RPS12      CRISPR in K562      Control: NT-BGKcLV46-1,NT-BGKcLV46-2

General Information
RBPRPS12
Cell_LineK562
MethodCRISPR
Exp_NameRPS12-BGKcLV46-K562
ENCODE_series_ID
Batch_IDBGKcLV46
Pool IDPool-250312
Local_Set_Nameset77
ENCODE_KD_Exp_ID
ENCODE_CN_Exp_ID
Rep1RPS12-BGKcLV46-69
Rep2RPS12-BGKcLV46-70
CN1NT-BGKcLV46-1
CN2NT-BGKcLV46-2
Rep1_qPCR0.0
Rep2_qPCR8.4
Rep1_WB67.4
Rep2_WB67.2501
Antibody Cat#A305-037A
Antibody Lot#lot# 1
Antibody DCC ID
StatusSubmitted
ProjectENCORE2
ID1650




Experiment Information (Status: Submitting)
BGKcLV46-69BGKcLV46-70
idx00
TRCN#_or_BGC#BGC#0001262BGC#0001262
shRNA_or_gRNA_sequenceTCACCCTTCCTCGGCCATGGTCACCCTTCCTCGGCCATGG
PAMCGGCGG
NameRPS12_78URPS12_78U
Sample_IDBGKcLV46-69BGKcLV46-70
transduction_Date12/20/2412/20/24
daysD6D6
RBP_nameRPS12RPS12
qPCR_result0.08.4
Ave_qPCR4.2
RT-qPCR_primer-F
RT-qPCR_primer-R
protein_conc37342868
WB_result67.467.2501
Ave_WB
WB_DONE_date1/23/24,1/12/25
MW15kd
IP
antibody_Cat#A305-037Alot# 1
Antibody DCC ID
submitted_to_DCC_date
Rep1_TPM00
Rep2_TPM00
ActionReadyReady
Library_start_date
repeat_library
Note
ID60656066




Western Blot
RBP Antibody InfoPrimary-HepG2Secondary-HepG2Primary-K562Secondary-K562Primary-UBERONPrimary-Hela
RPS12Product_ID: A305-037A
Lot_ID: 1
Source: Bethyl Labs
Target Name: RPS12-human
Bethyl_A305-037A_1_RPS12.png<br>Caption: IP-WB analysis of K562 whole cell lysate using the RPS12 specific antibody, A305-037A. 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 RPS12-specific antibody, A305-037A. 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.
RPS12-K562-CRISPR-A305-037A.png<br>Caption: Western blot following CRISPR against RPS12 in K562 whole cell lysate using RPS12 specific antibody. Lane 1 is a ladder, lane 2 is K562 non-targeting control knockdown, lane 3 and 4 are two different CRISPR against RPS12. RPS12 protein appears as the green arrow, Beta-actin serves as a control and appears in red arrow.




Experiment Status
BGKcLV46-69BGKcLV46-70
Sample_IDBGKcLV46-69BGKcLV46-70
Sample Name
Sample NameRPS12-BGKcLV46-69RPS12-BGKcLV46-70
RBPRPS12RPS12
Cell_LineK562K562
Exp UID
StatusSubmittingSubmitting
Status_date2025-04-212025-04-21
ProjectENCORE2ENCORE2
Note
ID1405414055




Library-Prep Information
BGKcLV46-69BGKcLV46-70
Sample #3334
Sample NameRPS12-BGKcLV46-69RPS12-BGKcLV46-70
Sample_Name_Alias
Index Well PositionA05B05
Index_tableIDT_UniqueDualIndex_96_V2IDT_UniqueDualIndex_96_V2
LibPrep_date2025-02-202025-02-20
Lib_IDLib-250220Lib-250220
Tecan_Location
Tecan
Tecan_date
Size_bp318304
Peak_Molarity73.7072.70
libSampleQC_DNA_WellDNA_Library_set77/set1/A11.pngDNA_Library_set77/set1/B11.png
RIN10.010.0
libSample_RNA_WellRNA_Library_set77/set1/A5.pngRNA_Library_set77/set1/B5.png
SampleQC_methodTapeStation_2022TapeStation_2022
SampleQC_date2025-02-282025-02-28
Sample_IDBGKcLV46-69BGKcLV46-70
RBPRPS12RPS12
Batch_IDBGKcLV46BGKcLV46
WB_result67.40067.250
Library DescriptionTruSeq mRNATruSeq mRNA
Repeat_Library_Suffix
Lib_StatusSendToSequenceSendToSequence
ProjectENCORE2ENCORE2
ID46924693




Sequencing Information
BGKcLV46-69BGKcLV46-70
Sample_IDBGKcLV46-69BGKcLV46-70
Sample NameRPS12-BGKcLV46-69RPS12-BGKcLV46-70
Pool IDPool-250312Pool-250312
LocalServer_folderset77set77
total_reads58,056,67069,744,702
total_aligned_reads53,252,23563,680,902
unique_aligned_reads49,127,27558,829,876
percent_uniqueAligned0.846200.84350
correlation_replicates0.9965020.996502
spikein_reads109,34896,558
percent_spikeins0.001880.00138
original_ReadLength101101
QC_StatusSubmittingSubmitting
ID33973398




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
RPS12-BGKcLV46-69_S33_L001_R1_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set77/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab3397NovaSeq6000100paired-ended1NT-BGKcLV46-1_S1_L001_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGKcLV46-2_S2_L001_R1_001.filtered.trimmed.paired.fastq.gzENCORE232182
RPS12-BGKcLV46-69_S33_L001_R2_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set77/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab3397NovaSeq6000100paired-ended2NT-BGKcLV46-1_S1_L001_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGKcLV46-2_S2_L001_R2_001.filtered.trimmed.paired.fastq.gzENCORE232232
RPS12-BGKcLV46-69_Aligned.sortedByCoord.out.bamENCODE_DATA/set77/STAR_ENCORE2_trimmed_file_linksbamalignmentsknockdown followed by RNA-seqGraveley Lab3397GRCh38V40RPS12-BGKcLV46-69_S33_L001_R1_001.filtered.trimmed.paired.fastq.gz,RPS12-BGKcLV46-69_S33_L001_R2_001.filtered.trimmed.paired.fastq.gzENCORE232282
RPS12-BGKcLV46-69_Signal.UniqueMultiple.strand-.bwENCODE_DATA/set77/STAR_ENCORE2_trimmed_file_linksbigWig-allminus strand signal of all readsknockdown followed by RNA-seqGraveley Lab3397GRCh38V40RPS12-BGKcLV46-69_Aligned.sortedByCoord.out.bamENCORE232332
RPS12-BGKcLV46-69_Signal.UniqueMultiple.strand+.bwENCODE_DATA/set77/STAR_ENCORE2_trimmed_file_linksbigWig+allplus strand signal of all readsknockdown followed by RNA-seqGraveley Lab3397GRCh38V40RPS12-BGKcLV46-69_Aligned.sortedByCoord.out.bamENCORE232382
RPS12-BGKcLV46-69_Signal.Unique.strand-.bwENCODE_DATA/set77/STAR_ENCORE2_trimmed_file_linksbigWig-uniqueminus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab3397GRCh38V40RPS12-BGKcLV46-69_Aligned.sortedByCoord.out.bamENCORE232432
RPS12-BGKcLV46-69_Signal.Unique.strand+.bwENCODE_DATA/set77/STAR_ENCORE2_trimmed_file_linksbigWig+uniqueplus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab3397GRCh38V40RPS12-BGKcLV46-69_Aligned.sortedByCoord.out.bamENCORE232482
RPS12-BGKcLV46-69_quant.sfENCODE_DATA/set77/salmon_ENCORE2_file_linkstranscript_quantificationtranscript quantificationsknockdown followed by RNA-seqGraveley Lab3397GRCh38V40RPS12-BGKcLV46-69_S33_L001_R1_001.filtered.trimmed.paired.fastq.gz,RPS12-BGKcLV46-69_S33_L001_R2_001.filtered.trimmed.paired.fastq.gzENCORE232532
RPS12-BGKcLV46-70_S34_L001_R1_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set77/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab3398NovaSeq6000100paired-ended1NT-BGKcLV46-1_S1_L001_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGKcLV46-2_S2_L001_R1_001.filtered.trimmed.paired.fastq.gzENCORE232183
RPS12-BGKcLV46-70_S34_L001_R2_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set77/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab3398NovaSeq6000100paired-ended2NT-BGKcLV46-1_S1_L001_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGKcLV46-2_S2_L001_R2_001.filtered.trimmed.paired.fastq.gzENCORE232233
RPS12-BGKcLV46-70_Aligned.sortedByCoord.out.bamENCODE_DATA/set77/STAR_ENCORE2_trimmed_file_linksbamalignmentsknockdown followed by RNA-seqGraveley Lab3398GRCh38V40RPS12-BGKcLV46-70_S34_L001_R1_001.filtered.trimmed.paired.fastq.gz,RPS12-BGKcLV46-70_S34_L001_R2_001.filtered.trimmed.paired.fastq.gzENCORE232283
RPS12-BGKcLV46-70_Signal.UniqueMultiple.strand-.bwENCODE_DATA/set77/STAR_ENCORE2_trimmed_file_linksbigWig-allminus strand signal of all readsknockdown followed by RNA-seqGraveley Lab3398GRCh38V40RPS12-BGKcLV46-70_Aligned.sortedByCoord.out.bamENCORE232333
RPS12-BGKcLV46-70_Signal.UniqueMultiple.strand+.bwENCODE_DATA/set77/STAR_ENCORE2_trimmed_file_linksbigWig+allplus strand signal of all readsknockdown followed by RNA-seqGraveley Lab3398GRCh38V40RPS12-BGKcLV46-70_Aligned.sortedByCoord.out.bamENCORE232383
RPS12-BGKcLV46-70_Signal.Unique.strand-.bwENCODE_DATA/set77/STAR_ENCORE2_trimmed_file_linksbigWig-uniqueminus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab3398GRCh38V40RPS12-BGKcLV46-70_Aligned.sortedByCoord.out.bamENCORE232433
RPS12-BGKcLV46-70_Signal.Unique.strand+.bwENCODE_DATA/set77/STAR_ENCORE2_trimmed_file_linksbigWig+uniqueplus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab3398GRCh38V40RPS12-BGKcLV46-70_Aligned.sortedByCoord.out.bamENCORE232483
RPS12-BGKcLV46-70_quant.sfENCODE_DATA/set77/salmon_ENCORE2_file_linkstranscript_quantificationtranscript quantificationsknockdown followed by RNA-seqGraveley Lab3398GRCh38V40RPS12-BGKcLV46-70_S34_L001_R1_001.filtered.trimmed.paired.fastq.gz,RPS12-BGKcLV46-70_S34_L001_R2_001.filtered.trimmed.paired.fastq.gzENCORE232533