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TFAM RNA-Seq in HepG2



TFAM      CRISPR in HepG2      Control:

General Information
RBPTFAM
Cell_LineHepG2
MethodCRISPR
Exp_NameTFAM-BGHcLV43-HepG2
ENCODE_series_ID
Batch_IDBGHcLV43
Pool IDPool-240723
Local_Set_Nameset74
ENCODE_KD_Exp_ID
ENCODE_CN_Exp_ID
Rep1TFAM-BGHcLV43-55
Rep2TFAM-BGHcLV43-56
CN1NT-BGHcLV43-1
CN2NT-BGHcLV43-2
Rep1_qPCR88.4
Rep2_qPCR83.2
Rep1_WB57.6
Rep2_WB68.0
Antibody Cat#8076S
Antibody Lot#lot # 4
Antibody DCC ID
StatusSubmitted
ProjectENCORE2
ID1590




Experiment Information (Status: Sequenced)
BGHcLV43-55BGHcLV43-56
idx14231424
TRCN#_or_BGC#BGC#0001195BGC#0001195
shRNA_or_gRNA_sequenceAGGAAGTTCCCTCCAACGCTAGGAAGTTCCCTCCAACGCT
PAMGGGGGG
NameTFAM_91TFAM_91
Sample_IDBGHcLV43-55BGHcLV43-56
transduction_Date6/6/246/6/24
daysD6D6
RBP_nameTFAMTFAM
qPCR_result88.483.2
Ave_qPCR85.8
RT-qPCR_primer-Fccgaggtggttttcatctgt
RT-qPCR_primer-Racgctgggcaattcttctaa
protein_conc44413992
WB_result57.668.0
Ave_WB62.8
WB_DONE_date6/25/24
MW24kd
IP
antibody_Cat#8076Slot # 4
Antibody DCC ID
submitted_to_DCC_date
Rep1_TPM00
Rep2_TPM00
ActionReadyReady
Library_start_date
repeat_library
Note
ID76307631




Western Blot
RBP Antibody InfoPrimary-HepG2Secondary-HepG2Primary-K562Secondary-K562Primary-UBERONPrimary-Hela
TFAMProduct_ID: 8076S
Lot_ID: 4
Source: Cell Signaling Technology
Target Name: TFAM-human		 TFAM-HEPG2-CRISPR-8076S.png<br>Caption: Western blot following CRISPR against TFAM in HepG2 whole cell lysate using TFAM specific antibody. Lane 1 is a ladder, lane 2 is HepG2 non-targeting control knockdown, lane 3 and 4 are two different CRISPR against TFAM. TFAM protein appears as the green arrow, Beta-actin serves as a control and appears in red arrow.
 CST_8076S_4_TFAM.png<br>Caption: IP-WB analysis of 8076S whole cell lysate using the TFAM specific antibody, 8076S. 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 TFAM-specific antibody, 8076S. 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.
 TFAM-K562-CRISPR-8076S.png<br>Caption: Western blot following CRISPR against TFAM in K562 whole cell lysate using TFAM specific antibody. Lane 1 is a ladder, lane 2 is K562 non-targeting control knockdown, lane 3 and 4 are two different CRISPR against TFAM. TFAM protein appears as the green arrow, Beta-actin serves as a control and appears in red arrow.




Experiment Status
BGHcLV43-55BGHcLV43-56
Sample_IDBGHcLV43-55BGHcLV43-56
Sample Name
Sample NameTFAM-BGHcLV43-55TFAM-BGHcLV43-56
RBPTFAMTFAM
Cell_LineHepG2HepG2
Exp UID
StatusSequencedSequenced
Status_date2024-10-272024-10-27
ProjectENCORE2ENCORE2
Note
ID1327013271




Library-Prep Information
BGHcLV43-55BGHcLV43-56
Sample #4344
Sample NameTFAM-BGHcLV43-55TFAM-BGHcLV43-56
Sample_Name_Alias
Index Well PositionC11D11
Index_tableIDT_UniqueDualIndex_96IDT_UniqueDualIndex_96
LibPrep_date2024-07-222024-07-22
Lib_IDLib-240722Lib-240722
Tecan_Location
Tecan
Tecan_date
Size_bp302273
Peak_Molarity85.5099.80
libSampleQC_DNA_WellDNA_Library_set74/set1/C6.pngDNA_Library_set74/set1/D6.png
RIN10.010.0
libSample_RNA_WellRNA_Library_set74/set1/G11.pngRNA_Library_set74/set1/H11.png
SampleQC_methodTapeStation_2022TapeStation_2022
SampleQC_date2024-07-232024-07-23
Sample_IDBGHcLV43-55BGHcLV43-56
RBPTFAMTFAM
Batch_IDBGHcLV43BGHcLV43
WB_result57.60068.000
Library DescriptionTruSeq mRNATruSeq mRNA
Repeat_Library_Suffix
Lib_StatusSendToSequenceSendToSequence
ProjectENCORE2ENCORE2
ID44024403




Sequencing Information
BGHcLV43-55BGHcLV43-56
Sample_IDBGHcLV43-55BGHcLV43-56
Sample NameTFAM-BGHcLV43-55TFAM-BGHcLV43-56
Pool IDPool-240723Pool-240723
LocalServer_folderset74set74
total_reads43,192,47752,326,803
total_aligned_reads38,301,37850,498,911
unique_aligned_reads35,913,60347,484,799
percent_uniqueAligned0.831480.90747
correlation_replicates0.9933860.993386
spikein_reads36,93019,326
percent_spikeins0.000860.00037
original_ReadLength101101
QC_StatusReadyToSubmitReadyToSubmit
ID32693270




Data Submission Information
DCC submission information was not avaliable




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