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RACK1 RNA-Seq in K562



RACK1      CRISPR in K562      Control:

General Information
RBPRACK1
Cell_LineK562
MethodCRISPR
Exp_NameRACK1-BGKcLV44-K562
ENCODE_series_ID
Batch_IDBGKcLV44
Pool IDPool-241015
Local_Set_Nameset75
ENCODE_KD_Exp_ID
ENCODE_CN_Exp_ID
Rep1RACK1-BGKcLV44-49
Rep2RACK1-BGKcLV44-50
CN1NT-BGKcLV44-1
CN2NT-BGKcLV44-2
Rep1_qPCR85.9
Rep2_qPCR82.3
Rep1_WB61.0
Rep2_WB65.9
Antibody Cat#5432S
Antibody Lot#lot # 2
Antibody DCC ID
StatusSubmitted
ProjectENCORE2
ID1605




Experiment Information (Status: Sequenced)
BGKcLV44-49BGKcLV44-50
idx00
TRCN#_or_BGC#BGC#0001046BGC#0001046
shRNA_or_gRNA_sequenceTTAGTCCGTACCTCGAGAGGTTAGTCCGTACCTCGAGAGG
PAMCGGCGG
NameRACK1_96RACK1_96
Sample_IDBGKcLV44-49BGKcLV44-50
transduction_Date7/30/247/30/24
daysD6D6
RBP_nameRACK1RACK1
qPCR_result85.982.3
Ave_qPCR84.1
RT-qPCR_primer-Ftaaccgctactggctgtgtg
RT-qPCR_primer-Rgccttgctgctggtactgat
protein_conc49094403
WB_result61.065.9
Ave_WB63.4
WB_DONE_date8/13/24
MW35kd
IP
antibody_Cat#5432Slot # 2
Antibody DCC ID
submitted_to_DCC_date
Rep1_TPM00
Rep2_TPM00
ActionReadyReady
Library_start_date
repeat_library
Note
ID59265927




Western Blot
RBP Antibody InfoPrimary-HepG2Secondary-HepG2Primary-K562Secondary-K562Primary-UBERONPrimary-Hela
RACK1Product_ID: 5432S
Lot_ID: 2
Source: Cell Signaling Technology
Target Name: RACK1-human		 RACK1-HEPG2-CRISPR-5432S.png<br>Caption: Western blot following CRISPR against RACK1 in HepG2 whole cell lysate using RACK1 specific antibody. Lane 1 is a ladder, lane 2 is HepG2 non-targeting control knockdown, lane 3 and 4 are two different CRISPR against RACK1. RACK1 protein appears as the green arrow, Beta-actin serves as a control and appears in red arrow.
 CST_5432S_2_RACK1.png<br>Caption: IP-WB analysis of 5432S whole cell lysate using the RACK1 specific antibody, 5432S. 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 RACK1-specific antibody, 5432S. 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.
 RACK1-K562-CRISPR-5432S.png<br>Caption: Western blot following CRISPR against RACK1 in K562 whole cell lysate using RACK1 specific antibody. Lane 1 is a ladder, lane 2 is K562 non-targeting control knockdown, lane 3 and 4 are two different CRISPR against RACK1. RACK1 protein appears as the green arrow, Beta-actin serves as a control and appears in red arrow.




Experiment Status
BGKcLV44-49BGKcLV44-50
Sample_IDBGKcLV44-49BGKcLV44-50
Sample Name
Sample NameRACK1-BGKcLV44-49RACK1-BGKcLV44-50
RBPRACK1RACK1
Cell_LineK562K562
Exp UID
StatusSequencedSequenced
Status_date2024-11-062024-11-06
ProjectENCORE2ENCORE2
Note
ID1360213603




Library-Prep Information
BGKcLV44-49BGKcLV44-50
Sample #3132
Sample NameRACK1-BGKcLV44-49RACK1-BGKcLV44-50
Sample_Name_Alias
Index Well PositionG09H09
Index_tableIDT_UniqueDualIndex_96_V2IDT_UniqueDualIndex_96_V2
LibPrep_date2024-10-102024-10-10
Lib_IDLib-241010Lib-241010
Tecan_Location
Tecan
Tecan_date
Size_bp295286
Peak_Molarity67.7065.70
libSampleQC_DNA_WellDNA_Library_set75/set1/G9.pngDNA_Library_set75/set1/H9.png
RIN10.010.0
libSample_RNA_WellRNA_Library_set75/set1/G3.pngRNA_Library_set75/set1/H3.png
SampleQC_methodTapeStation_2022TapeStation_2022
SampleQC_date2024-10-152024-10-15
Sample_IDBGKcLV44-49BGKcLV44-50
RBPRACK1RACK1
Batch_IDBGKcLV44BGKcLV44
WB_result61.00065.900
Library DescriptionTruSeq mRNATruSeq mRNA
Repeat_Library_Suffix
Lib_StatusSendToSequenceSendToSequence
ProjectENCORE2ENCORE2
ID45904591




Sequencing Information
BGKcLV44-49BGKcLV44-50
Sample_IDBGKcLV44-49BGKcLV44-50
Sample NameRACK1-BGKcLV44-49RACK1-BGKcLV44-50
Pool IDPool-241015Pool-241015
LocalServer_folderset75set75
total_reads50,614,70958,720,587
total_aligned_reads47,951,04454,961,460
unique_aligned_reads44,656,62151,006,284
percent_uniqueAligned0.882290.86863
correlation_replicates0.9960830.996083
spikein_reads64,820112,178
percent_spikeins0.001280.00191
original_ReadLength101101
QC_StatusReadyToSubmitReadyToSubmit
ID33013302




Data Submission Information
DCC submission information was not avaliable




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