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PABPC1 RNA-Seq in HepG2



PABPC1      CRISPR in HepG2      Control:

General Information
RBPPABPC1
Cell_LineHepG2
MethodCRISPR
Exp_NamePABPC1-BGHcLV43-HepG2
ENCODE_series_ID
Batch_IDBGHcLV43
Pool IDPool-240723
Local_Set_Nameset74
ENCODE_KD_Exp_ID
ENCODE_CN_Exp_ID
Rep1PABPC1-BGHcLV43-37
Rep2PABPC1-BGHcLV43-38
CN1NT-BGHcLV43-1
CN2NT-BGHcLV43-2
Rep1_qPCR75.3
Rep2_qPCR75.2
Rep1_WB67.7
Rep2_WB73.7
Antibody Cat#3505S
Antibody Lot#lot # 2
Antibody DCC ID
StatusSubmitted
ProjectENCORE2
ID1582




Experiment Information (Status: Sequenced)
BGHcLV43-37BGHcLV43-38
idx14051406
TRCN#_or_BGC#BGC#0001164BGC#0001164
shRNA_or_gRNA_sequenceATTTGTACACTTTGAGACGCATTTGTACACTTTGAGACGC
PAMAGGAGG
NamePABPC1_82PABPC1_82
Sample_IDBGHcLV43-37BGHcLV43-38
transduction_Date6/6/246/6/24
daysD6D6
RBP_namePABPC1PABPC1
qPCR_result75.375.2
Ave_qPCR75.3
RT-qPCR_primer-FCAGGAGTTCGCAATCCTCAG
RT-qPCR_primer-RGCAGTCAAAGGTTCCTGACC
protein_conc37913650
WB_result67.773.7
Ave_WB70.7
WB_DONE_date6/21/24
MW71kd
IP
antibody_Cat#3505Slot # 2
Antibody DCC ID
submitted_to_DCC_date
Rep1_TPM00
Rep2_TPM00
ActionReadyReady
Library_start_date
repeat_library
Note
ID76107611




Western Blot
RBP Antibody InfoPrimary-HepG2Secondary-HepG2Primary-K562Secondary-K562Primary-UBERONPrimary-Hela
PABPC1Product_ID: 3505S
Lot_ID: 2
Source: Cell Signaling Technology
Target Name: PABPC1-human		 PABPC1-HEPG2-CRISPR-3505S.png<br>Caption: Western blot following CRISPR against PABPC1 in HepG2 whole cell lysate using PABPC1 specific antibody. Lane 1 is a ladder, lane 2 is HepG2 non-targeting control knockdown, lane 3 and 4 are two different CRISPR against PABPC1. PABPC1 protein appears as the green arrow, Beta-actin serves as a control and appears in red arrow.
 CST_3505S_2_PABPC1.png<br>Caption: IP-WB analysis of 3505S whole cell lysate using the PABPC1 specific antibody, 3505S. 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 PABPC1-specific antibody, 3505S. 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.
 PABPC1-K562-CRISPR-3505S.png<br>Caption: Western blot following CRISPR against PABPC1 in K562 whole cell lysate using PABPC1 specific antibody. Lane 1 is a ladder, lane 2 is K562 non-targeting control knockdown, lane 3 and 4 are two different CRISPR against PABPC1. PABPC1 protein appears as the green arrow, Beta-actin serves as a control and appears in red arrow.




Experiment Status
BGHcLV43-37BGHcLV43-38
Sample_IDBGHcLV43-37BGHcLV43-38
Sample Name
Sample NamePABPC1-BGHcLV43-37PABPC1-BGHcLV43-38
RBPPABPC1PABPC1
Cell_LineHepG2HepG2
Exp UID
StatusSequencedSequenced
Status_date2024-10-272024-10-27
ProjectENCORE2ENCORE2
Note
ID1325413255




Library-Prep Information
BGHcLV43-37BGHcLV43-38
Sample #2728
Sample NamePABPC1-BGHcLV43-37PABPC1-BGHcLV43-38
Sample_Name_Alias
Index Well PositionC09D09
Index_tableIDT_UniqueDualIndex_96IDT_UniqueDualIndex_96
LibPrep_date2024-07-222024-07-22
Lib_IDLib-240722Lib-240722
Tecan_Location
Tecan
Tecan_date
Size_bp294293
Peak_Molarity110.0092.40
libSampleQC_DNA_WellDNA_Library_set74/set1/C4.pngDNA_Library_set74/set1/D4.png
RIN10.010.0
libSample_RNA_WellRNA_Library_set74/set1/G9.pngRNA_Library_set74/set1/H9.png
SampleQC_methodTapeStation_2022TapeStation_2022
SampleQC_date2024-07-232024-07-23
Sample_IDBGHcLV43-37BGHcLV43-38
RBPPABPC1PABPC1
Batch_IDBGHcLV43BGHcLV43
WB_result67.70073.700
Library DescriptionTruSeq mRNATruSeq mRNA
Repeat_Library_Suffix
Lib_StatusSendToSequenceSendToSequence
ProjectENCORE2ENCORE2
ID43864387




Sequencing Information
BGHcLV43-37BGHcLV43-38
Sample_IDBGHcLV43-37BGHcLV43-38
Sample NamePABPC1-BGHcLV43-37PABPC1-BGHcLV43-38
Pool IDPool-240723Pool-240723
LocalServer_folderset74set74
total_reads46,786,17139,603,503
total_aligned_reads42,717,69536,545,212
unique_aligned_reads40,198,63534,446,054
percent_uniqueAligned0.859200.86977
correlation_replicates0.9903690.990369
spikein_reads48,93018,092
percent_spikeins0.001050.00046
original_ReadLength101101
QC_StatusReadyToSubmitReadyToSubmit
ID32533254




Data Submission Information
DCC submission information was not avaliable




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