BARD1      CRISPR in HepG2      Control: NT-BGHcLV25

General Information
RBPBARD1
Cell_LineHepG2
MethodCRISPR
Exp_NameBARD1-BGHcLV25-HepG2
ENCODE_series_IDENCSR215QTI
Batch_IDBGHcLV25
Pool IDPool-210622
Local_Set_Nameset47
ENCODE_KD_Exp_IDENCSR104RTM
ENCODE_CN_Exp_IDENCSR953VMB
Rep1BARD1-BGHcLV25-27
Rep2BARD1-BGHcLV25-28
CN1NT-BGHcLV25-1
CN2NT-BGHcLV25-2
Rep1_qPCR
Rep2_qPCR
Rep1_WB76.4
Rep2_WB70.8
Antibody Cat#PA5-85707
Antibody Lot#LOT# UK2890668D
Antibody DCC IDENCAB064JSL
StatusReleased
ProjectENCODE4
ID19




Experiment Information (Status: Released)
BGHcLV25-27BGHcLV25-28
idx734735
TRCN#_or_BGC#BGC#0000607BGC#0000607
shRNA_or_gRNA_sequenceTCGTTCCCGGAGCGGATCCTTCGTTCCCGGAGCGGATCCT
PAMCGGCGG
NameBARD1_96BARD1_96
Sample_IDBGHcLV25-27BGHcLV25-28
transduction_Date2/18/212/18/21
daysD6D6
RBP_nameBARD1BARD1
qPCR_result
Ave_qPCR
RT-qPCR_primer-F
RT-qPCR_primer-R
protein_conc46714808
WB_result76.470.8
Ave_WB73.6?
WB_DONE_date3/1/21position is low
MW86.6KD
IPRabbit / I
antibody_Cat#PA5-85707LOT# UK2890668D
Antibody DCC ID
submitted_to_DCC_date
Rep1_TPM00
Rep2_TPM00
ActionReadyReady
Library_start_date06/16/2106/16/21
repeat_library
Note
ID68936894




Western Blot
Western Blot info was not avaliable




Experiment Status
BGHcLV25-27BGHcLV25-28
Sample_IDBGHcLV25-27BGHcLV25-28
Sample Name
Sample NameBARD1-BGHcLV25-27BARD1-BGHcLV25-28
RBPBARD1BARD1
Cell_LineHepG2HepG2
Exp UID
StatusReleasedReleased
Status_date2021-11-042021-11-04
ProjectENCODE4ENCODE4
Note
ID78437844




Library-Prep Information
BGHcLV25-27BGHcLV25-28
Sample #4142
Sample NameBARD1-BGHcLV25-27BARD1-BGHcLV25-28
Sample_Name_Alias
Index Well PositionA12B12
Index_tableIDT_UniqueDualIndex_96IDT_UniqueDualIndex_96
LibPrep_date2021-06-042021-06-04
Lib_IDLib-210604Lib-210604
Tecan_Location
Tecan
Tecan_date
Size_bp311305
Peak_Molarity90.70148.00
libSampleQC_DNA_WellDNA_Library_set47/set1/A9.pngDNA_Library_set47/set1/B9.png
RIN9.89.8
libSample_RNA_WellRNA_Library_set47/set1/A6.pngRNA_Library_set47/set1/B6.png
SampleQC_methodTapeStationTapeStation
SampleQC_date2021-06-222021-06-22
Sample_IDBGHcLV25-27BGHcLV25-28
RBPBARD1BARD1
Batch_IDBGHcLV25BGHcLV25
WB_result76.40070.800
Library DescriptionTruSeq mRNATruSeq mRNA
Repeat_Library_Suffix
Lib_StatusSendToSequenceSendToSequence
ProjectENCODE4ENCODE4
ID15041505




Sequencing Information
BGHcLV25-27BGHcLV25-28
Sample_IDBGHcLV25-27BGHcLV25-28
Sample NameBARD1-BGHcLV25-27BARD1-BGHcLV25-28
Pool IDPool-210622Pool-210622
LocalServer_folderset47set47
total_reads121,544,99085,193,886
total_aligned_reads113,706,01279,550,270
unique_aligned_reads107,176,41274,975,392
percent_uniqueAligned0.881780.88006
correlation_replicates0.9921000.992100
spikein_reads73,17032,086
percent_spikeins0.000600.00038
original_ReadLength101101
QC_StatusSubmittedSubmitted
ID586587




Data Submission Information
BGHcLV25-27BGHcLV25-27BGHcLV25-27BGHcLV25-27BGHcLV25-27BGHcLV25-27BGHcLV25-28BGHcLV25-28BGHcLV25-28BGHcLV25-28
ENCODE_aliasbrenton-graveley:BARD1-BGHcLV25brenton-graveley:BARD1-BGHcLV25-27brenton-graveley:L-BARD1-BGHcLV25-27brenton-graveley:BARD1-BGHcLV25-27_S101_L002_R1_001.filtered.trimmed.paired.fastq.gzbrenton-graveley:BARD1-BGHcLV25-27_S101_L002_R2_001.filtered.trimmed.paired.fastq.gzbrenton-graveley:BARD1-BGHcLV25-HepG2brenton-graveley:BARD1-BGHcLV25-28brenton-graveley:L-BARD1-BGHcLV25-28brenton-graveley:BARD1-BGHcLV25-28_S102_L002_R1_001.filtered.trimmed.paired.fastq.gzbrenton-graveley:BARD1-BGHcLV25-28_S102_L002_R2_001.filtered.trimmed.paired.fastq.gz
ENCODE_accessionENCSR104RTMENCBS297YGWENCLB149OCIENCFF490TFVENCFF841ZJCENCSR215QTIENCBS993GEAENCLB838OVRENCFF616VEWENCFF400YQU
object_typeexperimentbiosamplelibraryfile_fastq1file_fastq2gene_silencing_seriesbiosamplelibraryfile_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-seqknockdown followed by RNA-seq
Sample_IDBGHcLV25-27BGHcLV25-27BGHcLV25-27BGHcLV25-27BGHcLV25-27BGHcLV25-27BGHcLV25-28BGHcLV25-28BGHcLV25-28BGHcLV25-28
Sample NameBARD1-BGHcLV25-27BARD1-BGHcLV25-27BARD1-BGHcLV25-27BARD1-BGHcLV25-27BARD1-BGHcLV25-27BARD1-BGHcLV25-27BARD1-BGHcLV25-28BARD1-BGHcLV25-28BARD1-BGHcLV25-28BARD1-BGHcLV25-28
SelectedYesNoYesYesYesYesNoYesYesYes
StatusReleasedReleasedReleasedReleasedReleasedReleasedReleasedReleasedReleasedReleased
Status_Date2021-11-042021-11-042021-11-042021-11-042021-11-042022-03-022021-11-042021-11-042021-11-042021-11-04
ProjectENCODE4ENCODE4ENCODE4ENCODE4ENCODE4ENCODE4ENCODE4ENCODE4ENCODE4ENCODE4
LV47_library_protocolLV47_library_protocol
protocol_URLL-BARD1-BGHcLV25-27.pdfL-BARD1-BGHcLV25-28.pdf
ID3255329733413385342970973298334233863430




File Information
file_namefile_pathfile_formatoutput_typeassay_typelabSample IDplatformread_lengthrun_typepaired_endassemblygenome_annotationderived_fromcontrolled_byProjectNoteFILE_ID
BARD1-BGHcLV25-27_S101_L002_R1_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set47/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab586NovaSeq6000100paired-ended1NT-BGHcLV25-1_S85_L002_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV25-2_S86_L002_R1_001.filtered.trimmed.paired.fastq.gzENCODE43710
BARD1-BGHcLV25-27_S101_L002_R2_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set47/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab586NovaSeq6000100paired-ended2NT-BGHcLV25-1_S85_L002_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV25-2_S86_L002_R2_001.filtered.trimmed.paired.fastq.gzENCODE43756
BARD1-BGHcLV25-27_Aligned.sortedByCoord.out.bamENCODE_DATA/set47/STAR_ENCORE2_trimmed_file_linksbamalignmentsknockdown followed by RNA-seqGraveley Lab586GRCh38V40BARD1-BGHcLV25-27_S101_L002_R1_001.filtered.trimmed.paired.fastq.gz,BARD1-BGHcLV25-27_S101_L002_R2_001.filtered.trimmed.paired.fastq.gzENCORE225399
BARD1-BGHcLV25-27_quant.sfENCODE_DATA/set47/salmon_ENCORE2transcript_quantificationtranscript quantificationsknockdown followed by RNA-seqGraveley Lab586GRCh38V40BARD1-BGHcLV25-27_S101_L002_R1_001.filtered.trimmed.paired.fastq.gz,BARD1-BGHcLV25-27_S101_L002_R2_001.filtered.trimmed.paired.fastq.gzENCORE225443
BARD1-BGHcLV25-27_Signal.Unique.strand+.bwENCODE_DATA/set47/STAR_ENCORE2_trimmed_file_linksbigWig+uniqueplus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab586GRCh38V40BARD1-BGHcLV25-27/Aligned.sortedByCoord.out.bamENCORE226275
BARD1-BGHcLV25-27_Signal.Unique.strand-.bwENCODE_DATA/set47/STAR_ENCORE2_trimmed_file_linksbigWig-uniqueminus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab586GRCh38V40BARD1-BGHcLV25-27/Aligned.sortedByCoord.out.bamENCORE226319
BARD1-BGHcLV25-27_Signal.UniqueMultiple.strand+.bwENCODE_DATA/set47/STAR_ENCORE2_trimmed_file_linksbigWig+allplus strand signal of all readsknockdown followed by RNA-seqGraveley Lab586GRCh38V40BARD1-BGHcLV25-27/Aligned.sortedByCoord.out.bamENCORE226363
BARD1-BGHcLV25-27_Signal.UniqueMultiple.strand-.bwENCODE_DATA/set47/STAR_ENCORE2_trimmed_file_linksbigWig-allminus strand signal of all readsknockdown followed by RNA-seqGraveley Lab586GRCh38V40BARD1-BGHcLV25-27/Aligned.sortedByCoord.out.bamENCORE226407
BARD1-BGHcLV25-28_S102_L002_R1_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set47/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab587NovaSeq6000100paired-ended1NT-BGHcLV25-1_S85_L002_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV25-2_S86_L002_R1_001.filtered.trimmed.paired.fastq.gzENCODE43711
BARD1-BGHcLV25-28_S102_L002_R2_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set47/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab587NovaSeq6000100paired-ended2NT-BGHcLV25-1_S85_L002_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV25-2_S86_L002_R2_001.filtered.trimmed.paired.fastq.gzENCODE43757
BARD1-BGHcLV25-28_Aligned.sortedByCoord.out.bamENCODE_DATA/set47/STAR_ENCORE2_trimmed_file_linksbamalignmentsknockdown followed by RNA-seqGraveley Lab587GRCh38V40BARD1-BGHcLV25-28_S102_L002_R1_001.filtered.trimmed.paired.fastq.gz,BARD1-BGHcLV25-28_S102_L002_R2_001.filtered.trimmed.paired.fastq.gzENCORE225400
BARD1-BGHcLV25-28_quant.sfENCODE_DATA/set47/salmon_ENCORE2transcript_quantificationtranscript quantificationsknockdown followed by RNA-seqGraveley Lab587GRCh38V40BARD1-BGHcLV25-28_S102_L002_R1_001.filtered.trimmed.paired.fastq.gz,BARD1-BGHcLV25-28_S102_L002_R2_001.filtered.trimmed.paired.fastq.gzENCORE225444
BARD1-BGHcLV25-28_Signal.Unique.strand+.bwENCODE_DATA/set47/STAR_ENCORE2_trimmed_file_linksbigWig+uniqueplus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab587GRCh38V40BARD1-BGHcLV25-28/Aligned.sortedByCoord.out.bamENCORE226276
BARD1-BGHcLV25-28_Signal.Unique.strand-.bwENCODE_DATA/set47/STAR_ENCORE2_trimmed_file_linksbigWig-uniqueminus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab587GRCh38V40BARD1-BGHcLV25-28/Aligned.sortedByCoord.out.bamENCORE226320
BARD1-BGHcLV25-28_Signal.UniqueMultiple.strand+.bwENCODE_DATA/set47/STAR_ENCORE2_trimmed_file_linksbigWig+allplus strand signal of all readsknockdown followed by RNA-seqGraveley Lab587GRCh38V40BARD1-BGHcLV25-28/Aligned.sortedByCoord.out.bamENCORE226364
BARD1-BGHcLV25-28_Signal.UniqueMultiple.strand-.bwENCODE_DATA/set47/STAR_ENCORE2_trimmed_file_linksbigWig-allminus strand signal of all readsknockdown followed by RNA-seqGraveley Lab587GRCh38V40BARD1-BGHcLV25-28/Aligned.sortedByCoord.out.bamENCORE226408