non-target      CRISPR in K562      Control: NT-BGKcLV26

General Information

List KD experiments controlled by BGKcLV26-1 and BGKcLV26-2


NT-BGKcLV26-1,NT-BGKcLV26-2:
  • ACO2-BGKcLV26-K562
  • ACTN4-BGKcLV26-K562
  • ADAT1-BGKcLV26-K562
  • ADK-BGKcLV26-K562
  • AGFG1-BGKcLV26-K562
  • AHCYL2-BGKcLV26-K562
  • AIMP1-BGKcLV26-K562
  • ALDH18A1-BGKcLV26-K562
  • ALDOA-BGKcLV26-K562
  • APEH-BGKcLV26-K562
  • API5-BGKcLV26-K562
  • ARHGEF2-BGKcLV26-K562
  • ATP5A1-BGKcLV26-K562
  • ATXN2L-BGKcLV26-K562
  • BRD2-BGKcLV26-K562
  • BYSL-BGKcLV26-K562
  • BZW2-BGKcLV26-K562
  • CAND1-BGKcLV26-K562
  • CAPRIN1-BGKcLV26-K562
  • CARHSP1-BGKcLV26-K562
  • CARS-BGKcLV26-K562
  • CAST-BGKcLV26-K562
  • CAT-BGKcLV26-K562
  • CCNT1-BGKcLV26-K562




    • Experiment Information (Status: Released)
    BGKcLV26-1BGKcLV26-2
    idx854855
    TRCN#_or_BGC#BGC#0000000BGC#0000000
    shRNA_or_gRNA_sequenceCAGTCGGGCGTCATCATGATCAGTCGGGCGTCATCATGAT
    PAM
    Namenon-targetnon-target
    Sample_IDBGKcLV26-1BGKcLV26-2
    transduction_Date3/30/213/30/21
    daysDay 6Day 6
    RBP_namenon-targetnon-target
    qPCR_result
    Ave_qPCR
    RT-qPCR_primer-F
    RT-qPCR_primer-R
    protein_conc04959
    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_date09/01/2109/01/21
    repeat_library
    Note
    ID49864987




    Western Blot
    Western Blot info was not avaliable




    Experiment Status
    BGKcLV26-1BGKcLV26-2
    Sample_IDBGKcLV26-1BGKcLV26-2
    Sample Name
    Sample NameNT-BGKcLV26-1NT-BGKcLV26-2
    RBPnon-targetnon-target
    Cell_LineK562K562
    Exp UID
    StatusReleasedReleased
    Status_date2021-11-192021-11-19
    ProjectENCODE4ENCODE4
    Note
    ID97439744




    Library-Prep Information
    BGKcLV26-1BGKcLV26-2
    Sample #12
    Sample NameNT-BGKcLV26-1NT-BGKcLV26-2
    Sample_Name_Alias
    Index Well PositionA01B01
    Index_tableIDT_UniqueDualIndex_96IDT_UniqueDualIndex_96
    LibPrep_date2021-07-222021-07-22
    Lib_IDLib-210722Lib-210722
    Tecan_Location
    Tecan
    Tecan_date
    Size_bp311286
    Peak_Molarity70.4075.50
    libSampleQC_DNA_WellDNA_Library_set48-49/set1/A1.pngDNA_Library_set48-49/set1/B1.png
    RIN9.29.3
    libSample_RNA_WellRNA_Library_set48-49/set1/A1.pngRNA_Library_set48-49/set1/B1.png
    SampleQC_methodTapeStationTapeStation
    SampleQC_date2021-09-022021-09-02
    Sample_IDBGKcLV26-1BGKcLV26-2
    RBPNTNT
    Batch_IDBGKcLV26BGKcLV26
    WB_result0.0000.000
    Library DescriptionTruSeq mRNATruSeq mRNA
    Repeat_Library_Suffix
    Lib_StatusSendToSequenceSendToSequence
    ProjectENCODE4ENCODE4
    ID15601561




    Sequencing Information
    BGKcLV26-1BGKcLV26-2
    Sample_IDBGKcLV26-1BGKcLV26-2
    Sample NameNT-BGKcLV26-1NT-BGKcLV26-2
    Pool IDPool-210908Pool-210908
    LocalServer_folderset48_Kset48_K
    total_reads101,885,69899,235,016
    total_aligned_reads77,269,56273,337,852
    unique_aligned_reads70,298,64666,810,686
    percent_uniqueAligned0.689980.67326
    correlation_replicates0.9979970.997997
    spikein_reads49,77252,562
    percent_spikeins0.000490.00053
    original_ReadLength150150
    QC_StatusSubmittedSubmitted
    ID17371738




    Data Submission Information
    BGKcLV26-1BGKcLV26-1BGKcLV26-1BGKcLV26-1BGKcLV26-1BGKcLV26-2BGKcLV26-2BGKcLV26-2BGKcLV26-2
    ENCODE_aliasbrenton-graveley:NT-BGKcLV26brenton-graveley:NT-BGKcLV26-1brenton-graveley:L-NT-BGKcLV26-1brenton-graveley:NT-BGKcLV26-1_S7_L003_R1_001.filtered.trimmed.paired.fastq.gzbrenton-graveley:NT-BGKcLV26-1_S7_L003_R2_001.filtered.trimmed.paired.fastq.gzbrenton-graveley:NT-BGKcLV26-2brenton-graveley:L-NT-BGKcLV26-2brenton-graveley:NT-BGKcLV26-2_S8_L003_R1_001.filtered.trimmed.paired.fastq.gzbrenton-graveley:NT-BGKcLV26-2_S8_L003_R2_001.filtered.trimmed.paired.fastq.gz
    ENCODE_accessionENCSR900GQLENCBS369CJTENCLB770IBMENCFF936CBUENCFF344FNNENCBS791IIZENCLB297ZDLENCFF403ESBENCFF445PPR
    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_IDBGKcLV26-1BGKcLV26-1BGKcLV26-1BGKcLV26-1BGKcLV26-1BGKcLV26-2BGKcLV26-2BGKcLV26-2BGKcLV26-2
    Sample NameNT-BGKcLV26-1NT-BGKcLV26-1NT-BGKcLV26-1NT-BGKcLV26-1NT-BGKcLV26-1NT-BGKcLV26-2NT-BGKcLV26-2NT-BGKcLV26-2NT-BGKcLV26-2
    SelectedYesYesYesYesYesYesYesYesYes
    StatusReleasedReleasedReleasedReleasedReleasedReleasedReleasedReleasedReleased
    Status_Date2021-11-192021-11-192021-11-192021-11-192021-11-192021-11-192021-11-192021-11-192021-11-19
    ProjectENCODE4ENCODE4ENCODE4ENCODE4ENCODE4ENCODE4ENCODE4ENCODE4ENCODE4
    LV48K_biosample_protocolLV48K_library_protocolLV48K_biosample_protocolLV48K_library_protocol
    protocol_URLNT-BGKcLV26-1.pdfL-NT-BGKcLV26-1.pdfNT-BGKcLV26-2.pdfL-NT-BGKcLV26-2.pdf
    ID344635263660379439283527366137953929




    File Information
    file_namefile_pathfile_formatoutput_typeassay_typelabSample IDplatformread_lengthrun_typepaired_endassemblygenome_annotationderived_fromcontrolled_byProjectNoteFILE_ID
    NT-BGKcLV26-1_S7_L003_R1_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set48_K/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab1737NovaSeq6000100paired-ended1ENCODE43880
    NT-BGKcLV26-1_S7_L003_R2_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set48_K/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab1737NovaSeq6000100paired-ended2ENCODE43930
    NT-BGKcLV26-1_Aligned.sortedByCoord.out.bamENCODE_DATA/set48_K/STAR_ENCORE2_trimmed_file_linksbamalignmentsknockdown followed by RNA-seqGraveley Lab1737GRCh38V40NT-BGKcLV26-1_S7_L003_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGKcLV26-1_S7_L003_R2_001.filtered.trimmed.paired.fastq.gzENCORE225567
    NT-BGKcLV26-1_quant.sfENCODE_DATA/set48_K/salmon_ENCORE2transcript_quantificationtranscript quantificationsknockdown followed by RNA-seqGraveley Lab1737GRCh38V40NT-BGKcLV26-1_S7_L003_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGKcLV26-1_S7_L003_R2_001.filtered.trimmed.paired.fastq.gzENCORE225617
    NT-BGKcLV26-1_Signal.Unique.strand+.bwENCODE_DATA/set48_K/STAR_ENCORE2_trimmed_file_linksbigWig+uniqueplus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab1737GRCh38V40NT-BGKcLV26-1/Aligned.sortedByCoord.out.bamENCORE226583
    NT-BGKcLV26-1_Signal.Unique.strand-.bwENCODE_DATA/set48_K/STAR_ENCORE2_trimmed_file_linksbigWig-uniqueminus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab1737GRCh38V40NT-BGKcLV26-1/Aligned.sortedByCoord.out.bamENCORE226633
    NT-BGKcLV26-1_Signal.UniqueMultiple.strand+.bwENCODE_DATA/set48_K/STAR_ENCORE2_trimmed_file_linksbigWig+allplus strand signal of all readsknockdown followed by RNA-seqGraveley Lab1737GRCh38V40NT-BGKcLV26-1/Aligned.sortedByCoord.out.bamENCORE226683
    NT-BGKcLV26-1_Signal.UniqueMultiple.strand-.bwENCODE_DATA/set48_K/STAR_ENCORE2_trimmed_file_linksbigWig-allminus strand signal of all readsknockdown followed by RNA-seqGraveley Lab1737GRCh38V40NT-BGKcLV26-1/Aligned.sortedByCoord.out.bamENCORE226733
    NT-BGKcLV26-2_S8_L003_R1_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set48_K/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab1738NovaSeq6000100paired-ended1ENCODE43881
    NT-BGKcLV26-2_S8_L003_R2_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set48_K/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab1738NovaSeq6000100paired-ended2ENCODE43931
    NT-BGKcLV26-2_Aligned.sortedByCoord.out.bamENCODE_DATA/set48_K/STAR_ENCORE2_trimmed_file_linksbamalignmentsknockdown followed by RNA-seqGraveley Lab1738GRCh38V40NT-BGKcLV26-2_S8_L003_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGKcLV26-2_S8_L003_R2_001.filtered.trimmed.paired.fastq.gzENCORE225568
    NT-BGKcLV26-2_quant.sfENCODE_DATA/set48_K/salmon_ENCORE2transcript_quantificationtranscript quantificationsknockdown followed by RNA-seqGraveley Lab1738GRCh38V40NT-BGKcLV26-2_S8_L003_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGKcLV26-2_S8_L003_R2_001.filtered.trimmed.paired.fastq.gzENCORE225618
    NT-BGKcLV26-2_Signal.Unique.strand+.bwENCODE_DATA/set48_K/STAR_ENCORE2_trimmed_file_linksbigWig+uniqueplus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab1738GRCh38V40NT-BGKcLV26-2/Aligned.sortedByCoord.out.bamENCORE226584
    NT-BGKcLV26-2_Signal.Unique.strand-.bwENCODE_DATA/set48_K/STAR_ENCORE2_trimmed_file_linksbigWig-uniqueminus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab1738GRCh38V40NT-BGKcLV26-2/Aligned.sortedByCoord.out.bamENCORE226634
    NT-BGKcLV26-2_Signal.UniqueMultiple.strand+.bwENCODE_DATA/set48_K/STAR_ENCORE2_trimmed_file_linksbigWig+allplus strand signal of all readsknockdown followed by RNA-seqGraveley Lab1738GRCh38V40NT-BGKcLV26-2/Aligned.sortedByCoord.out.bamENCORE226684
    NT-BGKcLV26-2_Signal.UniqueMultiple.strand-.bwENCODE_DATA/set48_K/STAR_ENCORE2_trimmed_file_linksbigWig-allminus strand signal of all readsknockdown followed by RNA-seqGraveley Lab1738GRCh38V40NT-BGKcLV26-2/Aligned.sortedByCoord.out.bamENCORE226734