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PSMD4 RNA-Seq in K562



PSMD4      CRISPR in K562      Control:

General Information
RBPPSMD4
Cell_LineK562
MethodCRISPR
Exp_NamePSMD4-BGKcLV42-K562
ENCODE_series_ID
Batch_IDBGKcLV42
Pool IDPool-240715
Local_Set_Nameset73
ENCODE_KD_Exp_ID
ENCODE_CN_Exp_ID
Rep1PSMD4-BGKcLV42-73
Rep2PSMD4-BGKcLV42-74
CN1NT-BGKcLV42-1
CN2NT-BGKcLV42-2
Rep1_qPCR59.2
Rep2_qPCR54.6
Rep1_WB90.3
Rep2_WB92.8
Antibody Cat#12441S
Antibody Lot#lot # 1
Antibody DCC ID
StatusSubmitted
ProjectENCORE2
ID1555




Experiment Information (Status: Sequenced)
BGKcLV42-73BGKcLV42-73BGKcLV42-74BGKcLV42-74
idx0000
TRCN#_or_BGC#BGC#0001177BGC#0001177BGC#0001177BGC#0001177
shRNA_or_gRNA_sequenceCTTCTGCACGGGCATCCGCGCTTCTGCACGGGCATCCGCGCTTCTGCACGGGCATCCGCGCTTCTGCACGGGCATCCGCG
PAMTGGTGGTGGTGG
NamePSMD4_88PSMD4_88PSMD4_88PSMD4_88
Sample_IDBGKcLV42-73BGKcLV42-73BGKcLV42-74BGKcLV42-74
transduction_Date4/23/244/23/244/23/244/23/24
daysD6D6D6D6
RBP_namePSMD4PSMD4PSMD4PSMD4
qPCR_result59.259.254.654.6
Ave_qPCR56.956.9
RT-qPCR_primer-Fatcattgcctttgtgggaagatcattgcctttgtgggaag
RT-qPCR_primer-Rtcttgaggcgtttagccagttcttgaggcgtttagccagt
protein_conc2308230823142314
WB_result90.392.8
Ave_WB91.5
WB_DONE_date5/14/24
MW50kd50kd
IP
antibody_Cat#12441S3336Slot # 1lot # 1
Antibody DCC ID
submitted_to_DCC_date
Rep1_TPM0000
Rep2_TPM0000
ActionReadyReady
Library_start_date
repeat_library
Note
ID5835583758365838




Western Blot
RBP Antibody InfoPrimary-HepG2Secondary-HepG2Primary-K562Secondary-K562Primary-UBERONPrimary-Hela
PSMD4Product_ID: 12441S
Lot_ID: 1
Source: Cell Signaling Technology
Target Name: PSMD4-human		 CST_12441S_1_PSMD4.png<br>Caption: IP-WB analysis of 12441S whole cell lysate using the PSMD4 specific antibody, 12441S. 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 PSMD4-specific antibody, 12441S. 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.
 PSMD4-K562-CRISPR-12441S.png<br>Caption: Western blot following CRISPR against PSMD4 in K562 whole cell lysate using PSMD4 specific antibody. Lane 1 is a ladder, lane 2 is K562 non-targeting control knockdown, lane 3 and 4 are two different CRISPR against PSMD4. PSMD4 protein appears as the green arrow, Beta-actin serves as a control and appears in red arrow.




Experiment Status
BGKcLV42-73BGKcLV42-73BGKcLV42-74BGKcLV42-74
Sample_IDBGKcLV42-73BGKcLV42-73BGKcLV42-74BGKcLV42-74
Sample Name
Sample NamePSMD4-BGKcLV42-73PSMD4-BGKcLV42-74
RBPPSMD4PSMD4PSMD4PSMD4
Cell_LineK562K562K562K562
Exp UID
StatusSequencedNotSatisfiedSequencedNotSatisfied
Status_date2024-10-272024-06-212024-10-272024-06-21
ProjectENCORE2ENCORE2ENCORE2ENCORE2
Note
ID13104131501310513151




Library-Prep Information
BGKcLV42-73BGKcLV42-74
Sample #6162
Sample NamePSMD4-BGKcLV42-73PSMD4-BGKcLV42-74
Sample_Name_Alias
Index Well PositionE08F08
Index_tableIDT_UniqueDualIndex_96IDT_UniqueDualIndex_96
LibPrep_date2024-06-212024-06-21
Lib_IDLib-240621Lib-240621
Tecan_Location
Tecan
Tecan_date
Size_bp307302
Peak_Molarity106.0099.30
libSampleQC_DNA_WellDNA_Library_set73/set1/E8.pngDNA_Library_set73/set1/F8.png
RIN10.010.0
libSample_RNA_WellRNA_Library_set73/set1/E8.pngRNA_Library_set73/set1/F8.png
SampleQC_methodTapeStation_2022TapeStation_2022
SampleQC_date2024-07-152024-07-15
Sample_IDBGKcLV42-73BGKcLV42-74
RBPPSMD4PSMD4
Batch_IDBGKcLV42BGKcLV42
WB_result90.30092.800
Library DescriptionTruSeq mRNATruSeq mRNA
Repeat_Library_Suffix
Lib_StatusSendToSequenceSendToSequence
ProjectENCORE2ENCORE2
ID43304331




Sequencing Information
BGKcLV42-73BGKcLV42-74
Sample_IDBGKcLV42-73BGKcLV42-74
Sample NamePSMD4-BGKcLV42-73PSMD4-BGKcLV42-74
Pool IDPool-240715Pool-240715
LocalServer_folderset73set73
total_reads36,920,53047,024,723
total_aligned_reads34,520,71144,545,336
unique_aligned_reads31,928,13941,252,519
percent_uniqueAligned0.864780.87725
correlation_replicates0.9983380.998338
spikein_reads2,014680
percent_spikeins0.000050.00001
original_ReadLength101101
QC_StatusReadyToSubmitReadyToSubmit
ID31973198




Data Submission Information
DCC submission information was not avaliable




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