non-target      CRISPR in K562      Control: NT-BGKcLV21

General Information

List KD experiments controlled by BGKcLV21-1 and BGKcLV21-2


NT-BGKcLV21-1,NT-BGKcLV21-2:
  • CHTOP-BGKcLV21-K562
  • CNOT10-BGKcLV21-K562
  • CPSF4-BGKcLV21-K562
  • CSTF1-BGKcLV21-K562
  • DCP2-BGKcLV21-K562
  • EXOSC10-BGKcLV21-K562
  • EXOSC2-BGKcLV21-K562
  • FYTTD1-BGKcLV21-K562
  • LSM7-BGKcLV21-K562
  • PAN2-BGKcLV21-K562
  • SART1-BGKcLV21-K562
  • SF3A2-BGKcLV21-K562




    • Experiment Information (Status: Released)
    BGKcLV21-1BGKcLV21-2
    idx734735
    TRCN#_or_BGC#BGC#0000000BGC#0000000
    shRNA_or_gRNA_sequenceCAGTCGGGCGTCATCATGATCAGTCGGGCGTCATCATGAT
    PAM
    Namenon-targetnon-target
    Sample_IDBGKcLV21-1BGKcLV21-2
    transduction_Date8/4/208/4/20
    daysDay 6Day 6
    RBP_namenon-targetnon-target
    qPCR_result
    Ave_qPCR
    RT-qPCR_primer-F
    RT-qPCR_primer-R
    protein_conc04449
    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_date09/24/2009/24/20
    repeat_library
    Note
    ID48544855




    Western Blot
    Western Blot info was not avaliable




    Experiment Status
    BGKcLV21-1BGKcLV21-2
    Sample_IDBGKcLV21-1BGKcLV21-2
    Sample Name
    Sample NameNT-BGKcLV21-1NT-BGKcLV21-2
    RBPnon-targetnon-target
    Cell_LineK562K562
    Exp UID
    StatusReleasedReleased
    Status_date2021-03-182021-03-18
    ProjectENCODE4ENCODE4
    Note
    ID61136114




    Library-Prep Information
    BGKcLV21-1BGKcLV21-2
    Sample #3132
    Sample NameNT-BGKcLV21-1NT-BGKcLV21-2
    Sample_Name_Alias
    Index Well PositionA04B04
    Index_tableIDT_UniqueDualIndex_96IDT_UniqueDualIndex_96
    LibPrep_date2020-09-242020-09-24
    Lib_IDLib-200924Lib-200924
    Tecan_Location
    Tecan
    Tecan_date
    Size_bp314312
    Peak_Molarity90.50104.00
    libSampleQC_DNA_WellDNA_Library_set45/set1/A4.pngDNA_Library_set45/set1/B4.png
    RIN10.09.5
    libSample_RNA_WellRNA_Library_set45/set1/A4.pngRNA_Library_set45/set1/B4.png
    SampleQC_methodTapeStationTapeStation
    SampleQC_date2020-09-222020-09-22
    Sample_IDBGKcLV21-1BGKcLV21-2
    RBPNTNT
    Batch_IDBGKcLV21BGKcLV21
    WB_result0.0000.000
    Library DescriptionTruSeq mRNATruSeq mRNA
    Repeat_Library_Suffix
    Lib_StatusSendToSequenceSendToSequence
    ProjectENCODE4ENCODE4
    ID805806




    Sequencing Information
    BGKcLV21-1BGKcLV21-2
    Sample_IDBGKcLV21-1BGKcLV21-2
    Sample NameNT-BGKcLV21-1NT-BGKcLV21-2
    Pool IDPool-200928Pool-200928
    LocalServer_folderset45_Kset45_K
    total_reads102,419,62495,553,670
    total_aligned_reads98,259,34292,501,104
    unique_aligned_reads90,067,44284,735,676
    percent_uniqueAligned0.879400.88679
    correlation_replicates0.9927600.992760
    spikein_reads75,41868,484
    percent_spikeins0.000740.00072
    original_ReadLength101101
    QC_StatusSubmittedSubmitted
    ID436437




    Data Submission Information
    BGKcLV21-1BGKcLV21-1BGKcLV21-1BGKcLV21-1BGKcLV21-1BGKcLV21-2BGKcLV21-2BGKcLV21-2BGKcLV21-2
    ENCODE_aliasbrenton-graveley:NT-BGKcLV21brenton-graveley:NT-BGKcLV21-1brenton-graveley:L-NT-BGKcLV21-1brenton-graveley:NT-BGKcLV21-1_S25_R1_001.fastq.gzbrenton-graveley:NT-BGKcLV21-1_S25_R2_001.fastq.gzbrenton-graveley:NT-BGKcLV21-2brenton-graveley:L-NT-BGKcLV21-2brenton-graveley:NT-BGKcLV21-2_S26_R1_001.fastq.gzbrenton-graveley:NT-BGKcLV21-2_S26_R2_001.fastq.gz
    ENCODE_accessionENCSR854OFVENCBS271IIIENCLB476ZSOENCFF784AVSENCFF022LJOENCBS605AWXENCLB037CPPENCFF464CMRENCFF424LWF
    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_IDBGKcLV21-1BGKcLV21-1BGKcLV21-1BGKcLV21-1BGKcLV21-1BGKcLV21-2BGKcLV21-2BGKcLV21-2BGKcLV21-2
    Sample NameNT-BGKcLV21-1NT-BGKcLV21-1NT-BGKcLV21-1NT-BGKcLV21-1NT-BGKcLV21-1NT-BGKcLV21-2NT-BGKcLV21-2NT-BGKcLV21-2NT-BGKcLV21-2
    SelectedYesYesYesYesYesYesYesYesYes
    StatusReleasedReleasedReleasedReleasedReleasedReleasedReleasedReleasedReleased
    Status_Date2021-03-182021-03-182021-03-182021-03-182021-03-182021-03-182021-03-182021-03-182021-03-18
    ProjectENCODE4ENCODE4ENCODE4ENCODE4ENCODE4ENCODE4ENCODE4ENCODE4ENCODE4
    LV45K_biosample_protocolLV45K_library_protocolLV45K_biosample_protocolLV45K_library_protocol
    protocol_URLNT-BGKcLV21-1.pdfL-NT-BGKcLV21-1.pdfNT-BGKcLV21-2.pdfL-NT-BGKcLV21-2.pdf
    ID210221592229229923692160223023002370




    File Information
    file_namefile_pathfile_formatoutput_typeassay_typelabSample IDplatformread_lengthrun_typepaired_endassemblygenome_annotationderived_fromcontrolled_byProjectNoteFILE_ID
    NT-BGKcLV21-1_S25_R1_001.fastq.gzENCODE_DATA/set45_K/fastqfastqreadsknockdown followed by RNA-seqGraveley Lab436NovaSeq6000100paired-ended1ENCODE41238
    NT-BGKcLV21-1_S25_R2_001.fastq.gzENCODE_DATA/set45_K/fastqfastqreadsknockdown followed by RNA-seqGraveley Lab436NovaSeq6000100paired-ended2ENCODE41288
    NT-BGKcLV21-1_quant.sfENCODE_DATA/set45_K/salmon_ENCORE2transcript_quantificationtranscript quantificationsknockdown followed by RNA-seqGraveley Lab436GRCh38V40NT-BGKcLV21-1_S25_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGKcLV21-1_S25_R2_001.filtered.trimmed.paired.fastq.gzENCORE225231
    NT-BGKcLV21-1_Aligned.sortedByCoord.out.bamENCODE_DATA/set45_K/STAR_ENCORE2_trimmed_file_linksbamalignmentsknockdown followed by RNA-seqGraveley Lab436GRCh38V40NT-BGKcLV21-1_S25_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGKcLV21-1_S25_R2_001.filtered.trimmed.paired.fastq.gzENCORE227185
    NT-BGKcLV21-1_Signal.Unique.strand+.bwENCODE_DATA/set45_K/STAR_ENCORE2_trimmed_file_linksbigWig+uniqueplus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab436GRCh38V40NT-BGKcLV21-1/Aligned.sortedByCoord.out.bamENCORE227235
    NT-BGKcLV21-1_Signal.Unique.strand-.bwENCODE_DATA/set45_K/STAR_ENCORE2_trimmed_file_linksbigWig-uniqueminus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab436GRCh38V40NT-BGKcLV21-1/Aligned.sortedByCoord.out.bamENCORE227285
    NT-BGKcLV21-1_Signal.UniqueMultiple.strand+.bwENCODE_DATA/set45_K/STAR_ENCORE2_trimmed_file_linksbigWig+allplus strand signal of all readsknockdown followed by RNA-seqGraveley Lab436GRCh38V40NT-BGKcLV21-1/Aligned.sortedByCoord.out.bamENCORE227335
    NT-BGKcLV21-1_Signal.UniqueMultiple.strand-.bwENCODE_DATA/set45_K/STAR_ENCORE2_trimmed_file_linksbigWig-allminus strand signal of all readsknockdown followed by RNA-seqGraveley Lab436GRCh38V40NT-BGKcLV21-1/Aligned.sortedByCoord.out.bamENCORE227385
    NT-BGKcLV21-2_S26_R1_001.fastq.gzENCODE_DATA/set45_K/fastqfastqreadsknockdown followed by RNA-seqGraveley Lab437NovaSeq6000100paired-ended1ENCODE41239
    NT-BGKcLV21-2_S26_R2_001.fastq.gzENCODE_DATA/set45_K/fastqfastqreadsknockdown followed by RNA-seqGraveley Lab437NovaSeq6000100paired-ended2ENCODE41289
    NT-BGKcLV21-2_quant.sfENCODE_DATA/set45_K/salmon_ENCORE2transcript_quantificationtranscript quantificationsknockdown followed by RNA-seqGraveley Lab437GRCh38V40NT-BGKcLV21-2_S26_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGKcLV21-2_S26_R2_001.filtered.trimmed.paired.fastq.gzENCORE225232
    NT-BGKcLV21-2_Aligned.sortedByCoord.out.bamENCODE_DATA/set45_K/STAR_ENCORE2_trimmed_file_linksbamalignmentsknockdown followed by RNA-seqGraveley Lab437GRCh38V40NT-BGKcLV21-2_S26_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGKcLV21-2_S26_R2_001.filtered.trimmed.paired.fastq.gzENCORE227186
    NT-BGKcLV21-2_Signal.Unique.strand+.bwENCODE_DATA/set45_K/STAR_ENCORE2_trimmed_file_linksbigWig+uniqueplus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab437GRCh38V40NT-BGKcLV21-2/Aligned.sortedByCoord.out.bamENCORE227236
    NT-BGKcLV21-2_Signal.Unique.strand-.bwENCODE_DATA/set45_K/STAR_ENCORE2_trimmed_file_linksbigWig-uniqueminus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab437GRCh38V40NT-BGKcLV21-2/Aligned.sortedByCoord.out.bamENCORE227286
    NT-BGKcLV21-2_Signal.UniqueMultiple.strand+.bwENCODE_DATA/set45_K/STAR_ENCORE2_trimmed_file_linksbigWig+allplus strand signal of all readsknockdown followed by RNA-seqGraveley Lab437GRCh38V40NT-BGKcLV21-2/Aligned.sortedByCoord.out.bamENCORE227336
    NT-BGKcLV21-2_Signal.UniqueMultiple.strand-.bwENCODE_DATA/set45_K/STAR_ENCORE2_trimmed_file_linksbigWig-allminus strand signal of all readsknockdown followed by RNA-seqGraveley Lab437GRCh38V40NT-BGKcLV21-2/Aligned.sortedByCoord.out.bamENCORE227386