TAF15      shRNA in K562      Batch: BGKLV08_57

Experiment Information (Status: Released)
BGKLV08-58BGKLV08-58BGKLV08-58BGKLV08-58
idx5961630
TRCN#_or_BGC#TRCN0000020143TRCN0000020143TRCN0000020143TRCN0000020143
shRNA_or_gRNA_sequenceGCTCGAAGGAATTCCTGCAATGCTCGAAGGAATTCCTGCAATGCTCGAAGGAATTCCTGCAATGCTCGAAGGAATTCCTGCAAT
PAM
NameTAF15TAF15TAF15TAF15
Sample_IDBGKLV08-58BGKLV08-58BGKLV08-58BGKLV08-58
transduction_Date4/4/20144/4/20144/4/20144/4/2014
days
RBP_nameTAF15TAF15TAF15TAF15
qPCR_result56.256.256.256.2
Ave_qPCR
RT-qPCR_primer-F
RT-qPCR_primer-R
protein_conc2733273327332733
WB_result66.875.485.171.9
Ave_WB
WB_DONE_date
MWWESWESwes
IP11fu's
antibody_Cat#A300-307AA300-308Aab134916LOT# SA242977
Antibody DCC IDENCAB249IHJENCAB228JAJ
submitted_to_DCC_date
Rep1_TPM0000
Rep2_TPM0000
ActionReady
Library_start_date5/9/2014
repeat_library
Note
ID62646668




Western Blot
RBP Antibody InfoPrimary-HepG2Secondary-HepG2Primary-K562Secondary-K562Primary-UBERONPrimary-Hela
TAF15Product_ID: A300-308A
Lot_ID: 1
Source: Bethyl Labs
Target Name: TAF15-human		 HepG2_Bethyl_A300-308A_1_TAF15.png<br>Caption: IP-Western Blot analysis of HepG2 whole cell lysate using TAF15 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-TAF15 antibody (lanes under 'TAF15').
 TAF15-HEPG2-A300-308A.png<br>Caption: Western blot following shRNA against TAF15 in HepG2 whole cell lysate using TAF15 specific antibody. Lane 1 is a ladder, lane 2 is HepG2 non-targeting control knockdown, lane 3 and 4 are two different shRNAs against TAF15. TAF15 protein appears as the green arrow, GAPDH serves as a control and appears in red arrow.
 K562_Bethyl_A300-308A_1_TAF15.png<br>Caption: IP-Western Blot analysis of K562 whole cell lysate using TAF15 specific antibody. Lane 1 is 1% of twenty million whole cell lysate input and lane 2 is 10% 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-TAF15 antibody (lanes under 'TAF15').
 TAF15-K562-A300-308A.png<br>Caption: Western blot following shRNA against TAF15 in K562 whole cell lysate using TAF15 specific antibody. Lane 1 is a ladder, lane 2 is K562 non-targeting control knockdown, lane 3 and 4 are two different shRNAs against TAF15. TAF15 protein appears as the green arrow, GAPDH serves as a control and appears in red arrow.
TAF15Product_ID: ab134916
Lot_ID: YJ030723S
Source: Abcam
Target Name: TAF15-human		 TAF15_HepG2.png<br>Caption: IP-Western Blot analysis of HepG2 whole cell lysate using TAF15 specific antibody. Lane 1 is 5% of ten million whole cell lysate input (lane under '25% input') , lane 2 is 20% of IP enrichment using rabbit normal IgG (lane under 'IgG') and lane 3 is 20% IP enrichment using rabbit monoclonal anti-TAF15 antibody (lanes under 'anti-TAF15').
 TAF15_K562.png<br>Caption: IP-Western Blot analysis of K562 whole cell lysate using TAF15 specific antibody. Lane 1 is 4% of ten million whole cell lysate input (lane under '20% input') , lane 2 is 20% of IP enrichment using rabbit normal IgG (lane under 'IgG') and lane 3 is 20% IP enrichment using rabbit monoclonal anti-TAF15 antibody (lanes under 'anti-TAF15'). Asterisk indicates heavy chain of antibody.
 TAF15-K562-FU%27S.png<br>Caption: Western blot following shRNA against TAF15 in K562 whole cell lysate using TAF15 specific antibody. Lane 1 is a ladder, lane 2 is K562 non-targeting control knockdown, lane 3 and 4 are two different shRNAs against TAF15.TAF15 protein appears as the green arrow, GAPDH serves as a control and appears in red arrow.
TAF15Product_ID: MA3-078
Lot_ID: SA242977
Source: Thermo Fisher
Target Name: TAF15-human		 ThermoFisher_MA3-078_SA242977_TAF15.png<br>Caption: IP-WB analysis of K562 whole cell lysate using the TAF15 specific antibody, MA3-078. Lanes 1 and 3 are 2.5% of five million whole cell lysate input. Lanes 2 and 4 are 50% of IP enrichment from five million whole cell lysate using normal IgG antibody and the TAF15-specific antibody, MA3-078. 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.
 TAF15-K562-MA3-078.png<br>Caption: Western blot following shRNA against TAF15 in K562 whole cell lysate using TAF15 specific antibody. Lane 1 is a ladder, lane 2 is K562 non-targeting control knockdown, lane 3 and 4 are two different shRNA against TAF15. TAF15 protein appears as the green arrow, Beta-actin serves as a control and appears in red arrow.




Experiment Status
BGKLV08-58
Sample_IDBGKLV08-58
Sample NameTAF15-LV08-58
Sample NameTAF15-LV08-58
RBPTAF15
Cell_LineK562
Exp UID
StatusReleased
Status_date2014-09-16
ProjectENCODE3
Note
ID317




Library-Prep Information
BGKLV08-58
Sample #
Sample NameTAF15-BGKLV08-58
Sample_Name_AliasTAF15-LV08-58
Index Well PositionS02
Index_tableIDT_TruSeqSingleIndex_24
LibPrep_date2014-05-08
Lib_IDLib-140508
Tecan_Location
Tecan
Tecan_date
Size_bp
Peak_Molarity
libSampleQC_DNA_WellDNA_Library_LV08/set5/D1.png
RIN9.0
libSample_RNA_WellRNA_Library_LV08/set4/D1.png
SampleQC_methodTapeStation
SampleQC_date
Sample_IDBGKLV08-58
RBPTAF15
Batch_IDBGKLV08
WB_result66.800
Library DescriptionTruSeq mRNA
Repeat_Library_Suffix
Lib_StatusSendToSequence
ProjectENCODE3
ID1937




Sequencing Information
BGKLV08-58
Sample_IDBGKLV08-58
Sample NameTAF15-LV08-58
Pool IDPool-140601
LocalServer_folderset10
total_reads43,460,000
total_aligned_reads40,050,130
unique_aligned_reads36,772,642
percent_uniqueAligned0.84613
correlation_replicates0.977241
spikein_reads378,276
percent_spikeins0.00870
original_ReadLength100
QC_StatusSubmitted
ID637




Data Submission Information
DCC submission information was not avaliable




File Information
file_namefile_pathfile_formatoutput_typeassay_typelabSample IDplatformread_lengthrun_typepaired_endassemblygenome_annotationderived_fromcontrolled_byProjectNoteFILE_ID
TAF15-LV08-58_Aligned.sortedByCoord.out.bamENCODE_DATA/set10/STAR_ENCORE2_file_linksbamalignmentsknockdown followed by RNA-seqGraveley Lab637GRCh38V40TAF15-LV08-58_CGATGT_L008_R1_001.fastq.gz,TAF15-LV08-58_CGATGT_L008_R2_001.fastq.gzENCORE212024
TAF15-LV08-58_CGATGT_L008_R1_001.fastq.gzENCODE_DATA/set10/fastqfastqreadsknockdown followed by RNA-seqGraveley Lab637HiSeq2000100paired-ended1Nontarget-LV08-1_00003531_GATCAG_L005_R1_001.fastq.gz,nontarget-LV08-2_00003531_TAGCTT_L005_R1_001.fastq.gzENCODE312080
TAF15-LV08-58_CGATGT_L008_R2_001.fastq.gzENCODE_DATA/set10/fastqfastqreadsknockdown followed by RNA-seqGraveley Lab637HiSeq2000100paired-ended2Nontarget-LV08-1_00003531_GATCAG_L005_R2_001.fastq.gz,nontarget-LV08-2_00003531_TAGCTT_L005_R2_001.fastq.gzENCODE312136
TAF15-LV08-58_Signal.Unique.strand+.bwENCODE_DATA/set10/STAR_ENCORE2_file_linksbigWig+uniqueplus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab637GRCh38V40TAF15-LV08-58/Aligned.sortedByCoord.out.bamENCORE212192
TAF15-LV08-58_Signal.Unique.strand-.bwENCODE_DATA/set10/STAR_ENCORE2_file_linksbigWig-uniqueminus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab637GRCh38V40TAF15-LV08-58/Aligned.sortedByCoord.out.bamENCORE212248
TAF15-LV08-58_Signal.UniqueMultiple.strand+.bwENCODE_DATA/set10/STAR_ENCORE2_file_linksbigWig+allplus strand signal of all readsknockdown followed by RNA-seqGraveley Lab637GRCh38V40TAF15-LV08-58/Aligned.sortedByCoord.out.bamENCORE212304
TAF15-LV08-58_Signal.UniqueMultiple.strand-.bwENCODE_DATA/set10/STAR_ENCORE2_file_linksbigWig-allminus strand signal of all readsknockdown followed by RNA-seqGraveley Lab637GRCh38V40TAF15-LV08-58/Aligned.sortedByCoord.out.bamENCORE212360
TAF15-LV08-58_quant.sfENCODE_DATA/set10/salmon_ENCORE2transcript_quantificationtranscript quantificationsknockdown followed by RNA-seqGraveley Lab637GRCh38V40TAF15-LV08-58_CGATGT_L008_R1_001.fastq.gz,TAF15-LV08-58_CGATGT_L008_R2_001.fastq.gzENCORE213359