Notice: Undefined offset: 1 in /website/encore_alpha/gene/index.php on line 599
PABPN1 RNA-Seq in K562



PABPN1      CRISPR in K562      Control:

General Information
RBPPABPN1
Cell_LineK562
MethodCRISPR
Exp_NamePABPN1-BGKcLV44-K562
ENCODE_series_ID
Batch_IDBGKcLV44
Pool IDPool-241015
Local_Set_Nameset75
ENCODE_KD_Exp_ID
ENCODE_CN_Exp_ID
Rep1PABPN1-BGKcLV44-41
Rep2PABPN1-BGKcLV44-42
CN1NT-BGKcLV44-1
CN2NT-BGKcLV44-2
Rep1_qPCR73.1
Rep2_qPCR77.1
Rep1_WB96.9
Rep2_WB96.9
Antibody Cat#14154S
Antibody Lot#lot # 1
Antibody DCC ID
StatusSubmitted
ProjectENCORE2
ID1603




Experiment Information (Status: Sequenced)
BGKcLV44-41BGKcLV44-42
idx00
TRCN#_or_BGC#BGC#0001040BGC#0001040
shRNA_or_gRNA_sequenceAGTTACTCACCATTGCCTGGAGTTACTCACCATTGCCTGG
PAMAGGAGG
NamePABPN1-70PABPN1-70
Sample_IDBGKcLV44-41BGKcLV44-42
transduction_Date7/30/247/30/24
daysD6D6
RBP_namePABPN1PABPN1
qPCR_result73.177.1
Ave_qPCR75.1
RT-qPCR_primer-Fcggtgatcatgtccattgag
RT-qPCR_primer-Ragcttccagctcttctgctg
protein_conc39043926
WB_result96.996.9
Ave_WB96.9
WB_DONE_date8/12/24
MW33/50kd/
IP
antibody_Cat#14154Slot # 1
Antibody DCC ID
submitted_to_DCC_date
Rep1_TPM00
Rep2_TPM00
ActionReadyReady
Library_start_date
repeat_library
Notedone on BGKLV28-35
ID59185919




Western Blot
RBP Antibody InfoPrimary-HepG2Secondary-HepG2Primary-K562Secondary-K562Primary-UBERONPrimary-Hela
PABPN1Product_ID: 14154S
Lot_ID: 1
Source: Cell Signaling Technology
Target Name: PABPN1-human		 PABPN1-HEPG2-CRISPR-14154S.png<br>Caption: Western blot following CRISPR against PABPN1 in HepG2 whole cell lysate using PABPN1 specific antibody. Lane 1 is a ladder, lane 2 is HepG2 non-targeting control knockdown, lane 3 and 4 are two different CRISPR against PABPN1. PABPN1 protein appears as the green arrow, Beta-actin serves as a control and appears in red arrow.
 CST_14154S_1_PABPN1.png<br>Caption: IP-WB analysis of 14154S whole cell lysate using the PABPN1 specific antibody, 14154S. 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 PABPN1-specific antibody, 14154S. 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.
 PABPN1-K562-CRISPR-14154S.png<br>Caption: Western blot following CRISPR against PABPN1 in K562 whole cell lysate using PABPN1 specific antibody. Lane 1 is a ladder, lane 2 is K562 non-targeting control knockdown, lane 3 and 4 are two different CRISPR against PABPN1. PABPN1 protein appears as the green arrow, Beta-actin serves as a control and appears in red arrow.




Experiment Status
BGKcLV44-41BGKcLV44-42
Sample_IDBGKcLV44-41BGKcLV44-42
Sample Name
Sample NamePABPN1-BGKcLV44-41PABPN1-BGKcLV44-42
RBPPABPN1PABPN1
Cell_LineK562K562
Exp UID
StatusSequencedSequenced
Status_date2024-11-062024-11-06
ProjectENCORE2ENCORE2
Note
ID1359813599




Library-Prep Information
BGKcLV44-41BGKcLV44-42
Sample #2728
Sample NamePABPN1-BGKcLV44-41PABPN1-BGKcLV44-42
Sample_Name_Alias
Index Well PositionC09D09
Index_tableIDT_UniqueDualIndex_96_V2IDT_UniqueDualIndex_96_V2
LibPrep_date2024-10-102024-10-10
Lib_IDLib-241010Lib-241010
Tecan_Location
Tecan
Tecan_date
Size_bp291289
Peak_Molarity72.0093.20
libSampleQC_DNA_WellDNA_Library_set75/set1/C9.pngDNA_Library_set75/set1/D9.png
RIN10.010.0
libSample_RNA_WellRNA_Library_set75/set1/C3.pngRNA_Library_set75/set1/D3.png
SampleQC_methodTapeStation_2022TapeStation_2022
SampleQC_date2024-10-152024-10-15
Sample_IDBGKcLV44-41BGKcLV44-42
RBPPABPN1PABPN1
Batch_IDBGKcLV44BGKcLV44
WB_result96.90096.900
Library DescriptionTruSeq mRNATruSeq mRNA
Repeat_Library_Suffix
Lib_StatusSendToSequenceSendToSequence
ProjectENCORE2ENCORE2
ID45864587




Sequencing Information
BGKcLV44-41BGKcLV44-42
Sample_IDBGKcLV44-41BGKcLV44-42
Sample NamePABPN1-BGKcLV44-41PABPN1-BGKcLV44-42
Pool IDPool-241015Pool-241015
LocalServer_folderset75set75
total_reads95,907,69533,445,382
total_aligned_reads90,985,24731,853,112
unique_aligned_reads83,411,13729,280,780
percent_uniqueAligned0.869700.87548
correlation_replicates0.9993950.999395
spikein_reads206,75070,960
percent_spikeins0.002160.00212
original_ReadLength101101
QC_StatusReadyToSubmitReadyToSubmit
ID32973298




Data Submission Information
DCC submission information was not avaliable




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