non-target      CRISPR in HepG2      Control: NT-BGHcLV22

General Information

List KD experiments controlled by BGHcLV22-1 and BGHcLV22-2


NT-BGHcLV22-1,NT-BGHcLV22-2:
  • CACTIN-BGHcLV22-HepG2
  • CHTOP-BGHcLV22-HepG2
  • CNOT10-BGHcLV22-HepG2
  • CSTF1-BGHcLV22-HepG2
  • EXOSC10-BGHcLV22-HepG2
  • EXOSC2-BGHcLV22-HepG2
  • LSM7-BGHcLV22-HepG2
  • METTL3-BGHcLV22-HepG2
  • PAN2-BGHcLV22-HepG2
  • PRPF3-BGHcLV22-HepG2
  • RPL18-BGHcLV22-HepG2
  • SART1-BGHcLV22-HepG2
  • SNRPC-BGHcLV22-HepG2
  • WBP11-BGHcLV22-HepG2




    • Experiment Information (Status: Released)
    BGHcLV22-1BGHcLV22-2
    idx594595
    TRCN#_or_BGC#BGC#0000000BGC#0000000
    shRNA_or_gRNA_sequenceCAGTCGGGCGTCATCATGATCAGTCGGGCGTCATCATGAT
    PAM
    Namenon-targetnon-target
    Sample_IDBGHcLV22-1BGHcLV22-2
    transduction_Date8/22/208/22/20
    daysD6D6
    RBP_namenon-targetnon-target
    qPCR_result
    Ave_qPCR
    RT-qPCR_primer-F
    RT-qPCR_primer-R
    protein_conc02535
    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_date11/24/2011/24/20
    repeat_library
    Note
    ID67496750




    Western Blot
    Western Blot info was not avaliable




    Experiment Status
    BGHcLV22-1BGHcLV22-2
    Sample_IDBGHcLV22-1BGHcLV22-2
    Sample Name
    Sample NameNT-BGHcLV22-1NT-BGHcLV22-2
    RBPnon-targetnon-target
    Cell_LineHepG2HepG2
    Exp UID
    StatusReleasedReleased
    Status_date2021-06-022021-06-02
    ProjectENCODE4ENCODE4
    Note
    ID73657366




    Library-Prep Information
    BGHcLV22-1BGHcLV22-2
    Sample #12
    Sample NameNT-BGHcLV22-1NT-BGHcLV22-2
    Sample_Name_Alias
    Index Well PositionA01B01
    Index_tableIDT_UniqueDualIndex_96IDT_UniqueDualIndex_96
    LibPrep_date2020-11-242020-11-24
    Lib_IDLib-201124Lib-201124
    Tecan_Location
    Tecan
    Tecan_date
    Size_bp288286
    Peak_Molarity67.70251.00
    libSampleQC_DNA_WellDNA_Library_set46/set1/A1.pngDNA_Library_set46/set1/B1.png
    RIN9.39.2
    libSample_RNA_WellRNA_Library_set46/set1/A9.pngRNA_Library_set46/set3/C12.png
    SampleQC_methodTapeStationTapeStation
    SampleQC_date2020-12-042020-12-04
    Sample_IDBGHcLV22-1BGHcLV22-2
    RBPNTNT
    Batch_IDBGHcLV22BGHcLV22
    WB_result0.0000.000
    Library DescriptionTruSeq mRNATruSeq mRNA
    Repeat_Library_Suffix
    Lib_StatusSendToSequenceSendToSequence
    ProjectENCODE4ENCODE4
    ID13761377




    Sequencing Information
    BGHcLV22-1BGHcLV22-2
    Sample_IDBGHcLV22-1BGHcLV22-2
    Sample NameNT-BGHcLV22-1NT-BGHcLV22-2
    Pool IDPool-201204Pool-201204
    LocalServer_folderset46_Hset46_H
    total_reads234,188,176223,844,476
    total_aligned_reads186,825,056182,347,384
    unique_aligned_reads175,043,328170,978,044
    percent_uniqueAligned0.747450.76383
    correlation_replicates0.9955800.995580
    spikein_reads126,134104,700
    percent_spikeins0.000540.00047
    original_ReadLength101101
    QC_StatusSubmittedSubmitted
    ID482483




    Data Submission Information
    BGHcLV22-1BGHcLV22-1BGHcLV22-1BGHcLV22-1BGHcLV22-1BGHcLV22-2BGHcLV22-2BGHcLV22-2BGHcLV22-2
    ENCODE_aliasbrenton-graveley:NT-BGHcLV22brenton-graveley:NT-BGHcLV22-1brenton-graveley:L-NT-BGHcLV22-1brenton-graveley:NT-BGHcLV22-1_CCGCGGTT+CTAGCGCT_HVKGLDSXY_L001_R1_001.filtered.trimmed.paired.fastq.gzbrenton-graveley:NT-BGHcLV22-1_CCGCGGTT+CTAGCGCT_HVKGLDSXY_L001_R2_001.filtered.trimmed.paired.fastq.gzbrenton-graveley:NT-BGHcLV22-2brenton-graveley:L-NT-BGHcLV22-2brenton-graveley:NT-BGHcLV22-2_TTATAACC+TCGATATC_HVKGLDSXY_L001_R1_001.filtered.trimmed.paired.fastq.gzbrenton-graveley:NT-BGHcLV22-2_TTATAACC+TCGATATC_HVKGLDSXY_L001_R2_001.filtered.trimmed.paired.fastq.gz
    ENCODE_accessionENCSR704VPLENCBS004RTOENCLB693OVDENCFF136JINENCFF333VBKENCBS723CIZENCLB563PHNENCFF681YRXENCFF076QNU
    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_IDBGHcLV22-1BGHcLV22-1BGHcLV22-1BGHcLV22-1BGHcLV22-1BGHcLV22-2BGHcLV22-2BGHcLV22-2BGHcLV22-2
    Sample NameNT-BGHcLV22-1NT-BGHcLV22-1NT-BGHcLV22-1NT-BGHcLV22-1NT-BGHcLV22-1NT-BGHcLV22-2NT-BGHcLV22-2NT-BGHcLV22-2NT-BGHcLV22-2
    SelectedYesYesYesYesYesYesYesYesYes
    StatusReleasedReleasedReleasedReleasedReleasedReleasedReleasedReleasedReleased
    Status_Date2021-06-022021-06-022021-06-022021-06-022021-06-022021-06-022021-06-022021-06-022021-06-02
    ProjectENCODE4ENCODE4ENCODE4ENCODE4ENCODE4ENCODE4ENCODE4ENCODE4ENCODE4
    LV46H_biosample_protocolLV46H_library_protocolLV46H_biosample_protocolLV46H_library_protocol
    protocol_URLNT-BGHcLV22-1.pdfL-NT-BGHcLV22-1.pdfNT-BGHcLV22-2.pdfL-NT-BGHcLV22-2.pdf
    ID239524272491255525852428249225562586




    File Information
    file_namefile_pathfile_formatoutput_typeassay_typelabSample IDplatformread_lengthrun_typepaired_endassemblygenome_annotationderived_fromcontrolled_byProjectNoteFILE_ID
    NT-BGHcLV22-1_CCGCGGTT+CTAGCGCT_HVKGLDSXY_L001_R1_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set46_H/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab482NovaSeq6000100paired-ended1ENCODE41364
    NT-BGHcLV22-1_CCGCGGTT+CTAGCGCT_HVKGLDSXY_L001_R2_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set46_H/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab482NovaSeq6000100paired-ended2ENCODE41428
    NT-BGHcLV22-1_Aligned.sortedByCoord.out.bamENCODE_DATA/set46_H/STAR_ENCORE2_trimmed_file_linksbamalignmentsknockdown followed by RNA-seqGraveley Lab482GRCh38V40NT-BGHcLV22-1_CCGCGGTT+CTAGCGCT_HVKGLDSXY_L001_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV22-1_CCGCGGTT+CTAGCGCT_HVKGLDSXY_L001_R2_001.filtered.trimmed.paired.fastq.gzENCORE225267
    NT-BGHcLV22-1_quant.sfENCODE_DATA/set46_H/salmon_ENCORE2transcript_quantificationtranscript quantificationsknockdown followed by RNA-seqGraveley Lab482GRCh38V40NT-BGHcLV22-1_CCGCGGTT+CTAGCGCT_HVKGLDSXY_L001_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV22-1_CCGCGGTT+CTAGCGCT_HVKGLDSXY_L001_R2_001.filtered.trimmed.paired.fastq.gzENCORE225365
    NT-BGHcLV22-1_Signal.Unique.strand+.bwENCODE_DATA/set46_H/STAR_ENCORE2_trimmed_file_linksbigWig+uniqueplus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab482GRCh38V40NT-BGHcLV22-1/Aligned.sortedByCoord.out.bamENCORE226015
    NT-BGHcLV22-1_Signal.Unique.strand-.bwENCODE_DATA/set46_H/STAR_ENCORE2_trimmed_file_linksbigWig-uniqueminus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab482GRCh38V40NT-BGHcLV22-1/Aligned.sortedByCoord.out.bamENCORE226045
    NT-BGHcLV22-1_Signal.UniqueMultiple.strand+.bwENCODE_DATA/set46_H/STAR_ENCORE2_trimmed_file_linksbigWig+allplus strand signal of all readsknockdown followed by RNA-seqGraveley Lab482GRCh38V40NT-BGHcLV22-1/Aligned.sortedByCoord.out.bamENCORE226075
    NT-BGHcLV22-1_Signal.UniqueMultiple.strand-.bwENCODE_DATA/set46_H/STAR_ENCORE2_trimmed_file_linksbigWig-allminus strand signal of all readsknockdown followed by RNA-seqGraveley Lab482GRCh38V40NT-BGHcLV22-1/Aligned.sortedByCoord.out.bamENCORE226105
    NT-BGHcLV22-2_TTATAACC+TCGATATC_HVKGLDSXY_L001_R1_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set46_H/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab483NovaSeq6000100paired-ended1ENCODE41365
    NT-BGHcLV22-2_TTATAACC+TCGATATC_HVKGLDSXY_L001_R2_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set46_H/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab483NovaSeq6000100paired-ended2ENCODE41429
    NT-BGHcLV22-2_Aligned.sortedByCoord.out.bamENCODE_DATA/set46_H/STAR_ENCORE2_trimmed_file_linksbamalignmentsknockdown followed by RNA-seqGraveley Lab483GRCh38V40NT-BGHcLV22-2_TTATAACC+TCGATATC_HVKGLDSXY_L001_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV22-2_TTATAACC+TCGATATC_HVKGLDSXY_L001_R2_001.filtered.trimmed.paired.fastq.gzENCORE225268
    NT-BGHcLV22-2_quant.sfENCODE_DATA/set46_H/salmon_ENCORE2transcript_quantificationtranscript quantificationsknockdown followed by RNA-seqGraveley Lab483GRCh38V40NT-BGHcLV22-2_TTATAACC+TCGATATC_HVKGLDSXY_L001_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV22-2_TTATAACC+TCGATATC_HVKGLDSXY_L001_R2_001.filtered.trimmed.paired.fastq.gzENCORE225366
    NT-BGHcLV22-2_Signal.Unique.strand+.bwENCODE_DATA/set46_H/STAR_ENCORE2_trimmed_file_linksbigWig+uniqueplus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab483GRCh38V40NT-BGHcLV22-2/Aligned.sortedByCoord.out.bamENCORE226016
    NT-BGHcLV22-2_Signal.Unique.strand-.bwENCODE_DATA/set46_H/STAR_ENCORE2_trimmed_file_linksbigWig-uniqueminus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab483GRCh38V40NT-BGHcLV22-2/Aligned.sortedByCoord.out.bamENCORE226046
    NT-BGHcLV22-2_Signal.UniqueMultiple.strand+.bwENCODE_DATA/set46_H/STAR_ENCORE2_trimmed_file_linksbigWig+allplus strand signal of all readsknockdown followed by RNA-seqGraveley Lab483GRCh38V40NT-BGHcLV22-2/Aligned.sortedByCoord.out.bamENCORE226076
    NT-BGHcLV22-2_Signal.UniqueMultiple.strand-.bwENCODE_DATA/set46_H/STAR_ENCORE2_trimmed_file_linksbigWig-allminus strand signal of all readsknockdown followed by RNA-seqGraveley Lab483GRCh38V40NT-BGHcLV22-2/Aligned.sortedByCoord.out.bamENCORE226106