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BRD4 RNA-Seq in K562



BRD4      CRISPR in K562      Control:

General Information
RBPBRD4
Cell_LineK562
MethodCRISPR
Exp_NameBRD4-BGKcLV42-K562
ENCODE_series_ID
Batch_IDBGKcLV42
Pool IDPool-240715
Local_Set_Nameset73
ENCODE_KD_Exp_ID
ENCODE_CN_Exp_ID
Rep1BRD4-BGKcLV42-11
Rep2BRD4-BGKcLV42-12
CN1NT-BGKcLV42-1
CN2NT-BGKcLV42-2
Rep1_qPCR78.1
Rep2_qPCR81.6
Rep1_WB86.8
Rep2_WB72.0
Antibody Cat#83375S
Antibody Lot#lot # 1
Antibody DCC ID
StatusSubmitted
ProjectENCORE2
ID1529




Experiment Information (Status: Sequenced)
BGKcLV42-11BGKcLV42-11BGKcLV42-11BGKcLV42-11BGKcLV42-12BGKcLV42-12BGKcLV42-12BGKcLV42-12
idx00000000
TRCN#_or_BGC#BGC#0001115BGC#0001115BGC#0001115BGC#0001115BGC#0001115BGC#0001115BGC#0001115BGC#0001115
shRNA_or_gRNA_sequenceGGGAACAATAAAGAAGCGCTGGGAACAATAAAGAAGCGCTGGGAACAATAAAGAAGCGCTGGGAACAATAAAGAAGCGCTGGGAACAATAAAGAAGCGCTGGGAACAATAAAGAAGCGCTGGGAACAATAAAGAAGCGCTGGGAACAATAAAGAAGCGCT
PAMTGGTGGTGGTGGTGGTGGTGGTGG
NameBRD4_85BRD4_85BRD4_85BRD4_85BRD4_85BRD4_85BRD4_85BRD4_85
Sample_IDBGKcLV42-11BGKcLV42-11BGKcLV42-11BGKcLV42-11BGKcLV42-12BGKcLV42-12BGKcLV42-12BGKcLV42-12
transduction_Date4/23/244/23/244/23/244/23/244/23/244/23/244/23/244/23/24
daysD6D6D6D6D6D6D6D6
RBP_nameBRD4BRD4BRD4BRD4BRD4BRD4BRD4BRD4
qPCR_result78.178.181.681.6
Ave_qPCR79.979.9
RT-qPCR_primer-Facccacagaagaaaccgagaacccacagaagaaaccgaga
RT-qPCR_primer-Rtgtgtttggtaccgtggaaatgtgtttggtaccgtggaaa
protein_conc22932293229322931942194219421942
WB_result86.886.779.264.972.082.972.867275.0
Ave_WB79.484.876.069.9
WB_DONE_date5/2/24,5/8/245/2/24,5/8/245/2/24,5/8/246/24/24isoAisoBisoC
MW200,110kd200,110kd200kd
IP
antibody_Cat#83375S83375S83375S13440Slot # 1lot # 1lot # 1lot # 9
Antibody DCC ID
submitted_to_DCC_date
Rep1_TPM00000000
Rep2_TPM00000000
ActionReadyReady
Library_start_date
repeat_library
Note
ID57635765576757695764576657685770




Western Blot
RBP Antibody InfoPrimary-HepG2Secondary-HepG2Primary-K562Secondary-K562Primary-UBERONPrimary-Hela
BRD4Product_ID: 13440S
Lot_ID: 9
Source: Cell Signaling Technology
Target Name: BRD4-human		 CST_13440S_9_BRD4.png<br>Caption: IP-WB analysis of 13440S whole cell lysate using the BRD4 specific antibody, 13440S. Lanes 1 and 2 are 2.5% of five million whole cell lysate input and 50% of IP enrichment, respectively, using a normal IgG antibody. Lane 3 is 50% of IP enrichment from five million whole cell lysate using the BRD4-specific antibody, 13440S. The same antibody was used to detect protein levels via Western blot. This antibody passes preliminary validation and will be further pursued for secondary validation. *NOTE* Protein sizes are taken from Genecards.org and are only estimates based on sequence. Actual protein size may differ based on protein characteristics and electrophoresis method used.
 BRD4-K562-CRISPR-13440S.png<br>Caption: Western blot following CRISPR against BRD4 in K562 whole cell lysate using BRD4 specific antibody. Lane 1 is a ladder, lane 2 is K562 non-targeting control knockdown, lane 3 and 4 are two different CRISPR against BRD4. BRD4 protein appears as the green arrow, Beta-actin serves as a control and appears in red arrow.




Experiment Status
BGKcLV42-11BGKcLV42-11BGKcLV42-11BGKcLV42-12BGKcLV42-12BGKcLV42-12
Sample_IDBGKcLV42-11BGKcLV42-11BGKcLV42-11BGKcLV42-12BGKcLV42-12BGKcLV42-12
Sample Name
Sample NameBRD4-BGKcLV42-11BRD4-BGKcLV42-12
RBPBRD4BRD4BRD4BRD4BRD4BRD4
Cell_LineK562K562K562K562K562K562
Exp UID
StatusSequencedNotSatisfiedNotSatisfiedSequencedNotSatisfiedNotSatisfied
Status_date2024-10-272024-06-212024-06-212024-10-272024-06-212024-06-21
ProjectENCORE2ENCORE2ENCORE2ENCORE2ENCORE2ENCORE2
Note
ID130521313613138130531313713139




Library-Prep Information
BGKcLV42-11BGKcLV42-12
Sample #910
Sample NameBRD4-BGKcLV42-11BRD4-BGKcLV42-12
Sample_Name_Alias
Index Well PositionA02B02
Index_tableIDT_UniqueDualIndex_96IDT_UniqueDualIndex_96
LibPrep_date2024-06-212024-06-21
Lib_IDLib-240621Lib-240621
Tecan_Location
Tecan
Tecan_date
Size_bp300310
Peak_Molarity89.2075.30
libSampleQC_DNA_WellDNA_Library_set73/set1/A2.pngDNA_Library_set73/set1/B2.png
RIN10.010.0
libSample_RNA_WellRNA_Library_set73/set1/A2.pngRNA_Library_set73/set1/B2.png
SampleQC_methodTapeStation_2022TapeStation_2022
SampleQC_date2024-07-152024-07-15
Sample_IDBGKcLV42-11BGKcLV42-12
RBPBRD4BRD4
Batch_IDBGKcLV42BGKcLV42
WB_result86.80072.008
Library DescriptionTruSeq mRNATruSeq mRNA
Repeat_Library_Suffix
Lib_StatusSendToSequenceSendToSequence
ProjectENCORE2ENCORE2
ID42784279




Sequencing Information
BGKcLV42-11BGKcLV42-12
Sample_IDBGKcLV42-11BGKcLV42-12
Sample NameBRD4-BGKcLV42-11BRD4-BGKcLV42-12
Pool IDPool-240715Pool-240715
LocalServer_folderset73set73
total_reads55,750,65243,242,654
total_aligned_reads50,816,21238,320,561
unique_aligned_reads46,757,87335,364,863
percent_uniqueAligned0.838700.81782
correlation_replicates0.9807650.980765
spikein_reads8,5021,148
percent_spikeins0.000150.00003
original_ReadLength101101
QC_StatusReadyToSubmitReadyToSubmit
ID31453146




Data Submission Information
DCC submission information was not avaliable




File Information
Files of the experiment was not avaliable in the database