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NSD2 RNA-Seq in K562



NSD2      CRISPR in K562      Control:

General Information
RBPNSD2
Cell_LineK562
MethodCRISPR
Exp_NameNSD2-BGKcLV44-K562
ENCODE_series_ID
Batch_IDBGKcLV44
Pool IDPool-241015
Local_Set_Nameset75
ENCODE_KD_Exp_ID
ENCODE_CN_Exp_ID
Rep1NSD2-BGKcLV44-39
Rep2NSD2-BGKcLV44-40
CN1NT-BGKcLV44-1
CN2NT-BGKcLV44-2
Rep1_qPCR16.0
Rep2_qPCR11.5
Rep1_WB97.1
Rep2_WB77.0
Antibody Cat#65127S
Antibody Lot#LOT# 1
Antibody DCC ID
StatusSubmitted
ProjectENCORE2
ID1602




Experiment Information (Status: Sequenced)
BGKcLV44-39BGKcLV44-40
idx00
TRCN#_or_BGC#BGC#0001035BGC#0001035
shRNA_or_gRNA_sequenceGCAGCTCGGAGTCTTCCCGTGCAGCTCGGAGTCTTCCCGT
PAMTGGTGG
NameNSD2_90NSD2_90
Sample_IDBGKcLV44-39BGKcLV44-40
transduction_Date7/30/247/30/24
daysD6D6
RBP_nameNSD2NSD2
qPCR_result16.011.5
Ave_qPCR13.7
RT-qPCR_primer-Faaaacgccacctctcaacat
RT-qPCR_primer-Rgagggccataaggatcttcc
protein_conc46954846
WB_result97.177.0
Ave_WB
WB_DONE_date8/12/24,8/22/24
MW152kd
IP
antibody_Cat#65127SLOT# 1
Antibody DCC ID
submitted_to_DCC_date
Rep1_TPM00
Rep2_TPM00
ActionReadyReady
Library_start_date
repeat_library
Note
ID59165917




Western Blot
RBP Antibody InfoPrimary-HepG2Secondary-HepG2Primary-K562Secondary-K562Primary-UBERONPrimary-Hela
NSD2Product_ID: 65127S
Lot_ID: 1
Source: Cell Signaling Technology
Target Name: NSD2-human		 CST_65127S_1_NSD2.png<br>Caption: IP-WB analysis of 65127S whole cell lysate using the NSD2 specific antibody, 65127S. 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 NSD2-specific antibody, 65127S. 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.
 NSD2-K562-CRISPR-65127S.png<br>Caption: Western blot following CRISPR against NSD2 in K562 whole cell lysate using NSD2 specific antibody. Lane 1 is a ladder, lane 2 is K562 non-targeting control knockdown, lane 3 and 4 are two different CRISPR against NSD2. NSD2 protein appears as the green arrow, Beta-actin serves as a control and appears in red arrow.




Experiment Status
BGKcLV44-39BGKcLV44-40
Sample_IDBGKcLV44-39BGKcLV44-40
Sample Name
Sample NameNSD2-BGKcLV44-39NSD2-BGKcLV44-40
RBPNSD2NSD2
Cell_LineK562K562
Exp UID
StatusSequencedSequenced
Status_date2024-11-062024-11-06
ProjectENCORE2ENCORE2
Note
ID1359613597




Library-Prep Information
BGKcLV44-39BGKcLV44-40
Sample #2526
Sample NameNSD2-BGKcLV44-39NSD2-BGKcLV44-40
Sample_Name_Alias
Index Well PositionA09B09
Index_tableIDT_UniqueDualIndex_96_V2IDT_UniqueDualIndex_96_V2
LibPrep_date2024-10-102024-10-10
Lib_IDLib-241010Lib-241010
Tecan_Location
Tecan
Tecan_date
Size_bp293286
Peak_Molarity101.0086.90
libSampleQC_DNA_WellDNA_Library_set75/set1/A9.pngDNA_Library_set75/set1/B9.png
RIN10.010.0
libSample_RNA_WellRNA_Library_set75/set1/A3.pngRNA_Library_set75/set1/B3.png
SampleQC_methodTapeStation_2022TapeStation_2022
SampleQC_date2024-10-152024-10-15
Sample_IDBGKcLV44-39BGKcLV44-40
RBPNSD2NSD2
Batch_IDBGKcLV44BGKcLV44
WB_result97.10077.000
Library DescriptionTruSeq mRNATruSeq mRNA
Repeat_Library_Suffix
Lib_StatusSendToSequenceSendToSequence
ProjectENCORE2ENCORE2
ID45844585




Sequencing Information
BGKcLV44-39BGKcLV44-40
Sample_IDBGKcLV44-39BGKcLV44-40
Sample NameNSD2-BGKcLV44-39NSD2-BGKcLV44-40
Pool IDPool-241015Pool-241015
LocalServer_folderset75set75
total_reads41,888,38036,842,812
total_aligned_reads39,707,53534,701,404
unique_aligned_reads36,766,87132,139,334
percent_uniqueAligned0.877730.87234
correlation_replicates0.9866260.986626
spikein_reads103,53482,744
percent_spikeins0.002470.00225
original_ReadLength101101
QC_StatusReadyToSubmitReadyToSubmit
ID32953296




Data Submission Information
DCC submission information was not avaliable




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