RBBP5      CRISPR in HepG2      Control: NT-BGHcLV43-1,NT-BGHcLV43-2

General Information
RBPRBBP5
Cell_LineHepG2
MethodCRISPR
Exp_NameRBBP5-BGHcLV43-HepG2
ENCODE_series_ID
Batch_IDBGHcLV43
Pool IDPool-240723
Local_Set_Nameset74
ENCODE_KD_Exp_ID
ENCODE_CN_Exp_ID
Rep1RBBP5-BGHcLV43-47
Rep2RBBP5-BGHcLV43-48
CN1NT-BGHcLV43-1
CN2NT-BGHcLV43-2
Rep1_qPCR59.8
Rep2_qPCR62.2
Rep1_WB73.9
Rep2_WB70.2
Antibody Cat#13171S
Antibody Lot#lot # 1
Antibody DCC ID
StatusSubmitted
ProjectENCORE2
ID1587




Experiment Information (Status: Submitting)
BGHcLV43-47BGHcLV43-48
idx14151416
TRCN#_or_BGC#BGC#0001178BGC#0001178
shRNA_or_gRNA_sequenceCAAACATGTTGTTCTGCCGGCAAACATGTTGTTCTGCCGG
PAMTGGTGG
NameRBBP5_92RBBP5_92
Sample_IDBGHcLV43-47BGHcLV43-48
transduction_Date6/6/246/6/24
daysD6D6
RBP_nameRBBP5RBBP5
qPCR_result59.862.2
Ave_qPCR61.0
RT-qPCR_primer-Fctgttcgacccatcatagca
RT-qPCR_primer-Rtgcaaatgcactccagtttt
protein_conc37234384
WB_result73.970.2
Ave_WB72.0
WB_DONE_date6/17/24
MW70kd
IP
antibody_Cat#13171Slot # 1
Antibody DCC ID
submitted_to_DCC_date
Rep1_TPM00
Rep2_TPM00
ActionReadyReady
Library_start_date
repeat_library
Note
ID96709671




Western Blot
RBP Antibody InfoPrimary-HepG2Secondary-HepG2Primary-K562Secondary-K562Primary-UBERONPrimary-Hela
RBBP5Product_ID: 13171S
Lot_ID: 1
Source: Cell Signaling Technology
Target Name: RBBP5-human		 RBBP5-HEPG2-CRISPR-13171S.png<br>Caption: Western blot following CRISPR against RBBP5 in HepG2 whole cell lysate using RBBP5 specific antibody. Lane 1 is a ladder, lane 2 is HepG2 non-targeting control knockdown, lane 3 and 4 are two different CRISPR against RBBP5. RBBP5 protein appears as the green arrow, Beta-actin serves as a control and appears in red arrow.
 CST_13171S_1_RBBP5.png<br>Caption: IP-WB analysis of 13171S whole cell lysate using the RBBP5 specific antibody, 13171S. 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 RBBP5-specific antibody, 13171S. 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.
 RBBP5-K562-CRISPR-13171S.png<br>Caption: Western blot following CRISPR against RBBP5 in K562 whole cell lysate using RBBP5 specific antibody. Lane 1 is a ladder, lane 2 is K562 non-targeting control knockdown, lane 3 and 4 are two different CRISPR against RBBP5. RBBP5 protein appears as the green arrow, Beta-actin serves as a control and appears in red arrow.




Experiment Status
BGHcLV43-47BGHcLV43-48
Sample_IDBGHcLV43-47BGHcLV43-48
Sample Name
Sample NameRBBP5-BGHcLV43-47RBBP5-BGHcLV43-48
RBPRBBP5RBBP5
Cell_LineHepG2HepG2
Exp UID
StatusSubmittingSubmitting
Status_date2025-02-112025-02-11
ProjectENCORE2ENCORE2
Note
ID1326413265




Library-Prep Information
BGHcLV43-47BGHcLV43-48
Sample #3738
Sample NameRBBP5-BGHcLV43-47RBBP5-BGHcLV43-48
Sample_Name_Alias
Index Well PositionE10F10
Index_tableIDT_UniqueDualIndex_96IDT_UniqueDualIndex_96
LibPrep_date2024-07-222024-07-22
Lib_IDLib-240722Lib-240722
Tecan_Location
Tecan
Tecan_date
Size_bp293295
Peak_Molarity96.2076.90
libSampleQC_DNA_WellDNA_Library_set74/set1/E5.pngDNA_Library_set74/set1/F5.png
RIN10.010.0
libSample_RNA_WellRNA_Library_set74/set1/A11.pngRNA_Library_set74/set1/B11.png
SampleQC_methodTapeStation_2022TapeStation_2022
SampleQC_date2024-07-232024-07-23
Sample_IDBGHcLV43-47BGHcLV43-48
RBPRBBP5RBBP5
Batch_IDBGHcLV43BGHcLV43
WB_result73.90070.200
Library DescriptionTruSeq mRNATruSeq mRNA
Repeat_Library_Suffix
Lib_StatusSendToSequenceSendToSequence
ProjectENCORE2ENCORE2
ID43964397




Sequencing Information
BGHcLV43-47BGHcLV43-48
Sample_IDBGHcLV43-47BGHcLV43-48
Sample NameRBBP5-BGHcLV43-47RBBP5-BGHcLV43-48
Pool IDPool-240723Pool-240723
LocalServer_folderset74set74
total_reads27,824,54349,926,322
total_aligned_reads25,622,17647,175,119
unique_aligned_reads24,067,91844,282,544
percent_uniqueAligned0.864990.88696
correlation_replicates0.9991450.999145
spikein_reads14,25231,038
percent_spikeins0.000510.00062
original_ReadLength101101
QC_StatusSubmittingSubmitting
ID32633264




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
RBBP5-BGHcLV43-47_S127_L003_R1_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set74/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab3263NovaSeq6000100paired-ended1NT-BGHcLV43-1_S91_L003_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV43-2_S92_L003_R1_001.filtered.trimmed.paired.fastq.gzENCORE230556
RBBP5-BGHcLV43-47_S127_L003_R2_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set74/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab3263NovaSeq6000100paired-ended2NT-BGHcLV43-1_S91_L003_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV43-2_S92_L003_R2_001.filtered.trimmed.paired.fastq.gzENCORE230608
RBBP5-BGHcLV43-47_Aligned.sortedByCoord.out.bamENCODE_DATA/set74/STAR_ENCORE2_trimmed_file_linksbamalignmentsknockdown followed by RNA-seqGraveley Lab3263GRCh38V40RBBP5-BGHcLV43-47_S127_L003_R1_001.filtered.trimmed.paired.fastq.gz,RBBP5-BGHcLV43-47_S127_L003_R2_001.filtered.trimmed.paired.fastq.gzENCORE230660
RBBP5-BGHcLV43-47_Signal.UniqueMultiple.strand-.bwENCODE_DATA/set74/STAR_ENCORE2_trimmed_file_linksbigWig-allminus strand signal of all readsknockdown followed by RNA-seqGraveley Lab3263GRCh38V40RBBP5-BGHcLV43-47_Aligned.sortedByCoord.out.bamENCORE230712
RBBP5-BGHcLV43-47_Signal.UniqueMultiple.strand+.bwENCODE_DATA/set74/STAR_ENCORE2_trimmed_file_linksbigWig+allplus strand signal of all readsknockdown followed by RNA-seqGraveley Lab3263GRCh38V40RBBP5-BGHcLV43-47_Aligned.sortedByCoord.out.bamENCORE230764
RBBP5-BGHcLV43-47_Signal.Unique.strand-.bwENCODE_DATA/set74/STAR_ENCORE2_trimmed_file_linksbigWig-uniqueminus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab3263GRCh38V40RBBP5-BGHcLV43-47_Aligned.sortedByCoord.out.bamENCORE230816
RBBP5-BGHcLV43-47_Signal.Unique.strand+.bwENCODE_DATA/set74/STAR_ENCORE2_trimmed_file_linksbigWig+uniqueplus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab3263GRCh38V40RBBP5-BGHcLV43-47_Aligned.sortedByCoord.out.bamENCORE230868
RBBP5-BGHcLV43-47_quant.sfENCODE_DATA/set74/salmon_ENCORE2_file_linkstranscript_quantificationtranscript quantificationsknockdown followed by RNA-seqGraveley Lab3263GRCh38V40RBBP5-BGHcLV43-47_S127_L003_R1_001.filtered.trimmed.paired.fastq.gz,RBBP5-BGHcLV43-47_S127_L003_R2_001.filtered.trimmed.paired.fastq.gzENCORE230920
RBBP5-BGHcLV43-48_S128_L003_R1_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set74/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab3264NovaSeq6000100paired-ended1NT-BGHcLV43-1_S91_L003_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV43-2_S92_L003_R1_001.filtered.trimmed.paired.fastq.gzENCORE230557
RBBP5-BGHcLV43-48_S128_L003_R2_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set74/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab3264NovaSeq6000100paired-ended2NT-BGHcLV43-1_S91_L003_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV43-2_S92_L003_R2_001.filtered.trimmed.paired.fastq.gzENCORE230609
RBBP5-BGHcLV43-48_Aligned.sortedByCoord.out.bamENCODE_DATA/set74/STAR_ENCORE2_trimmed_file_linksbamalignmentsknockdown followed by RNA-seqGraveley Lab3264GRCh38V40RBBP5-BGHcLV43-48_S128_L003_R1_001.filtered.trimmed.paired.fastq.gz,RBBP5-BGHcLV43-48_S128_L003_R2_001.filtered.trimmed.paired.fastq.gzENCORE230661
RBBP5-BGHcLV43-48_Signal.UniqueMultiple.strand-.bwENCODE_DATA/set74/STAR_ENCORE2_trimmed_file_linksbigWig-allminus strand signal of all readsknockdown followed by RNA-seqGraveley Lab3264GRCh38V40RBBP5-BGHcLV43-48_Aligned.sortedByCoord.out.bamENCORE230713
RBBP5-BGHcLV43-48_Signal.UniqueMultiple.strand+.bwENCODE_DATA/set74/STAR_ENCORE2_trimmed_file_linksbigWig+allplus strand signal of all readsknockdown followed by RNA-seqGraveley Lab3264GRCh38V40RBBP5-BGHcLV43-48_Aligned.sortedByCoord.out.bamENCORE230765
RBBP5-BGHcLV43-48_Signal.Unique.strand-.bwENCODE_DATA/set74/STAR_ENCORE2_trimmed_file_linksbigWig-uniqueminus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab3264GRCh38V40RBBP5-BGHcLV43-48_Aligned.sortedByCoord.out.bamENCORE230817
RBBP5-BGHcLV43-48_Signal.Unique.strand+.bwENCODE_DATA/set74/STAR_ENCORE2_trimmed_file_linksbigWig+uniqueplus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab3264GRCh38V40RBBP5-BGHcLV43-48_Aligned.sortedByCoord.out.bamENCORE230869
RBBP5-BGHcLV43-48_quant.sfENCODE_DATA/set74/salmon_ENCORE2_file_linkstranscript_quantificationtranscript quantificationsknockdown followed by RNA-seqGraveley Lab3264GRCh38V40RBBP5-BGHcLV43-48_S128_L003_R1_001.filtered.trimmed.paired.fastq.gz,RBBP5-BGHcLV43-48_S128_L003_R2_001.filtered.trimmed.paired.fastq.gzENCORE230921