcLV27-1/Aligned.sortedByCoord.out.bamENCORE226455
    NT-BGHcLV27-1_Signal.Unique.strand-.bwENCODE_DATA/set48_H/STAR_ENCORE2_trimmed_file_linksbigWig-uniqueminus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab1787GRCh38V40NT-BGHcLV27-1/Aligned.sortedByCoord.out.bamENCORE226481
    NT-BGHcLV27-1_Signal.UniqueMultiple.strand+.bwENCODE_DATA/set48_H/STAR_ENCORE2_trimmed_file_linksbigWig+allplus strand signal of all readsknockdown followed by RNA-seqGraveley Lab1787GRCh38V40NT-BGHcLV27-1/Aligned.sortedByCoord.out.bamENCORE226507
    NT-BGHcLV27-1_Signal.UniqueMultiple.strand-.bwENCODE_DATA/set48_H/STAR_ENCORE2_trimmed_file_linksbigWig-allminus strand signal of all readsknockdown followed by RNA-seqGraveley Lab1787GRCh38V40NT-BGHcLV27-1/Aligned.sortedByCoord.out.bamENCORE226533
    NT-BGHcLV27-2_S58_L003_R1_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set48_H/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab1788NovaSeq6000100paired-ended1ENCODE43805
    NT-BGHcLV27-2_S58_L003_R2_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set48_H/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab1788NovaSeq6000100paired-ended2ENCODE43831
    NT-BGHcLV27-2_Aligned.sortedByCoord.out.bamENCODE_DATA/set48_H/STAR_ENCORE2_trimmed_file_linksbamalignmentsknockdown followed by RNA-seqGraveley Lab1788GRCh38V40NT-BGHcLV27-2_S58_L003_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV27-2_S58_L003_R2_001.filtered.trimmed.paired.fastq.gzENCORE225492
    NT-BGHcLV27-2_quant.sfENCODE_DATA/set48_H/salmon_ENCORE2transcript_quantificationtranscript quantificationsknockdown followed by RNA-seqGraveley Lab1788GRCh38V40NT-BGHcLV27-2_S58_L003_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV27-2_S58_L003_R2_001.filtered.trimmed.paired.fastq.gzENCORE225518
    NT-BGHcLV27-2_Signal.Unique.strand+.bwENCODE_DATA/set48_H/STAR_ENCORE2_trimmed_file_linksbigWig+uniqueplus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab1788GRCh38V40NT-BGHcLV27-2/Aligned.sortedByCoord.out.bamENCORE226456
    NT-BGHcLV27-2_Signal.Unique.strand-.bwENCODE_DATA/set48_H/STAR_ENCORE2_trimmed_file_linksbigWig-uniqueminus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab1788GRCh38V40NT-BGHcLV27-2/Aligned.sortedByCoord.out.bamENCORE226482
    NT-BGHcLV27-2_Signal.UniqueMultiple.strand+.bwENCODE_DATA/set48_H/STAR_ENCORE2_trimmed_file_linksbigWig+allplus strand signal of all readsknockdown followed by RNA-seqGraveley Lab1788GRCh38V40NT-BGHcLV27-2/Aligned.sortedByCoord.out.bamENCORE226508
    NT-BGHcLV27-2_Signal.UniqueMultiple.strand-.bwENCODE_DATA/set48_H/STAR_ENCORE2_trimmed_file_linksbigWig-allminus strand signal of all readsknockdown followed by RNA-seqGraveley Lab1788GRCh38V40NT-BGHcLV27-2/Aligned.sortedByCoord.out.bamENCORE226534