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PARK7 RNA-Seq in HepG2



PARK7      CRISPR in HepG2      Control:

General Information
RBPPARK7
Cell_LineHepG2
MethodCRISPR
Exp_NamePARK7-BGHcLV43-HepG2
ENCODE_series_ID
Batch_IDBGHcLV43
Pool IDPool-240723
Local_Set_Nameset74
ENCODE_KD_Exp_ID
ENCODE_CN_Exp_ID
Rep1PARK7-BGHcLV43-39
Rep2PARK7-BGHcLV43-40
CN1NT-BGHcLV43-1
CN2NT-BGHcLV43-2
Rep1_qPCR65.1
Rep2_qPCR69.3
Rep1_WB65.9
Rep2_WB66.0
Antibody Cat#5560S
Antibody Lot#lot # 1
Antibody DCC ID
StatusSubmitted
ProjectENCORE2
ID1583




Experiment Information (Status: Sequenced)
BGHcLV43-39BGHcLV43-40
idx14071408
TRCN#_or_BGC#BGC#0001166BGC#0001166
shRNA_or_gRNA_sequenceAGTACAGTGTAGCCGTGATGAGTACAGTGTAGCCGTGATG
PAMTGGTGG
NamePARK7_93PARK7_93
Sample_IDBGHcLV43-39BGHcLV43-40
transduction_Date6/6/246/6/24
daysD6D6
RBP_namePARK7PARK7
qPCR_result65.169.3
Ave_qPCR67.2
RT-qPCR_primer-Ftggtggttctaccaggaggt
RT-qPCR_primer-Rggttttcctgctccttcagt
protein_conc38403608
WB_result65.966.0
Ave_WB66.0
WB_DONE_date6/17/24
MW22kd
IP
antibody_Cat#5560Slot # 1
Antibody DCC ID
submitted_to_DCC_date
Rep1_TPM00
Rep2_TPM00
ActionReadyReady
Library_start_date
repeat_library
Note
ID76127613




Western Blot
RBP Antibody InfoPrimary-HepG2Secondary-HepG2Primary-K562Secondary-K562Primary-UBERONPrimary-Hela
PARK7Product_ID: 5560S
Lot_ID: 1
Source: Cell Signaling Technology
Target Name: PARK7-human		 PARK7-HEPG2-CRISPR-5560S.png<br>Caption: Western blot following CRISPR against PARK7 in HepG2 whole cell lysate using PARK7 specific antibody. Lane 1 is a ladder, lane 2 is HepG2 non-targeting control knockdown, lane 3 and 4 are two different CRISPR against PARK7. PARK7 protein appears as the green arrow, Beta-actin serves as a control and appears in red arrow.
 CST_5560S_1_PARK7.png<br>Caption: IP-WB analysis of 5560S whole cell lysate using the PARK7 specific antibody, 5560S. 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 PARK7-specific antibody, 5560S. 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.
 PARK7-K562-CRISPR-5560S.png<br>Caption: Western blot following CRISPR against PARK7 in K562 whole cell lysate using PARK7 specific antibody. Lane 1 is a ladder, lane 2 is K562 non-targeting control knockdown, lane 3 and 4 are two different CRISPR against PARK7. PARK7 protein appears as the green arrow, Beta-actin serves as a control and appears in red arrow.




Experiment Status
BGHcLV43-39BGHcLV43-40
Sample_IDBGHcLV43-39BGHcLV43-40
Sample Name
Sample NamePARK7-BGHcLV43-39PARK7-BGHcLV43-40
RBPPARK7PARK7
Cell_LineHepG2HepG2
Exp UID
StatusSequencedSequenced
Status_date2024-10-272024-10-27
ProjectENCORE2ENCORE2
Note
ID1325613257




Library-Prep Information
BGHcLV43-39BGHcLV43-40
Sample #2930
Sample NamePARK7-BGHcLV43-39PARK7-BGHcLV43-40
Sample_Name_Alias
Index Well PositionE09F09
Index_tableIDT_UniqueDualIndex_96IDT_UniqueDualIndex_96
LibPrep_date2024-07-222024-07-22
Lib_IDLib-240722Lib-240722
Tecan_Location
Tecan
Tecan_date
Size_bp289288
Peak_Molarity80.7099.90
libSampleQC_DNA_WellDNA_Library_set74/set1/E4.pngDNA_Library_set74/set1/F4.png
RIN10.010.0
libSample_RNA_WellRNA_Library_set74/set1/A10.pngRNA_Library_set74/set1/B10.png
SampleQC_methodTapeStation_2022TapeStation_2022
SampleQC_date2024-07-232024-07-23
Sample_IDBGHcLV43-39BGHcLV43-40
RBPPARK7PARK7
Batch_IDBGHcLV43BGHcLV43
WB_result65.90066.000
Library DescriptionTruSeq mRNATruSeq mRNA
Repeat_Library_Suffix
Lib_StatusSendToSequenceSendToSequence
ProjectENCORE2ENCORE2
ID43884389




Sequencing Information
BGHcLV43-39BGHcLV43-40
Sample_IDBGHcLV43-39BGHcLV43-40
Sample NamePARK7-BGHcLV43-39PARK7-BGHcLV43-40
Pool IDPool-240723Pool-240723
LocalServer_folderset74set74
total_reads47,783,40754,011,672
total_aligned_reads44,673,59249,922,481
unique_aligned_reads41,971,04846,954,591
percent_uniqueAligned0.878360.86934
correlation_replicates0.9960470.996047
spikein_reads26,34245,756
percent_spikeins0.000550.00085
original_ReadLength101101
QC_StatusReadyToSubmitReadyToSubmit
ID32553256




Data Submission Information
DCC submission information was not avaliable




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