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PABPC1 RNA-Seq in K562



PABPC1      CRISPR in K562      Control:

General Information
RBPPABPC1
Cell_LineK562
MethodCRISPR
Exp_NamePABPC1-BGKcLV42-K562
ENCODE_series_ID
Batch_IDBGKcLV42
Pool IDPool-240715
Local_Set_Nameset73
ENCODE_KD_Exp_ID
ENCODE_CN_Exp_ID
Rep1PABPC1-BGKcLV42-61
Rep2PABPC1-BGKcLV42-62
CN1NT-BGKcLV42-1
CN2NT-BGKcLV42-2
Rep1_qPCR85.3
Rep2_qPCR84.0
Rep1_WB82.1
Rep2_WB85.7
Antibody Cat#3505S
Antibody Lot#lot # 2
Antibody DCC ID
StatusSubmitted
ProjectENCORE2
ID1550




Experiment Information (Status: Sequenced)
BGKcLV42-61BGKcLV42-62
idx00
TRCN#_or_BGC#BGC#0001163BGC#0001163
shRNA_or_gRNA_sequenceTGTGGATGAGATGAACGGAATGTGGATGAGATGAACGGAA
PAMAGGAGG
NamePABPC1_74PABPC1_74
Sample_IDBGKcLV42-61BGKcLV42-62
transduction_Date4/23/244/23/24
daysD6D6
RBP_namePABPC1PABPC1
qPCR_result85.384.0
Ave_qPCR84.6
RT-qPCR_primer-FCAGGAGTTCGCAATCCTCAG
RT-qPCR_primer-RGCAGTCAAAGGTTCCTGACC
protein_conc22592359
WB_result82.185.7
Ave_WB83.9
WB_DONE_date5/8/24
MW71kd
IP
antibody_Cat#3505Slot # 2
Antibody DCC ID
submitted_to_DCC_date
Rep1_TPM00
Rep2_TPM00
ActionReadyReady
Library_start_date
repeat_library
Note
ID58215822




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
BGKcLV42-61BGKcLV42-62
Sample_IDBGKcLV42-61BGKcLV42-62
Sample Name
Sample NamePABPC1-BGKcLV42-61PABPC1-BGKcLV42-62
RBPPABPC1PABPC1
Cell_LineK562K562
Exp UID
StatusSequencedSequenced
Status_date2024-10-272024-10-27
ProjectENCORE2ENCORE2
Note
ID1309413095




Library-Prep Information
BGKcLV42-61BGKcLV42-62
Sample #5152
Sample NamePABPC1-BGKcLV42-61PABPC1-BGKcLV42-62
Sample_Name_Alias
Index Well PositionC07D07
Index_tableIDT_UniqueDualIndex_96IDT_UniqueDualIndex_96
LibPrep_date2024-06-212024-06-21
Lib_IDLib-240621Lib-240621
Tecan_Location
Tecan
Tecan_date
Size_bp305306
Peak_Molarity118.00109.00
libSampleQC_DNA_WellDNA_Library_set73/set1/C7.pngDNA_Library_set73/set1/D7.png
RIN10.010.0
libSample_RNA_WellRNA_Library_set73/set1/C7.pngRNA_Library_set73/set1/D7.png
SampleQC_methodTapeStation_2022TapeStation_2022
SampleQC_date2024-07-152024-07-15
Sample_IDBGKcLV42-61BGKcLV42-62
RBPPABPC1PABPC1
Batch_IDBGKcLV42BGKcLV42
WB_result82.10085.700
Library DescriptionTruSeq mRNATruSeq mRNA
Repeat_Library_Suffix
Lib_StatusSendToSequenceSendToSequence
ProjectENCORE2ENCORE2
ID43204321




Sequencing Information
BGKcLV42-61BGKcLV42-62
Sample_IDBGKcLV42-61BGKcLV42-62
Sample NamePABPC1-BGKcLV42-61PABPC1-BGKcLV42-62
Pool IDPool-240715Pool-240715
LocalServer_folderset73set73
total_reads38,779,12232,130,374
total_aligned_reads33,999,10127,302,873
unique_aligned_reads31,459,37725,275,529
percent_uniqueAligned0.811250.78666
correlation_replicates0.9990210.999021
spikein_reads426992
percent_spikeins0.000010.00003
original_ReadLength101101
QC_StatusReadyToSubmitReadyToSubmit
ID31873188




Data Submission Information
DCC submission information was not avaliable




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