non-target      CRISPR in K562      Control: NT-BGKcLV06

General Information

List KD experiments controlled by BGKcLV06-1 and BGKcLV06-2


NT-BGKcLV06-1B,NT-BGKcLV06-2B:No KD experiments controlled by NT-BGKcLV06-1B and NT-BGKcLV06-2B are available on the database

NT-BGKcLV06-1,NT-BGKcLV06-2 (alias:NT-BGKcLV06-1,NT-BGKcLV06-2):
  • EXOSC5-BGKcLV06-K562
  • HNRNPH1-BGKcLV06-K562
  • PCBP3-BGKcLV06-K562
  • POLR2G-BGKcLV06-K562
  • SAFB-BGKcLV06-K562
  • SDAD1-BGKcLV06-K562
  • SRSF9-BGKcLV06-K562
  • SYNCRIP-BGKcLV06-K562
  • TRNAU1AP-BGKcLV06-K562
  • ZNF800-BGKcLV06-K562




    • Experiment Information (Status: NotSatisfied)
    BGKcLV06-1BGKcLV06-2
    idx177178
    TRCN#_or_BGC#BGC#0000000BGC#0000000
    shRNA_or_gRNA_sequenceCAGTCGGGCGTCATCATGATCAGTCGGGCGTCATCATGAT
    PAM
    Namenon -targetnon -target
    Sample_IDBGKcLV06-1BGKcLV06-2
    transduction_Date6/9/176/9/17
    daysDay 6Day 6
    RBP_namenon-targetnon-target
    qPCR_result
    Ave_qPCR
    RT-qPCR_primer-F
    RT-qPCR_primer-R
    protein_conc33960
    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_date8/3/178/3/17
    repeat_library
    Note
    ID42754276




    Western Blot
    Western Blot info was not avaliable




    Experiment Status
    BGKcLV06-1BGKcLV06-1BGKcLV06-2BGKcLV06-2
    Sample_IDBGKcLV06-1BGKcLV06-1BGKcLV06-2BGKcLV06-2
    Sample NameNT-BGKcLV06-1BNT-BGKcLV06-1NT-BGKcLV06-2BNT-BGKcLV06-2
    Sample NameNT-BGKcLV06-1NT-BGKcLV06-2
    RBPnon-targetnon-targetnon-targetnon-target
    Cell_LineK562K562K562K562
    Exp UID
    StatusNotSatisfiedReleasedNotSatisfiedReleased
    Status_date2017-11-202017-11-202017-11-202017-11-20
    ProjectENCODE4ENCODE3ENCODE4ENCODE3
    NoteNOT BE SUBMITTED, NO GOOD KD SAMPLESNOT BE SUBMITTED, NO GOOD KD SAMPLES
    ID10413631051364




    Library-Prep Information
    BGKcLV06-1BGKcLV06-1BGKcLV06-2BGKcLV06-2
    Sample #3536
    Sample NameNT-BGKcLV06-1BNT-BGKcLV06-1NT-BGKcLV06-2BNT-BGKcLV06-2
    Sample_Name_AliasNT-BGKcLV06-1NT-BGKcLV06-2
    Index Well PositionS09S09S10S10
    Index_tableIDT_TruSeqSingleIndex_24IDT_TruSeqSingleIndex_24IDT_TruSeqSingleIndex_24IDT_TruSeqSingleIndex_24
    LibPrep_date2018-01-022017-08-032018-01-022017-08-03
    Lib_IDLib-180102Lib-170803Lib-180102Lib-170803
    Tecan_Location
    Tecan
    Tecan_date
    Size_bp335304
    Peak_Molarity83.4056.50
    libSampleQC_DNA_WellDNA_Library_set40/set1/A12.pngDNA_Library_set39/set2/A1.pngDNA_Library_set40/set1/B12.pngDNA_Library_set39/set2/B1.png
    RIN9.89.89.59.5
    libSample_RNA_WellRNA_Library_set39/set3/B1.pngRNA_Library_set39/set3/B1.pngRNA_Library_set39/set3/C1.pngRNA_Library_set39/set3/C1.png
    SampleQC_methodTapeStationTapeStation
    SampleQC_date2018-01-022018-01-02
    Sample_IDBGKcLV06-1BGKcLV06-1BGKcLV06-2BGKcLV06-2
    RBPNTNTNTNT
    Batch_IDBGKcLV06BGKcLV06BGKcLV06BGKcLV06
    WB_result0.0000.0000.0000.000
    Library DescriptionTruSeq mRNATruSeq mRNATruSeq mRNATruSeq mRNA
    Repeat_Library_SuffixBB
    Lib_StatusSendToSequenceSendToSequenceSendToSequenceSendToSequence
    ProjectENCODE4ENCODE3ENCODE4ENCODE3
    ID95830589593059




    Sequencing Information
    BGKcLV06-1BGKcLV06-1BGKcLV06-1BGKcLV06-2BGKcLV06-2BGKcLV06-2
    Sample_IDBGKcLV06-1BGKcLV06-1BGKcLV06-1BGKcLV06-2BGKcLV06-2BGKcLV06-2
    Sample NameNT-BGKcLV06-1BNT-BGKcLV06-1BNT-BGKcLV06-1NT-BGKcLV06-2BNT-BGKcLV06-2BNT-BGKcLV06-2
    Pool IDPool-180109Pool-180316Pool-170911Pool-180109Pool-180316Pool-170911
    LocalServer_folderset40_Kset40_Kset39_Kset40_Kset40_Kset39_K
    total_reads8,385,37034,471,91653,857,5888,585,33031,318,27658,051,556
    total_aligned_reads7,706,39632,070,60046,798,1467,895,99829,205,06449,992,888
    unique_aligned_reads7,116,08629,604,11642,367,7767,274,79026,936,09045,336,456
    percent_uniqueAligned0.848630.858790.786660.847350.860080.78097
    correlation_replicates0.9988030.9926690.9988030.992669
    spikein_reads6,95229,80030,2187,24027,62026,892
    percent_spikeins0.000830.000860.000560.000840.000880.00046
    original_ReadLength100100100100100100
    QC_StatusOtherReasonsNotToSubmitOtherReasonsNotToSubmitSubmittedOtherReasonsNotToSubmitOtherReasonsNotToSubmitSubmitted
    ID36140317093624041710




    Data Submission Information
    BGKcLV06-1
    ENCODE_aliasbrenton-graveley:NT-BGKcLV06
    ENCODE_accessionENCSR341TTW
    object_typeexperiment
    assay_typeknockdown followed by RNA-seq
    Sample_IDBGKcLV06-1
    Sample NameNT-BGKcLV06-1
    SelectedYes
    StatusReleased
    Status_Date2017-11-15
    ProjectENCODE3
    protocol_URL
    ID3221




    File Information
    file_namefile_pathfile_formatoutput_typeassay_typelabSample IDplatformread_lengthrun_typepaired_endassemblygenome_annotationderived_fromcontrolled_byProjectNoteFILE_ID
    NT-BGKcLV06-1_GATCAG_ACBE67ANXX_L005_001.R1.fastq.gzENCODE_DATA/set39_K/fastqfastqreadsknockdown followed by RNA-seqGraveley Lab1709HiSeq2500100paired-ended1ENCODE322470
    NT-BGKcLV06-1_GATCAG_ACBE67ANXX_L005_001.R2.fastq.gzENCODE_DATA/set39_K/fastqfastqreadsknockdown followed by RNA-seqGraveley Lab1709HiSeq2500100paired-ended2ENCODE322506
    NT-BGKcLV06-1_Aligned.sortedByCoord.out.bamENCODE_DATA/set39_K/STAR_ENCORE2_file_linksbamalignmentsknockdown followed by RNA-seqGraveley Lab1709GRCh38V40NT-BGKcLV06-1_GATCAG_ACBE67ANXX_L005_001.R1.fastq.gz,NT-BGKcLV06-1_GATCAG_ACBE67ANXX_L005_001.R2.fastq.gzENCORE222542
    NT-BGKcLV06-1_Signal.Unique.strand+.bwENCODE_DATA/set39_K/STAR_ENCORE2_file_linksbigWig+uniqueplus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab1709GRCh38V40NT-BGKcLV06-1/Aligned.sortedByCoord.out.bamENCORE222578
    NT-BGKcLV06-1_Signal.Unique.strand-.bwENCODE_DATA/set39_K/STAR_ENCORE2_file_linksbigWig-uniqueminus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab1709GRCh38V40NT-BGKcLV06-1/Aligned.sortedByCoord.out.bamENCORE222614
    NT-BGKcLV06-1_Signal.UniqueMultiple.strand+.bwENCODE_DATA/set39_K/STAR_ENCORE2_file_linksbigWig+allplus strand signal of all readsknockdown followed by RNA-seqGraveley Lab1709GRCh38V40NT-BGKcLV06-1/Aligned.sortedByCoord.out.bamENCORE222650
    NT-BGKcLV06-1_Signal.UniqueMultiple.strand-.bwENCODE_DATA/set39_K/STAR_ENCORE2_file_linksbigWig-allminus strand signal of all readsknockdown followed by RNA-seqGraveley Lab1709GRCh38V40NT-BGKcLV06-1/Aligned.sortedByCoord.out.bamENCORE222686
    NT-BGKcLV06-1_quant.sfENCODE_DATA/set39_K/salmon_ENCORE2transcript_quantificationtranscript quantificationsknockdown followed by RNA-seqGraveley Lab1709GRCh38V40NT-BGKcLV06-1_GATCAG_ACBE67ANXX_L005_001.R1.fastq.gz,NT-BGKcLV06-1_GATCAG_ACBE67ANXX_L005_001.R2.fastq.gzENCORE222722
    NT-BGKcLV06-1B_L001_001.R1.fastq.gzENCODE_DATA/set40_K/fastqfastqreadsknockdown followed by RNA-seqGraveley Lab361HiSeq2500100paired-ended1ENCODE423451
    NT-BGKcLV06-1B_L001_001.R2.fastq.gzENCODE_DATA/set40_K/fastqfastqreadsknockdown followed by RNA-seqGraveley Lab361HiSeq2500100paired-ended2ENCODE423460
    NT-BGKcLV06-1B_Aligned.sortedByCoord.out.bamENCODE_DATA/set40_K/STAR_ENCORE2_file_linksbamalignmentsknockdown followed by RNA-seqGraveley Lab361GRCh38V40NT-BGKcLV06-1B_L001_001.R1.fastq.gz,NT-BGKcLV06-1B_L001_001.R2.fastq.gzENCORE223480
    NT-BGKcLV06-1B_Signal.Unique.strand+.bwENCODE_DATA/set40_K/STAR_ENCORE2_file_linksbigWig+uniqueplus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab361GRCh38V40NT-BGKcLV06-1B/Aligned.sortedByCoord.out.bamENCORE223514
    NT-BGKcLV06-1B_Signal.Unique.strand-.bwENCODE_DATA/set40_K/STAR_ENCORE2_file_linksbigWig-uniqueminus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab361GRCh38V40NT-BGKcLV06-1B/Aligned.sortedByCoord.out.bamENCORE223548
    NT-BGKcLV06-1B_Signal.UniqueMultiple.strand+.bwENCODE_DATA/set40_K/STAR_ENCORE2_file_linksbigWig+allplus strand signal of all readsknockdown followed by RNA-seqGraveley Lab361GRCh38V40NT-BGKcLV06-1B/Aligned.sortedByCoord.out.bamENCORE223582
    NT-BGKcLV06-1B_Signal.UniqueMultiple.strand-.bwENCODE_DATA/set40_K/STAR_ENCORE2_file_linksbigWig-allminus strand signal of all readsknockdown followed by RNA-seqGraveley Lab361GRCh38V40NT-BGKcLV06-1B/Aligned.sortedByCoord.out.bamENCORE223616
    NT-BGKcLV06-1B_quant.sfENCODE_DATA/set40_K/salmon_ENCORE2transcript_quantificationtranscript quantificationsknockdown followed by RNA-seqGraveley Lab361GRCh38V40NT-BGKcLV06-1B_L001_001.R1.fastq.gz,NT-BGKcLV06-1B_L001_001.R2.fastq.gzENCORE223650
    NT-BGKcLV06-2_TAGCTT_ACBE67ANXX_L005_001.R1.fastq.gzENCODE_DATA/set39_K/fastqfastqreadsknockdown followed by RNA-seqGraveley Lab1710HiSeq2500100paired-ended1ENCODE322471
    NT-BGKcLV06-2_TAGCTT_ACBE67ANXX_L005_001.R2.fastq.gzENCODE_DATA/set39_K/fastqfastqreadsknockdown followed by RNA-seqGraveley Lab1710HiSeq2500100paired-ended2ENCODE322507
    NT-BGKcLV06-2_Aligned.sortedByCoord.out.bamENCODE_DATA/set39_K/STAR_ENCORE2_file_linksbamalignmentsknockdown followed by RNA-seqGraveley Lab1710GRCh38V40NT-BGKcLV06-2_TAGCTT_ACBE67ANXX_L005_001.R1.fastq.gz,NT-BGKcLV06-2_TAGCTT_ACBE67ANXX_L005_001.R2.fastq.gzENCORE222543
    NT-BGKcLV06-2_Signal.Unique.strand+.bwENCODE_DATA/set39_K/STAR_ENCORE2_file_linksbigWig+uniqueplus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab1710GRCh38V40NT-BGKcLV06-2/Aligned.sortedByCoord.out.bamENCORE222579
    NT-BGKcLV06-2_Signal.Unique.strand-.bwENCODE_DATA/set39_K/STAR_ENCORE2_file_linksbigWig-uniqueminus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab1710GRCh38V40NT-BGKcLV06-2/Aligned.sortedByCoord.out.bamENCORE222615
    NT-BGKcLV06-2_Signal.UniqueMultiple.strand+.bwENCODE_DATA/set39_K/STAR_ENCORE2_file_linksbigWig+allplus strand signal of all readsknockdown followed by RNA-seqGraveley Lab1710GRCh38V40NT-BGKcLV06-2/Aligned.sortedByCoord.out.bamENCORE222651
    NT-BGKcLV06-2_Signal.UniqueMultiple.strand-.bwENCODE_DATA/set39_K/STAR_ENCORE2_file_linksbigWig-allminus strand signal of all readsknockdown followed by RNA-seqGraveley Lab1710GRCh38V40NT-BGKcLV06-2/Aligned.sortedByCoord.out.bamENCORE222687
    NT-BGKcLV06-2_quant.sfENCODE_DATA/set39_K/salmon_ENCORE2transcript_quantificationtranscript quantificationsknockdown followed by RNA-seqGraveley Lab1710GRCh38V40NT-BGKcLV06-2_TAGCTT_ACBE67ANXX_L005_001.R1.fastq.gz,NT-BGKcLV06-2_TAGCTT_ACBE67ANXX_L005_001.R2.fastq.gzENCORE222723
    NT-BGKcLV06-2B_L001_001.R1.fastq.gzENCODE_DATA/set40_K/fastqfastqreadsknockdown followed by RNA-seqGraveley Lab362HiSeq2500100paired-ended1ENCODE423452
    NT-BGKcLV06-2B_L001_001.R2.fastq.gzENCODE_DATA/set40_K/fastqfastqreadsknockdown followed by RNA-seqGraveley Lab362HiSeq2500100paired-ended2ENCODE423461
    NT-BGKcLV06-2B_Aligned.sortedByCoord.out.bamENCODE_DATA/set40_K/STAR_ENCORE2_file_linksbamalignmentsknockdown followed by RNA-seqGraveley Lab362GRCh38V40NT-BGKcLV06-2B_L001_001.R1.fastq.gz,NT-BGKcLV06-2B_L001_001.R2.fastq.gzENCORE223481
    NT-BGKcLV06-2B_Signal.Unique.strand+.bwENCODE_DATA/set40_K/STAR_ENCORE2_file_linksbigWig+uniqueplus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab362GRCh38V40NT-BGKcLV06-2B/Aligned.sortedByCoord.out.bamENCORE223515
    NT-BGKcLV06-2B_Signal.Unique.strand-.bwENCODE_DATA/set40_K/STAR_ENCORE2_file_linksbigWig-uniqueminus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab362GRCh38V40NT-BGKcLV06-2B/Aligned.sortedByCoord.out.bamENCORE223549
    NT-BGKcLV06-2B_Signal.UniqueMultiple.strand+.bwENCODE_DATA/set40_K/STAR_ENCORE2_file_linksbigWig+allplus strand signal of all readsknockdown followed by RNA-seqGraveley Lab362GRCh38V40NT-BGKcLV06-2B/Aligned.sortedByCoord.out.bamENCORE223583
    NT-BGKcLV06-2B_Signal.UniqueMultiple.strand-.bwENCODE_DATA/set40_K/STAR_ENCORE2_file_linksbigWig-allminus strand signal of all readsknockdown followed by RNA-seqGraveley Lab362GRCh38V40NT-BGKcLV06-2B/Aligned.sortedByCoord.out.bamENCORE223617
    NT-BGKcLV06-2B_quant.sfENCODE_DATA/set40_K/salmon_ENCORE2transcript_quantificationtranscript quantificationsknockdown followed by RNA-seqGraveley Lab362GRCh38V40NT-BGKcLV06-2B_L001_001.R1.fastq.gz,NT-BGKcLV06-2B_L001_001.R2.fastq.gzENCORE223651