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EXOSC9 RNA-Seq in HepG2



EXOSC9      CRISPR in HepG2      Control:

General Information
RBPEXOSC9
Cell_LineHepG2
MethodCRISPR
Exp_NameEXOSC9-BGHcLV41-HepG2
ENCODE_series_ID
Batch_IDBGHcLV41
Pool IDPool-240314
Local_Set_Nameset70
ENCODE_KD_Exp_ID
ENCODE_CN_Exp_ID
Rep1EXOSC9-BGHcLV41-59
Rep2EXOSC9-BGHcLV41-60
CN1NT-BGHcLV41-1
CN2NT-BGHcLV41-2
Rep1_qPCR35.1
Rep2_qPCR45.2
Rep1_WB69.0
Rep2_WB63.1
Antibody Cat#A303-888A
Antibody Lot#lot # 1
Antibody DCC ID
StatusSubmitted
ProjectENCORE2
ID1456




Experiment Information (Status: Submitting)
BGHcLV41-59BGHcLV41-60
idx13321333
TRCN#_or_BGC#BGC#0001005BGC#0001005
shRNA_or_gRNA_sequenceGGTGAAGTTGAATCGACTCAGGTGAAGTTGAATCGACTCA
PAMTGGTGG
NameEXOSC9_90EXOSC9_90
Sample_IDBGHcLV41-59BGHcLV41-60
transduction_Date1/12/241/12/24
daysD6D6
RBP_nameEXOSC9EXOSC9
qPCR_result35.145.2
Ave_qPCR40.2
RT-qPCR_primer-Fttgctgaagcagaacctcct
RT-qPCR_primer-Rctctccaatttgggcagttc
protein_conc32842885
WB_result69.063.1
Ave_WB66.0
WB_DONE_date1/29/24
MW49kd
IP
antibody_Cat#A303-888Alot # 1
Antibody DCC ID
submitted_to_DCC_date
Rep1_TPM00
Rep2_TPM00
ActionReadyReady
Library_start_date
repeat_library
Note
ID75277528




Western Blot
RBP Antibody InfoPrimary-HepG2Secondary-HepG2Primary-K562Secondary-K562Primary-UBERONPrimary-Hela
EXOSC9Product_ID: A303-888A
Lot_ID: 1
Source: Bethyl Labs
Target Name: EXOSC9-human		 EXOSC9-HEPG2-CRISPR-A303-888A.png<br>Caption: Western blot following CRISPR against EXOSC9 in HepG2 whole cell lysate using EXOSC9 specific antibody. Lane 1 is a ladder, lane 2 is HepG2 non-targeting control knockdown, lane 3 and 4 are two different CRISPR against EXOSC9. EXOSC9 protein appears as the green arrow, Beta-actin serves as a control and appears in red arrow.
 K562_Bethyl_A303-888A_1_EXOSC9.png<br>Caption: IP-Western Blot analysis of K562 whole cell lysate using PRPF8 specific antibody. Lane 1 is 1% of twenty million whole cell lysate input and lane 2 is 25% of IP enrichment using rabbit normal IgG (lanes under 'IgG'). Lane 3 is 1% of twenty million whole cell lysate input and lane 4 is 10% IP enrichment using rabbit polyclonal anti-PRPF8 antibody (lanes under 'PRPF8').
 EXOSC9_Secondary_Western.png<br>Caption: Western blot following shRNA against EXOSC9 in K562 and HepG2 whole cell lysate using EXOSC9 specific antibody. Lane 1 is a ladder, lane 2 is K562 non-targeting control knockdown, lane 3 and 4 are two different shRNAs against EXOSC9. Lanes 5-7 follow the same pattern, but in HepG2. EXOSC9 protein appears as the green band, GAPDH serves as a control and appears in red.
EXOSC9-K562-CRISPR-A303-888A.png<br>Caption: Western blot following CRISPR against EXOSC9 in K562 whole cell lysate using EXOSC9 specific antibody. Lane 1 is a ladder, lane 2 is K562 non-targeting control knockdown, lane 3 and 4 are two different CRISPR against EXOSC9. EXOSC9 protein appears as the green arrow, Beta-actin serves as a control and appears in red arrow.




Experiment Status
BGHcLV41-59BGHcLV41-60
Sample_IDBGHcLV41-59BGHcLV41-60
Sample Name
Sample NameEXOSC9-BGHcLV41-59EXOSC9-BGHcLV41-60
RBPEXOSC9EXOSC9
Cell_LineHepG2HepG2
Exp UID
StatusSubmittingSubmitting
Status_date2024-09-202024-09-20
ProjectENCORE2ENCORE2
Note
ID1297212973




Library-Prep Information
BGHcLV41-59BGHcLV41-60
Sample #2526
Sample NameEXOSC9-BGHcLV41-59EXOSC9-BGHcLV41-60
Sample_Name_Alias
Index Well PositionA04B04
Index_tableIDT_UniqueDualIndex_96IDT_UniqueDualIndex_96
LibPrep_date2024-03-012024-03-01
Lib_IDLib-240301Lib-240301
Tecan_Location
Tecan
Tecan_date
Size_bp300298
Peak_Molarity103.0095.70
libSampleQC_DNA_WellDNA_Library_set70/set1/A4.pngDNA_Library_set70/set1/B4.png
RIN9.99.9
libSample_RNA_WellRNA_Library_set70/set1/E9.pngRNA_Library_set70/set1/F9.png
SampleQC_methodTapeStation_2022TapeStation_2022
SampleQC_date2024-03-142024-03-14
Sample_IDBGHcLV41-59BGHcLV41-60
RBPEXOSC9EXOSC9
Batch_IDBGHcLV41BGHcLV41
WB_result69.00063.100
Library DescriptionTruSeq mRNATruSeq mRNA
Repeat_Library_Suffix
Lib_StatusSendToSequenceSendToSequence
ProjectENCORE2ENCORE2
ID42504251




Sequencing Information
BGHcLV41-59BGHcLV41-60
Sample_IDBGHcLV41-59BGHcLV41-60
Sample NameEXOSC9-BGHcLV41-59EXOSC9-BGHcLV41-60
Pool IDPool-240314Pool-240314
LocalServer_folderset70set70
total_reads48,075,26228,034,080
total_aligned_reads43,625,85424,310,217
unique_aligned_reads41,203,15122,979,385
percent_uniqueAligned0.857060.81969
correlation_replicates0.9981630.998163
spikein_reads6,2001,162
percent_spikeins0.000130.00004
original_ReadLength151151
QC_StatusSubmittingSubmitting
ID29692970




Data Submission Information
DCC submission information was not avaliable




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