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HSPA9 RNA-Seq in K562



HSPA9      CRISPR in K562      Control:

General Information
RBPHSPA9
Cell_LineK562
MethodCRISPR
Exp_NameHSPA9-BGKcLV42-K562
ENCODE_series_ID
Batch_IDBGKcLV42
Pool IDPool-240715
Local_Set_Nameset73
ENCODE_KD_Exp_ID
ENCODE_CN_Exp_ID
Rep1HSPA9-BGKcLV42-43
Rep2HSPA9-BGKcLV42-44
CN1NT-BGKcLV42-1
CN2NT-BGKcLV42-2
Rep1_qPCR38.2
Rep2_qPCR31.8
Rep1_WB62.5
Rep2_WB65.3
Antibody Cat#3593S
Antibody Lot#lot # 2
Antibody DCC ID
StatusSubmitted
ProjectENCORE2
ID1543




Experiment Information (Status: Sequenced)
BGKcLV42-43BGKcLV42-44
idx00
TRCN#_or_BGC#BGC#0001146BGC#0001146
shRNA_or_gRNA_sequenceTGGGGATACCTTCTTAGGTGTGGGGATACCTTCTTAGGTG
PAMGGGGGG
NameHSPA9_82HSPA9_82
Sample_IDBGKcLV42-43BGKcLV42-44
transduction_Date4/23/244/23/24
daysD6D6
RBP_nameHSPA9HSPA9
qPCR_result38.231.8
Ave_qPCR35.0
RT-qPCR_primer-Faattacttggggcacacagc
RT-qPCR_primer-Rcgaagcacattcagtccaga
protein_conc15932018
WB_result62.565.3
Ave_WB63.9
WB_DONE_date5/6/24
MW75kd
IP
antibody_Cat#3593Slot # 2
Antibody DCC ID
submitted_to_DCC_date
Rep1_TPM00
Rep2_TPM00
ActionReadyReady
Library_start_date
repeat_library
Note
ID58035804




Western Blot
RBP Antibody InfoPrimary-HepG2Secondary-HepG2Primary-K562Secondary-K562Primary-UBERONPrimary-Hela
HSPA9Product_ID: 3593S
Lot_ID: 2
Source: Cell Signaling Technology
Target Name: HSPA9-human		 CST_3593S_2_HSPA9.png<br>Caption: IP-WB analysis of 3593S whole cell lysate using the HSPA9 specific antibody, 3593S. 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 HSPA9-specific antibody, 3593S. 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.
 HSPA9-K562-CRISPR-3593S.png<br>Caption: Western blot following CRISPR against HSPA9 in K562 whole cell lysate using HSPA9 specific antibody. Lane 1 is a ladder, lane 2 is K562 non-targeting control knockdown, lane 3 and 4 are two different CRISPR against HSPA9. HSPA9 protein appears as the green arrow, Beta-actin serves as a control and appears in red arrow.




Experiment Status
BGKcLV42-43BGKcLV42-44
Sample_IDBGKcLV42-43BGKcLV42-44
Sample Name
Sample NameHSPA9-BGKcLV42-43HSPA9-BGKcLV42-44
RBPHSPA9HSPA9
Cell_LineK562K562
Exp UID
StatusSequencedSequenced
Status_date2024-10-272024-10-27
ProjectENCORE2ENCORE2
Note
ID1308013081




Library-Prep Information
BGKcLV42-43BGKcLV42-44
Sample #3738
Sample NameHSPA9-BGKcLV42-43HSPA9-BGKcLV42-44
Sample_Name_Alias
Index Well PositionE05F05
Index_tableIDT_UniqueDualIndex_96IDT_UniqueDualIndex_96
LibPrep_date2024-06-212024-06-21
Lib_IDLib-240621Lib-240621
Tecan_Location
Tecan
Tecan_date
Size_bp289289
Peak_Molarity98.3092.10
libSampleQC_DNA_WellDNA_Library_set73/set1/E5.pngDNA_Library_set73/set1/F5.png
RIN10.09.9
libSample_RNA_WellRNA_Library_set73/set1/E5.pngRNA_Library_set73/set1/F5.png
SampleQC_methodTapeStation_2022TapeStation_2022
SampleQC_date2024-07-152024-07-15
Sample_IDBGKcLV42-43BGKcLV42-44
RBPHSPA9HSPA9
Batch_IDBGKcLV42BGKcLV42
WB_result62.50065.300
Library DescriptionTruSeq mRNATruSeq mRNA
Repeat_Library_Suffix
Lib_StatusSendToSequenceSendToSequence
ProjectENCORE2ENCORE2
ID43064307




Sequencing Information
BGKcLV42-43BGKcLV42-44
Sample_IDBGKcLV42-43BGKcLV42-44
Sample NameHSPA9-BGKcLV42-43HSPA9-BGKcLV42-44
Pool IDPool-240715Pool-240715
LocalServer_folderset73set73
total_reads43,381,80442,652,202
total_aligned_reads35,045,89733,893,274
unique_aligned_reads32,277,28931,188,196
percent_uniqueAligned0.744030.73122
correlation_replicates0.9983820.998382
spikein_reads5,3446,434
percent_spikeins0.000120.00015
original_ReadLength101101
QC_StatusReadyToSubmitReadyToSubmit
ID31733174




Data Submission Information
DCC submission information was not avaliable




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