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non-target RNA-Seq in K562



non-target      shRNA in K562      Control: NT-BGKLV36-D

General Information

List KD experiments controlled by BGKLV36-1 and BGKLV36-2


NT-BGKLV36-1C,NT-BGKLV36-2C:
  • HDGF-BGKLV36-K562
  • MARK2-BGKLV36-K562
  • NKRF-BGKLV36-K562

    • NT-BGKLV36-1,NT-BGKLV36-2 (alias:NT_BGKLV36-1,NT_BGKLV36-2):
  • BOP1-BGKLV36-K562
  • CPSF6-BGKLV36-K562
  • FMR1-BGKLV36-K562
  • FTO-BGKLV36-K562
  • GPKOW-BGKLV36-K562
  • KRR1-BGKLV36-K562
  • METAP2-BGKLV36-K562
  • SF3B1-BGKLV36-K562

    • NT-BGKLV36-1B,NT-BGKLV36-2B (alias:NT-BGKLV36-1B,NT-BGKLV36-2B):
  • CKAP4-BGKLV36-K562_A

    • NT-BGKLV36-1D,NT-BGKLV36-2D:
  • CKAP4-BGKLV36-K562




    • Experiment Information (Status: Released)
    BGKLV36-1BGKLV36-2
    idx724725
    TRCN#_or_BGC#SHC002SHC002
    shRNA_or_gRNA_sequenceCAACAAGATGAAGAGCACCAACAACAAGATGAAGAGCACCAA
    PAM
    Namenonnon
    Sample_IDBGKLV36-1BGKLV36-2
    transduction_Date5/19/20165/19/2016
    days
    RBP_namenon-targetnon-target
    qPCR_result
    Ave_qPCR
    RT-qPCR_primer-F
    RT-qPCR_primer-R
    protein_conc30484043
    WB_result
    Ave_WB
    WB_DONE_date
    MW
    IP
    antibody_Cat#
    Antibody DCC ID
    submitted_to_DCC_date
    Rep1_TPM00
    Rep2_TPM00
    Action
    Library_start_date07/28/1607/28/16
    repeat_library05/11/1705/11/17
    Note
    ID813814




    Western Blot
    Western Blot info was not avaliable




    Experiment Status
    BGKLV36-1BGKLV36-1BGKLV36-1BGKLV36-1BGKLV36-2BGKLV36-2BGKLV36-2BGKLV36-2
    Sample_IDBGKLV36-1BGKLV36-1BGKLV36-1BGKLV36-1BGKLV36-2BGKLV36-2BGKLV36-2BGKLV36-2
    Sample NameNT-BGKLV36-1CNT_BGKLV36-1NT-BGKLV36-1BNT-BGKLV36-2CNT_BGKLV36-2NT-BGKLV36-2B
    Sample NameNT-BGKLV36-1CNT_BGKLV36-1NT-BGKLV36-1BNT-BGKLV36-1DNT-BGKLV36-2CNT_BGKLV36-2NT-BGKLV36-2BNT-BGKLV36-2D
    RBPnon-targetnon-targetnon-targetnon-targetnon-targetnon-targetnon-targetnon-target
    Cell_LineK562K562K562K562K562K562K562K562
    Exp UID
    StatusReleasedReleasedReleasedReleasedReleasedReleasedReleasedReleased
    Status_date2021-03-182016-09-242017-11-202022-03-072021-03-182016-09-242017-11-202022-03-07
    ProjectENCODE4ENCODE3ENCODE3ENCODE4ENCODE4ENCODE3ENCODE3ENCODE4
    Note
    ID10812791333104371091280133410438




    Library-Prep Information
    BGKLV36-1BGKLV36-1BGKLV36-1BGKLV36-1BGKLV36-2BGKLV36-2BGKLV36-2BGKLV36-2
    Sample #45574658
    Sample NameNT-BGKLV36-1CNT-BGKLV36-1NT-BGKLV36-1BNT-BGKLV36-1DNT-BGKLV36-2CNT-BGKLV36-2NT-BGKLV36-2BNT-BGKLV36-2D
    Sample_Name_AliasNT_BGKLV36-1NT-BGKLV36-1BNT_BGKLV36-2NT-BGKLV36-2B
    Index Well PositionS05S09S01S01S06S10S02S02
    Index_tableIDT_TruSeqSingleIndex_24IDT_TruSeqSingleIndex_24IDT_TruSeqSingleIndex_24IDT_TruSeqSingleIndex_24IDT_TruSeqSingleIndex_24IDT_TruSeqSingleIndex_24IDT_TruSeqSingleIndex_24IDT_TruSeqSingleIndex_24
    LibPrep_date2018-01-022016-07-282017-05-112018-11-192018-01-022016-07-282017-05-112018-11-19
    Lib_IDLib-180102Lib-160728Lib-170511Lib-181119Lib-180102Lib-160728Lib-170511Lib-181119
    Tecan_Location
    Tecan
    Tecan_date
    Size_bp298295319287
    Peak_Molarity33.8060.6044.0072.10
    libSampleQC_DNA_WellDNA_Library_set40/set1/E11.pngDNA_Library_LV36/set1/A1.pngDNA_Library_set39/set2/A5.pngDNA_Library_set41/set1/A7.pngDNA_Library_set40/set1/F11.pngDNA_Library_LV36/set1/B1.pngDNA_Library_set39/set2/B5.pngDNA_Library_set41/set1/B7.png
    RIN9.49.49.49.410.010.010.010.0
    libSample_RNA_WellRNA_Library_LV35_LV36/set1/C4.pngRNA_Library_LV35_LV36/set1/C4.pngRNA_Library_LV35_LV36/set1/C4.pngRNA_Library_LV35_LV36/set1/C4.pngRNA_Library_LV35_LV36/set1/D4.pngRNA_Library_LV35_LV36/set1/D4.pngRNA_Library_LV35_LV36/set1/D4.pngRNA_Library_LV35_LV36/set1/D4.png
    SampleQC_methodTapeStationTapeStationTapeStationTapeStation
    SampleQC_date2018-01-022022-03-012018-01-022022-03-01
    Sample_IDBGKLV36-1BGKLV36-1BGKLV36-1BGKLV36-1BGKLV36-2BGKLV36-2BGKLV36-2BGKLV36-2
    RBPNTNTNTNTNTNTNTNT
    Batch_IDBGKLV36BGKLV36BGKLV36BGKLV36BGKLV36BGKLV36BGKLV36BGKLV36
    WB_result0.0000.0000.0000.0000.0000.0000.0000.000
    Library DescriptionTruSeq mRNATruSeq mRNATruSeq mRNATruSeq mRNATruSeq mRNATruSeq mRNATruSeq mRNATruSeq mRNA
    Repeat_Library_SuffixCBDCBD
    Lib_StatusSendToSequenceSendToSequenceSendToSequenceSendToSequenceSendToSequenceSendToSequenceSendToSequenceSendToSequence
    ProjectENCODE4ENCODE3ENCODE3ENCODE4ENCODE4ENCODE3ENCODE3ENCODE4
    ID968296430303234969296530313235




    Sequencing Information
    BGKLV36-1BGKLV36-1BGKLV36-1BGKLV36-1BGKLV36-1BGKLV36-2BGKLV36-2BGKLV36-2BGKLV36-2BGKLV36-2
    Sample_IDBGKLV36-1BGKLV36-1BGKLV36-1BGKLV36-1BGKLV36-1BGKLV36-2BGKLV36-2BGKLV36-2BGKLV36-2BGKLV36-2
    Sample NameNT-BGKLV36-1CNT-BGKLV36-1CNT_BGKLV36-1NT-BGKLV36-1BNT-BGKLV36-1DNT-BGKLV36-2CNT-BGKLV36-2CNT_BGKLV36-2NT-BGKLV36-2BNT-BGKLV36-2D
    Pool IDPool-180109Pool-180316Pool-160912Pool-170911Pool-181119Pool-180109Pool-180316Pool-160912Pool-170911Pool-181119
    LocalServer_folderset40_Kset40_Kset36set39_Kset41_spikeinsset40_Kset40_Kset36set39_Kset41_spikeins
    total_reads17,604,26636,676,40663,354,92265,815,45024,410,07212,739,61038,288,93061,880,00061,218,23638,060,094
    total_aligned_reads16,068,34633,413,24450,315,30659,639,56423,089,06411,330,45834,558,04249,601,79255,383,44036,896,930
    unique_aligned_reads14,648,70030,611,02445,952,11054,603,49821,080,45810,406,89031,795,43645,229,09250,555,82833,778,822
    percent_uniqueAligned0.832110.834620.725310.829650.863600.816890.830410.730920.825830.88751
    correlation_replicates0.9948560.9938730.9939160.9961660.9948560.9938730.9939160.996166
    spikein_reads1,9904,32898,7981844,9122,9449,304106,2564860,972
    percent_spikeins0.000110.000120.001560.001840.000230.000240.001720.00160
    original_ReadLength100100100100100100100100100100
    QC_StatusSubmittedSubmittedSubmittedSubmittedSubmittedSubmittedSubmittedSubmittedSubmittedSubmitted
    ID371405161316851947372406161416861948




    Data Submission Information
    BGKLV36-1BGKLV36-1BGKLV36-1BGKLV36-1BGKLV36-1BGKLV36-1BGKLV36-1BGKLV36-1BGKLV36-1BGKLV36-1BGKLV36-1BGKLV36-2BGKLV36-2BGKLV36-2BGKLV36-2BGKLV36-2BGKLV36-2BGKLV36-2
    ENCODE_aliasbrenton-graveley:NT-BGKLV36-Cbrenton-graveley:NT_BGKLV36-1brenton-graveley:L-NT-BGKLV36-1Cbrenton-graveley:NT-BGKLV36-1C_ACAGTG_ACBYWVANXX_L007_001.R1.fastq.gzbrenton-graveley:NT-BGKLV36-1C_ACAGTG_AHFKCFBCX2_L002_001.R1.fastq.gzbrenton-graveley:NT-BGKLV36-1C_ACAGTG_ACBYWVANXX_L007_001.R2.fastq.gzbrenton-graveley:NT-BGKLV36-1C_ACAGTG_AHFKCFBCX2_L002_001.R2.fastq.gzbrenton-graveley:NT_BGKLV36brenton-graveley:NT-BGKLV36-Bbrenton-graveley:NT-BGKLV36-Dbrenton-graveley:L-NT-BGKLV36-1Dbrenton-graveley:NT_BGKLV36-2brenton-graveley:L-NT-BGKLV36-2Cbrenton-graveley:NT-BGKLV36-2C_GCCAAT_ACBYWVANXX_L007_001.R1.fastq.gzbrenton-graveley:NT-BGKLV36-2C_GCCAAT_AHFKCFBCX2_L002_001.R1.fastq.gzbrenton-graveley:NT-BGKLV36-2C_GCCAAT_ACBYWVANXX_L007_001.R2.fastq.gzbrenton-graveley:NT-BGKLV36-2C_GCCAAT_AHFKCFBCX2_L002_001.R2.fastq.gzbrenton-graveley:L-NT-BGKLV36-2D
    ENCODE_accessionENCSR619PCRENCBS867NEOENCLB294JIKENCFF556JOBENCFF551NVUENCFF071AZOENCFF474WHBENCSR424QCWENCSR324WISENCSR898ABRENCLB881NBZENCBS359MVAENCLB062MKTENCFF495GHEENCFF274IFVENCFF314QYLENCFF885GOAENCLB298XGW
    object_typeexperimentbiosamplelibraryfile_fastq1file_fastq1file_fastq2file_fastq2experimentexperimentexperimentlibrarybiosamplelibraryfile_fastq1file_fastq1file_fastq2file_fastq2library
    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-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-seqknockdown followed by RNA-seq
    Sample_IDBGKLV36-1BGKLV36-1BGKLV36-1BGKLV36-1BGKLV36-1BGKLV36-1BGKLV36-1BGKLV36-1BGKLV36-1BGKLV36-1BGKLV36-1BGKLV36-2BGKLV36-2BGKLV36-2BGKLV36-2BGKLV36-2BGKLV36-2BGKLV36-2
    Sample NameNT-BGKLV36-1CNT_BGKLV36-1NT-BGKLV36-1CNT-BGKLV36-1CNT-BGKLV36-1CNT-BGKLV36-1CNT-BGKLV36-1CNT_BGKLV36-1NT-BGKLV36-1BNT-BGKLV36-1DNT-BGKLV36-1DNT_BGKLV36-2NT-BGKLV36-2CNT-BGKLV36-2CNT-BGKLV36-2CNT-BGKLV36-2CNT-BGKLV36-2CNT-BGKLV36-2D
    SelectedYesYesYesYesYesYesYesYesYesYesYesYesYesYesYesYesYesYes
    StatusReleasedReleasedReleasedReleasedReleasedReleasedReleasedReleasedReleasedReleasedReleasedReleasedReleasedReleasedReleasedReleasedReleasedReleased
    Status_Date2022-03-072019-03-132022-03-072022-03-072022-03-072022-03-072022-03-072022-03-072022-03-072022-03-072022-03-072019-03-132022-03-072022-03-072022-03-072022-03-072022-03-072022-03-07
    ProjectENCODE4ENCODE4ENCODE4ENCODE4ENCODE4ENCODE4ENCODE4ENCODE3ENCODE3ENCODE4ENCODE4ENCODE4ENCODE4ENCODE4ENCODE4ENCODE4ENCODE4ENCODE4
    LV36_biosample_protocol_WESLV40_library_protocolLV41_library_protocol_spikeinsLV36_biosample_protocol_WESLV40_library_protocolLV41_library_protocol_spikeins
    protocol_URLNT_BGKLV36-1.pdfL-NT-BGKLV36-1C.pdfL-NT-BGKLV36-1D.pdfNT_BGKLV36-2.pdfL-NT-BGKLV36-2C.pdfL-NT-BGKLV36-2D.pdf
    ID144514881544165716581690169131793206737573911489154516591660169216937392




    File Information
    file_namefile_pathfile_formatoutput_typeassay_typelabSample IDplatformread_lengthrun_typepaired_endassemblygenome_annotationderived_fromcontrolled_byProjectNoteFILE_ID
    NT_BGKLV36-1_GATCAG_L008_001.R1.fastq.gzENCODE_DATA/set36/fastqfastqreadsknockdown followed by RNA-seqGraveley Lab1613HiSeq2500100paired-ended1ENCODE321904
    NT_BGKLV36-1_GATCAG_L008_001.R2.fastq.gzENCODE_DATA/set36/fastqfastqreadsknockdown followed by RNA-seqGraveley Lab1613HiSeq2500100paired-ended2ENCODE321922
    NT_BGKLV36-1_Aligned.sortedByCoord.out.bamENCODE_DATA/set36/STAR_ENCORE2_file_linksbamalignmentsknockdown followed by RNA-seqGraveley Lab1613GRCh38V40NT_BGKLV36-1_GATCAG_L008_001.R1.fastq.gz,NT_BGKLV36-1_GATCAG_L008_001.R2.fastq.gzENCORE221940
    NT_BGKLV36-1_Signal.Unique.strand+.bwENCODE_DATA/set36/STAR_ENCORE2_file_linksbigWig+uniqueplus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab1613GRCh38V40NT_BGKLV36-1/Aligned.sortedByCoord.out.bamENCORE221958
    NT_BGKLV36-1_Signal.Unique.strand-.bwENCODE_DATA/set36/STAR_ENCORE2_file_linksbigWig-uniqueminus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab1613GRCh38V40NT_BGKLV36-1/Aligned.sortedByCoord.out.bamENCORE221976
    NT_BGKLV36-1_Signal.UniqueMultiple.strand+.bwENCODE_DATA/set36/STAR_ENCORE2_file_linksbigWig+allplus strand signal of all readsknockdown followed by RNA-seqGraveley Lab1613GRCh38V40NT_BGKLV36-1/Aligned.sortedByCoord.out.bamENCORE221994
    NT_BGKLV36-1_Signal.UniqueMultiple.strand-.bwENCODE_DATA/set36/STAR_ENCORE2_file_linksbigWig-allminus strand signal of all readsknockdown followed by RNA-seqGraveley Lab1613GRCh38V40NT_BGKLV36-1/Aligned.sortedByCoord.out.bamENCORE222012
    NT_BGKLV36-1_quant.sfENCODE_DATA/set36/salmon_ENCORE2transcript_quantificationtranscript quantificationsknockdown followed by RNA-seqGraveley Lab1613GRCh38V40NT_BGKLV36-1_GATCAG_L008_001.R1.fastq.gz,NT_BGKLV36-1_GATCAG_L008_001.R2.fastq.gzENCORE222030
    NT-BGKLV36-1B_ATCACG_ACBE67ANXX_L001_001.R1.fastq.gzENCODE_DATA/set39_K/fastqfastqreadsknockdown followed by RNA-seqGraveley Lab1685HiSeq2500100paired-ended1ENCODE322472
    NT-BGKLV36-1B_ATCACG_ACBE67ANXX_L001_001.R2.fastq.gzENCODE_DATA/set39_K/fastqfastqreadsknockdown followed by RNA-seqGraveley Lab1685HiSeq2500100paired-ended2ENCODE322508
    NT-BGKLV36-1B_Aligned.sortedByCoord.out.bamENCODE_DATA/set39_K/STAR_ENCORE2_file_linksbamalignmentsknockdown followed by RNA-seqGraveley Lab1685GRCh38V40NT-BGKLV36-1B_ATCACG_ACBE67ANXX_L001_001.R1.fastq.gz,NT-BGKLV36-1B_ATCACG_ACBE67ANXX_L001_001.R2.fastq.gzENCORE222544
    NT-BGKLV36-1B_Signal.Unique.strand+.bwENCODE_DATA/set39_K/STAR_ENCORE2_file_linksbigWig+uniqueplus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab1685GRCh38V40NT-BGKLV36-1B/Aligned.sortedByCoord.out.bamENCORE222580
    NT-BGKLV36-1B_Signal.Unique.strand-.bwENCODE_DATA/set39_K/STAR_ENCORE2_file_linksbigWig-uniqueminus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab1685GRCh38V40NT-BGKLV36-1B/Aligned.sortedByCoord.out.bamENCORE222616
    NT-BGKLV36-1B_Signal.UniqueMultiple.strand+.bwENCODE_DATA/set39_K/STAR_ENCORE2_file_linksbigWig+allplus strand signal of all readsknockdown followed by RNA-seqGraveley Lab1685GRCh38V40NT-BGKLV36-1B/Aligned.sortedByCoord.out.bamENCORE222652
    NT-BGKLV36-1B_Signal.UniqueMultiple.strand-.bwENCODE_DATA/set39_K/STAR_ENCORE2_file_linksbigWig-allminus strand signal of all readsknockdown followed by RNA-seqGraveley Lab1685GRCh38V40NT-BGKLV36-1B/Aligned.sortedByCoord.out.bamENCORE222688
    NT-BGKLV36-1B_quant.sfENCODE_DATA/set39_K/salmon_ENCORE2transcript_quantificationtranscript quantificationsknockdown followed by RNA-seqGraveley Lab1685GRCh38V40NT-BGKLV36-1B_ATCACG_ACBE67ANXX_L001_001.R1.fastq.gz,NT-BGKLV36-1B_ATCACG_ACBE67ANXX_L001_001.R2.fastq.gzENCORE222724
    NT-BGKLV36-1C_L001_001.R1.fastq.gzENCODE_DATA/set40_K/fastqfastqreadsknockdown followed by RNA-seqGraveley Lab371HiSeq2500100paired-ended1ENCODE423453
    NT-BGKLV36-1C_L001_001.R2.fastq.gzENCODE_DATA/set40_K/fastqfastqreadsknockdown followed by RNA-seqGraveley Lab371HiSeq2500100paired-ended2ENCODE423462
    NT-BGKLV36-1C_Aligned.sortedByCoord.out.bamENCODE_DATA/set40_K/STAR_ENCORE2_file_linksbamalignmentsknockdown followed by RNA-seqGraveley Lab371GRCh38V40NT-BGKLV36-1C_L001_001.R1.fastq.gz,NT-BGKLV36-1C_L001_001.R2.fastq.gzENCORE223484
    NT-BGKLV36-1C_Signal.Unique.strand+.bwENCODE_DATA/set40_K/STAR_ENCORE2_file_linksbigWig+uniqueplus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab371GRCh38V40NT-BGKLV36-1C/Aligned.sortedByCoord.out.bamENCORE223518
    NT-BGKLV36-1C_Signal.Unique.strand-.bwENCODE_DATA/set40_K/STAR_ENCORE2_file_linksbigWig-uniqueminus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab371GRCh38V40NT-BGKLV36-1C/Aligned.sortedByCoord.out.bamENCORE223552
    NT-BGKLV36-1C_Signal.UniqueMultiple.strand+.bwENCODE_DATA/set40_K/STAR_ENCORE2_file_linksbigWig+allplus strand signal of all readsknockdown followed by RNA-seqGraveley Lab371GRCh38V40NT-BGKLV36-1C/Aligned.sortedByCoord.out.bamENCORE223586
    NT-BGKLV36-1C_Signal.UniqueMultiple.strand-.bwENCODE_DATA/set40_K/STAR_ENCORE2_file_linksbigWig-allminus strand signal of all readsknockdown followed by RNA-seqGraveley Lab371GRCh38V40NT-BGKLV36-1C/Aligned.sortedByCoord.out.bamENCORE223620
    NT-BGKLV36-1C_quant.sfENCODE_DATA/set40_K/salmon_ENCORE2transcript_quantificationtranscript quantificationsknockdown followed by RNA-seqGraveley Lab371GRCh38V40NT-BGKLV36-1C_L001_001.R1.fastq.gz,NT-BGKLV36-1C_L001_001.R2.fastq.gzENCORE223654
    NT-BGKLV36-1D_ATCACG_HJMK5BCX2_L001_R1_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set41_spikeins/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab1947HiSeq2500100paired-ended1ENCORE227417
    NT-BGKLV36-1D_ATCACG_HJMK5BCX2_L001_R2_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set41_spikeins/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab1947HiSeq2500100paired-ended2ENCORE227445
    NT-BGKLV36-1D_Aligned.sortedByCoord.out.bamENCODE_DATA/set41_spikeins/STAR_ENCORE2_trimmed_file_linksbamalignmentsknockdown followed by RNA-seqGraveley Lab1947GRCh38V40NT-BGKLV36-1D_ATCACG_HJMK5BCX2_L001_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGKLV36-1D_ATCACG_HJMK5BCX2_L001_R2_001.filtered.trimmed.paired.fastq.gzENCORE227473
    NT-BGKLV36-1D_Signal.Unique.strand+.bwENCODE_DATA/set41_spikeins/STAR_ENCORE2_trimmed_file_linksbigWig+uniqueplus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab1947GRCh38V40NT-BGKLV36-1D/Aligned.sortedByCoord.out.bamENCORE227501
    NT-BGKLV36-1D_Signal.Unique.strand-.bwENCODE_DATA/set41_spikeins/STAR_ENCORE2_trimmed_file_linksbigWig-uniqueminus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab1947GRCh38V40NT-BGKLV36-1D/Aligned.sortedByCoord.out.bamENCORE227529
    NT-BGKLV36-1D_Signal.UniqueMultiple.strand+.bwENCODE_DATA/set41_spikeins/STAR_ENCORE2_trimmed_file_linksbigWig+allplus strand signal of all readsknockdown followed by RNA-seqGraveley Lab1947GRCh38V40NT-BGKLV36-1D/Aligned.sortedByCoord.out.bamENCORE227557
    NT-BGKLV36-1D_Signal.UniqueMultiple.strand-.bwENCODE_DATA/set41_spikeins/STAR_ENCORE2_trimmed_file_linksbigWig-allminus strand signal of all readsknockdown followed by RNA-seqGraveley Lab1947GRCh38V40NT-BGKLV36-1D/Aligned.sortedByCoord.out.bamENCORE227585
    NT-BGKLV36-1D_quant.sfENCODE_DATA/set41_spikeins/salmon_ENCORE2transcript_quantificationtranscript quantificationsknockdown followed by RNA-seqGraveley Lab1947GRCh38V40NT-BGKLV36-1D_ATCACG_HJMK5BCX2_L001_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGKLV36-1D_ATCACG_HJMK5BCX2_L001_R2_001.filtered.trimmed.paired.fastq.gzENCORE227613
    NT_BGKLV36-2_TAGCTT_L008_001.R1.fastq.gzENCODE_DATA/set36/fastqfastqreadsknockdown followed by RNA-seqGraveley Lab1614HiSeq2500100paired-ended1ENCODE321905
    NT_BGKLV36-2_TAGCTT_L008_001.R2.fastq.gzENCODE_DATA/set36/fastqfastqreadsknockdown followed by RNA-seqGraveley Lab1614HiSeq2500100paired-ended2ENCODE321923
    NT_BGKLV36-2_Aligned.sortedByCoord.out.bamENCODE_DATA/set36/STAR_ENCORE2_file_linksbamalignmentsknockdown followed by RNA-seqGraveley Lab1614GRCh38V40NT_BGKLV36-2_TAGCTT_L008_001.R1.fastq.gz,NT_BGKLV36-2_TAGCTT_L008_001.R2.fastq.gzENCORE221941
    NT_BGKLV36-2_Signal.Unique.strand+.bwENCODE_DATA/set36/STAR_ENCORE2_file_linksbigWig+uniqueplus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab1614GRCh38V40NT_BGKLV36-2/Aligned.sortedByCoord.out.bamENCORE221959
    NT_BGKLV36-2_Signal.Unique.strand-.bwENCODE_DATA/set36/STAR_ENCORE2_file_linksbigWig-uniqueminus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab1614GRCh38V40NT_BGKLV36-2/Aligned.sortedByCoord.out.bamENCORE221977
    NT_BGKLV36-2_Signal.UniqueMultiple.strand+.bwENCODE_DATA/set36/STAR_ENCORE2_file_linksbigWig+allplus strand signal of all readsknockdown followed by RNA-seqGraveley Lab1614GRCh38V40NT_BGKLV36-2/Aligned.sortedByCoord.out.bamENCORE221995
    NT_BGKLV36-2_Signal.UniqueMultiple.strand-.bwENCODE_DATA/set36/STAR_ENCORE2_file_linksbigWig-allminus strand signal of all readsknockdown followed by RNA-seqGraveley Lab1614GRCh38V40NT_BGKLV36-2/Aligned.sortedByCoord.out.bamENCORE222013
    NT_BGKLV36-2_quant.sfENCODE_DATA/set36/salmon_ENCORE2transcript_quantificationtranscript quantificationsknockdown followed by RNA-seqGraveley Lab1614GRCh38V40NT_BGKLV36-2_TAGCTT_L008_001.R1.fastq.gz,NT_BGKLV36-2_TAGCTT_L008_001.R2.fastq.gzENCORE222031
    NT-BGKLV36-2B_CGATGT_ACBE67ANXX_L001_001.R1.fastq.gzENCODE_DATA/set39_K/fastqfastqreadsknockdown followed by RNA-seqGraveley Lab1686HiSeq2500100paired-ended1ENCODE322473
    NT-BGKLV36-2B_CGATGT_ACBE67ANXX_L001_001.R2.fastq.gzENCODE_DATA/set39_K/fastqfastqreadsknockdown followed by RNA-seqGraveley Lab1686HiSeq2500100paired-ended2ENCODE322509
    NT-BGKLV36-2B_Aligned.sortedByCoord.out.bamENCODE_DATA/set39_K/STAR_ENCORE2_file_linksbamalignmentsknockdown followed by RNA-seqGraveley Lab1686GRCh38V40NT-BGKLV36-2B_CGATGT_ACBE67ANXX_L001_001.R1.fastq.gz,NT-BGKLV36-2B_CGATGT_ACBE67ANXX_L001_001.R2.fastq.gzENCORE222545
    NT-BGKLV36-2B_Signal.Unique.strand+.bwENCODE_DATA/set39_K/STAR_ENCORE2_file_linksbigWig+uniqueplus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab1686GRCh38V40NT-BGKLV36-2B/Aligned.sortedByCoord.out.bamENCORE222581
    NT-BGKLV36-2B_Signal.Unique.strand-.bwENCODE_DATA/set39_K/STAR_ENCORE2_file_linksbigWig-uniqueminus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab1686GRCh38V40NT-BGKLV36-2B/Aligned.sortedByCoord.out.bamENCORE222617
    NT-BGKLV36-2B_Signal.UniqueMultiple.strand+.bwENCODE_DATA/set39_K/STAR_ENCORE2_file_linksbigWig+allplus strand signal of all readsknockdown followed by RNA-seqGraveley Lab1686GRCh38V40NT-BGKLV36-2B/Aligned.sortedByCoord.out.bamENCORE222653
    NT-BGKLV36-2B_Signal.UniqueMultiple.strand-.bwENCODE_DATA/set39_K/STAR_ENCORE2_file_linksbigWig-allminus strand signal of all readsknockdown followed by RNA-seqGraveley Lab1686GRCh38V40NT-BGKLV36-2B/Aligned.sortedByCoord.out.bamENCORE222689
    NT-BGKLV36-2B_quant.sfENCODE_DATA/set39_K/salmon_ENCORE2transcript_quantificationtranscript quantificationsknockdown followed by RNA-seqGraveley Lab1686GRCh38V40NT-BGKLV36-2B_CGATGT_ACBE67ANXX_L001_001.R1.fastq.gz,NT-BGKLV36-2B_CGATGT_ACBE67ANXX_L001_001.R2.fastq.gzENCORE222725
    NT-BGKLV36-2C_L001_001.R1.fastq.gzENCODE_DATA/set40_K/fastqfastqreadsknockdown followed by RNA-seqGraveley Lab372HiSeq2500100paired-ended1ENCODE423454
    NT-BGKLV36-2C_L001_001.R2.fastq.gzENCODE_DATA/set40_K/fastqfastqreadsknockdown followed by RNA-seqGraveley Lab372HiSeq2500100paired-ended2ENCODE423463
    NT-BGKLV36-2C_Aligned.sortedByCoord.out.bamENCODE_DATA/set40_K/STAR_ENCORE2_file_linksbamalignmentsknockdown followed by RNA-seqGraveley Lab372GRCh38V40NT-BGKLV36-2C_L001_001.R1.fastq.gz,NT-BGKLV36-2C_L001_001.R2.fastq.gzENCORE223485
    NT-BGKLV36-2C_Signal.Unique.strand+.bwENCODE_DATA/set40_K/STAR_ENCORE2_file_linksbigWig+uniqueplus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab372GRCh38V40NT-BGKLV36-2C/Aligned.sortedByCoord.out.bamENCORE223519
    NT-BGKLV36-2C_Signal.Unique.strand-.bwENCODE_DATA/set40_K/STAR_ENCORE2_file_linksbigWig-uniqueminus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab372GRCh38V40NT-BGKLV36-2C/Aligned.sortedByCoord.out.bamENCORE223553
    NT-BGKLV36-2C_Signal.UniqueMultiple.strand+.bwENCODE_DATA/set40_K/STAR_ENCORE2_file_linksbigWig+allplus strand signal of all readsknockdown followed by RNA-seqGraveley Lab372GRCh38V40NT-BGKLV36-2C/Aligned.sortedByCoord.out.bamENCORE223587
    NT-BGKLV36-2C_Signal.UniqueMultiple.strand-.bwENCODE_DATA/set40_K/STAR_ENCORE2_file_linksbigWig-allminus strand signal of all readsknockdown followed by RNA-seqGraveley Lab372GRCh38V40NT-BGKLV36-2C/Aligned.sortedByCoord.out.bamENCORE223621
    NT-BGKLV36-2C_quant.sfENCODE_DATA/set40_K/salmon_ENCORE2transcript_quantificationtranscript quantificationsknockdown followed by RNA-seqGraveley Lab372GRCh38V40NT-BGKLV36-2C_L001_001.R1.fastq.gz,NT-BGKLV36-2C_L001_001.R2.fastq.gzENCORE223655
    NT-BGKLV36-2D_NGATGT_HJMK5BCX2_L001_R1_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set41_spikeins/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab1948HiSeq2500100paired-ended1ENCORE227418
    NT-BGKLV36-2D_NGATGT_HJMK5BCX2_L001_R2_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set41_spikeins/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab1948HiSeq2500100paired-ended2ENCORE227446
    NT-BGKLV36-2D_Aligned.sortedByCoord.out.bamENCODE_DATA/set41_spikeins/STAR_ENCORE2_trimmed_file_linksbamalignmentsknockdown followed by RNA-seqGraveley Lab1948GRCh38V40NT-BGKLV36-2D_NGATGT_HJMK5BCX2_L001_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGKLV36-2D_NGATGT_HJMK5BCX2_L001_R2_001.filtered.trimmed.paired.fastq.gzENCORE227474
    NT-BGKLV36-2D_Signal.Unique.strand+.bwENCODE_DATA/set41_spikeins/STAR_ENCORE2_trimmed_file_linksbigWig+uniqueplus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab1948GRCh38V40NT-BGKLV36-2D/Aligned.sortedByCoord.out.bamENCORE227502
    NT-BGKLV36-2D_Signal.Unique.strand-.bwENCODE_DATA/set41_spikeins/STAR_ENCORE2_trimmed_file_linksbigWig-uniqueminus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab1948GRCh38V40NT-BGKLV36-2D/Aligned.sortedByCoord.out.bamENCORE227530
    NT-BGKLV36-2D_Signal.UniqueMultiple.strand+.bwENCODE_DATA/set41_spikeins/STAR_ENCORE2_trimmed_file_linksbigWig+allplus strand signal of all readsknockdown followed by RNA-seqGraveley Lab1948GRCh38V40NT-BGKLV36-2D/Aligned.sortedByCoord.out.bamENCORE227558
    NT-BGKLV36-2D_Signal.UniqueMultiple.strand-.bwENCODE_DATA/set41_spikeins/STAR_ENCORE2_trimmed_file_linksbigWig-allminus strand signal of all readsknockdown followed by RNA-seqGraveley Lab1948GRCh38V40NT-BGKLV36-2D/Aligned.sortedByCoord.out.bamENCORE227586
    NT-BGKLV36-2D_quant.sfENCODE_DATA/set41_spikeins/salmon_ENCORE2transcript_quantificationtranscript quantificationsknockdown followed by RNA-seqGraveley Lab1948GRCh38V40NT-BGKLV36-2D_NGATGT_HJMK5BCX2_L001_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGKLV36-2D_NGATGT_HJMK5BCX2_L001_R2_001.filtered.trimmed.paired.fastq.gzENCORE227614