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PKN2 RNA-Seq in K562



PKN2      CRISPR in K562      Control:

General Information
RBPPKN2
Cell_LineK562
MethodCRISPR
Exp_NamePKN2-BGKcLV42-K562
ENCODE_series_ID
Batch_IDBGKcLV42
Pool IDPool-240715
Local_Set_Nameset73
ENCODE_KD_Exp_ID
ENCODE_CN_Exp_ID
Rep1PKN2-BGKcLV42-67
Rep2PKN2-BGKcLV42-68
CN1NT-BGKcLV42-1
CN2NT-BGKcLV42-2
Rep1_qPCR45.6
Rep2_qPCR48.4
Rep1_WB83.9
Rep2_WB88.5
Antibody Cat#8697S
Antibody Lot#lot # 1
Antibody DCC ID
StatusSubmitted
ProjectENCORE2
ID1553




Experiment Information (Status: Sequenced)
BGKcLV42-67BGKcLV42-68
idx00
TRCN#_or_BGC#BGC#0001168BGC#0001168
shRNA_or_gRNA_sequenceAAGTCCTCTTGAACTTCGGAAAGTCCTCTTGAACTTCGGA
PAMTGGTGG
NamePKN2_88PKN2_88
Sample_IDBGKcLV42-67BGKcLV42-68
transduction_Date4/23/244/23/24
daysD6D6
RBP_namePKN2PKN2
qPCR_result45.648.4
Ave_qPCR47.0
RT-qPCR_primer-Fatcagttgcactgcctggtt
RT-qPCR_primer-Rtcgagcttcaaaacagcaca
protein_conc26302854
WB_result83.988.5
Ave_WB86.2
WB_DONE_date5/14/24,5/23/24
MW140kd
IP
antibody_Cat#8697Slot # 1
Antibody DCC ID
submitted_to_DCC_date
Rep1_TPM00
Rep2_TPM00
ActionReadyReady
Library_start_date
repeat_library
Note
ID58295830




Western Blot
RBP Antibody InfoPrimary-HepG2Secondary-HepG2Primary-K562Secondary-K562Primary-UBERONPrimary-Hela
PKN2Product_ID: 8697S
Lot_ID: 1
Source: Cell Signaling Technology
Target Name: PKN2-human		 CST_8697S_1_PKN2.png<br>Caption: IP-WB analysis of 8697S whole cell lysate using the PKN2 specific antibody, 8697S. 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 PKN2-specific antibody, 8697S. 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.
 PKN2-K562-CRISPR-8697S.png<br>Caption: Western blot following CRISPR against PKN2 in K562 whole cell lysate using PKN2 specific antibody. Lane 1 is a ladder, lane 2 is K562 non-targeting control knockdown, lane 3 and 4 are two different CRISPR against PKN2. PKN2 protein appears as the green arrow, Beta-actin serves as a control and appears in red arrow.




Experiment Status
BGKcLV42-67BGKcLV42-68
Sample_IDBGKcLV42-67BGKcLV42-68
Sample Name
Sample NamePKN2-BGKcLV42-67PKN2-BGKcLV42-68
RBPPKN2PKN2
Cell_LineK562K562
Exp UID
StatusSequencedSequenced
Status_date2024-10-272024-10-27
ProjectENCORE2ENCORE2
Note
ID1310013101




Library-Prep Information
BGKcLV42-67BGKcLV42-68
Sample #5758
Sample NamePKN2-BGKcLV42-67PKN2-BGKcLV42-68
Sample_Name_Alias
Index Well PositionA08B08
Index_tableIDT_UniqueDualIndex_96IDT_UniqueDualIndex_96
LibPrep_date2024-06-212024-06-21
Lib_IDLib-240621Lib-240621
Tecan_Location
Tecan
Tecan_date
Size_bp300313
Peak_Molarity101.0092.80
libSampleQC_DNA_WellDNA_Library_set73/set1/A8.pngDNA_Library_set73/set1/B8.png
RIN10.010.0
libSample_RNA_WellRNA_Library_set73/set1/A8.pngRNA_Library_set73/set1/B8.png
SampleQC_methodTapeStation_2022TapeStation_2022
SampleQC_date2024-07-152024-07-15
Sample_IDBGKcLV42-67BGKcLV42-68
RBPPKN2PKN2
Batch_IDBGKcLV42BGKcLV42
WB_result83.90088.500
Library DescriptionTruSeq mRNATruSeq mRNA
Repeat_Library_Suffix
Lib_StatusSendToSequenceSendToSequence
ProjectENCORE2ENCORE2
ID43264327




Sequencing Information
BGKcLV42-67BGKcLV42-68
Sample_IDBGKcLV42-67BGKcLV42-68
Sample NamePKN2-BGKcLV42-67PKN2-BGKcLV42-68
Pool IDPool-240715Pool-240715
LocalServer_folderset73set73
total_reads53,729,78250,702,217
total_aligned_reads46,370,89447,695,823
unique_aligned_reads42,874,84844,136,557
percent_uniqueAligned0.797970.87051
correlation_replicates0.9803130.980313
spikein_reads7,8341,406
percent_spikeins0.000150.00003
original_ReadLength101101
QC_StatusReadyToSubmitReadyToSubmit
ID31933194




Data Submission Information
DCC submission information was not avaliable




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