EIF2AK2      CRISPR in K562      Control: NT-BGKcLV13

General Information
RBPEIF2AK2
Cell_LineK562
MethodCRISPR
Exp_NameEIF2AK2-BGKcLV13-K562
ENCODE_series_IDENCSR959WAF
Batch_IDBGKcLV13
Pool IDPool-190423
Local_Set_Nameset42
ENCODE_KD_Exp_IDENCSR628AFF
ENCODE_CN_Exp_IDENCSR712CQC
Rep1EIF2AK2-BGKcLV13-53
Rep2EIF2AK2-BGKcLV13-54
CN1NT-BGKcLV13-1
CN2NT-BGKcLV13-2
Rep1_qPCR0.0
Rep2_qPCR8.0
Rep1_WB73.6
Rep2_WB74.5
Antibody Cat#700286
Antibody Lot#LOT# SA2330331
Antibody DCC IDENCAB399AJN
StatusReleased
ProjectENCODE4
ID169




Experiment Information (Status: Released)
BGKcLV13-53BGKcLV13-54
idx498499
TRCN#_or_BGC#BGC#0000330BGC#0000330
shRNA_or_gRNA_sequenceCAGGACCTCCACATGATAGGCAGGACCTCCACATGATAGG
PAMaggagg
NamePKR_88PKR_88
Sample_IDBGKcLV13-53BGKcLV13-54
transduction_Date11/28/1811/28/18
daysDay 6Day 6
RBP_nameEIF2AK2EIF2AK2
qPCR_result0.08.0
Ave_qPCR4.0
RT-qPCR_primer-Facaattggccgctaaacttg
RT-qPCR_primer-Rgcgagtgtgctggtcactaa
protein_conc47634670
WB_result73.674.5
Ave_WB74.1
WB_DONE_date12/6/18wes
MW62KD
IPRabbit / I
antibody_Cat#700286LOT# SA2330331
Antibody DCC IDNO ID
submitted_to_DCC_date3/11/19
Rep1_TPM00
Rep2_TPM00
ActionReadyReady
Library_start_date03/18/1903/18/19
repeat_library
Note
ID46064607




Western Blot
RBP Antibody InfoPrimary-HepG2Secondary-HepG2Primary-K562Secondary-K562Primary-UBERONPrimary-Hela
EIF2AK2Product_ID: 700286
Lot_ID: SA2330331
Source: Thermo Fisher
Target Name: EIF2AK2-human
PKR-K562-CRISPR.png<br>Caption: Western blot following CRISPR against EIF2AK2 in K562 whole cell lysate using EIF2AK2 specific antibody. Lane 1 is a ladder, lane 2 is K562 non-targeting control knockdown, lane 3 and 4 are two different CRISPR against EIF2AK2. EIF2AK2 protein appears as the green arrow, GAPDH serves as a control and appears in red arrow.




Experiment Status
BGKcLV13-53BGKcLV13-54
Sample_IDBGKcLV13-53BGKcLV13-54
Sample NameEIF2AK2-BGKcLV13-53EIF2AK2-BGKcLV13-54
Sample NameEIF2AK2-BGKcLV13-53EIF2AK2-BGKcLV13-54
RBPEIF2AK2EIF2AK2
Cell_LineK562K562
Exp UID
StatusReleasedReleased
Status_date2020-11-062020-11-06
ProjectENCODE4ENCODE4
Note
ID29092910




Library-Prep Information
BGKcLV13-53BGKcLV13-54
Sample #6364
Sample NameEIF2AK2-BGKcLV13-53EIF2AK2-BGKcLV13-54
Sample_Name_Alias
Index Well PositionG08H08
Index_tableIDT_UniqueDualIndex_96IDT_UniqueDualIndex_96
LibPrep_date2019-03-182019-03-18
Lib_IDLib-190318Lib-190318
Tecan_Location1-G21-H2
Tecan43.9939.60
Tecan_date2019-03-182019-03-18
Size_bp282287
Peak_Molarity41.2032.70
libSampleQC_DNA_WellDNA_Library_set42/set1/G8.pngDNA_Library_set42/set1/H8.png
RIN10.010.0
libSample_RNA_WellRNA_Library_set42/set1/G8.pngRNA_Library_set42/set1/H8.png
SampleQC_methodTapeStationTapeStation
SampleQC_date2019-03-182019-03-18
Sample_IDBGKcLV13-53BGKcLV13-54
RBPEIF2AK2EIF2AK2
Batch_IDBGKcLV13BGKcLV13
WB_result73.60074.500
Library DescriptionTruSeq mRNATruSeq mRNA
Repeat_Library_Suffix
Lib_StatusSendToSequenceSendToSequence
ProjectENCODE4ENCODE4
ID6364




Sequencing Information
BGKcLV13-53BGKcLV13-54
Sample_IDBGKcLV13-53BGKcLV13-54
Sample NameEIF2AK2-BGKcLV13-53EIF2AK2-BGKcLV13-54
Pool IDPool-190423Pool-190423
LocalServer_folderset42set42
total_reads60,564,06258,041,716
total_aligned_reads58,714,44256,734,456
unique_aligned_reads53,566,17851,730,306
percent_uniqueAligned0.884450.89126
correlation_replicates0.9945590.994559
spikein_reads39,71245,278
percent_spikeins0.000660.00078
original_ReadLength150150
QC_StatusSubmittedSubmitted
ID1718




Data Submission Information
BGKcLV13-53BGKcLV13-53BGKcLV13-53BGKcLV13-53BGKcLV13-53BGKcLV13-53BGKcLV13-54BGKcLV13-54BGKcLV13-54BGKcLV13-54
ENCODE_aliasbrenton-graveley:EIF2AK2-BGKcLV13brenton-graveley:EIF2AK2-BGKcLV13-53brenton-graveley:L-EIF2AK2-BGKcLV13-53brenton-graveley:EIF2AK2-BGKcLV13-53_TTGCCTAG+ACCACTTA_HK3H2DSXX_S63_L004_R1_001.filtered.trimmed.paired.fastq.gzbrenton-graveley:EIF2AK2-BGKcLV13-53_TTGCCTAG+ACCACTTA_HK3H2DSXX_S63_L004_R2_001.filtered.trimmed.paired.fastq.gzbrenton-graveley:EIF2AK2-BGKcLV13-K562brenton-graveley:EIF2AK2-BGKcLV13-54brenton-graveley:L-EIF2AK2-BGKcLV13-54brenton-graveley:EIF2AK2-BGKcLV13-54_CCATTCGA+GTTGTCCG_HK3H2DSXX_S64_L004_R1_001.filtered.trimmed.paired.fastq.gzbrenton-graveley:EIF2AK2-BGKcLV13-54_CCATTCGA+GTTGTCCG_HK3H2DSXX_S64_L004_R2_001.filtered.trimmed.paired.fastq.gz
ENCODE_accessionENCSR628AFFENCBS183UMRENCLB937LJYENCFF364IOVENCFF025MLIENCSR959WAFENCBS325OFKENCLB673GSOENCFF110PJKENCFF840LRS
object_typeexperimentbiosamplelibraryfile_fastq1file_fastq2gene_silencing_seriesbiosamplelibraryfile_fastq1file_fastq2
assay_typeknockdown followed by RNA-seqknockdown followed by RNA-seqknockdown followed by RNA-seqknockdown followed by RNA-seqknockdown followed by RNA-seqknockdown followed by RNA-seqknockdown followed by RNA-seqknockdown followed by RNA-seqknockdown followed by RNA-seqknockdown followed by RNA-seq
Sample_IDBGKcLV13-53BGKcLV13-53BGKcLV13-53BGKcLV13-53BGKcLV13-53BGKcLV13-53BGKcLV13-54BGKcLV13-54BGKcLV13-54BGKcLV13-54
Sample NameEIF2AK2-BGKcLV13-53EIF2AK2-BGKcLV13-53EIF2AK2-BGKcLV13-53EIF2AK2-BGKcLV13-53EIF2AK2-BGKcLV13-53EIF2AK2-BGKcLV13-53EIF2AK2-BGKcLV13-54EIF2AK2-BGKcLV13-54EIF2AK2-BGKcLV13-54EIF2AK2-BGKcLV13-54
SelectedYesYesYesYesYesYesYesYesYesYes
StatusReleasedReleasedReleasedReleasedReleasedReleasedReleasedReleasedReleasedReleased
Status_Date2020-11-202020-11-202020-11-202020-11-202020-11-202022-03-022020-11-202020-11-202020-11-202020-11-20
ProjectENCODE4ENCODE4ENCODE4ENCODE4ENCODE4ENCODE4ENCODE4ENCODE4ENCODE4ENCODE4
LV42_biosample_protocolLV42_library_protocolLV42_biosample_protocolLV42_library_protocol
protocol_URLEIF2AK2-BGKcLV13-53.pdfL-EIF2AK2-BGKcLV13-53.pdfEIF2AK2-BGKcLV13-54.pdfL-EIF2AK2-BGKcLV13-54.pdf
ID783861943967104971978629449681050




File Information
file_namefile_pathfile_formatoutput_typeassay_typelabSample IDplatformread_lengthrun_typepaired_endassemblygenome_annotationderived_fromcontrolled_byProjectNoteFILE_ID
EIF2AK2-BGKcLV13-53_TTGCCTAG+ACCACTTA_HK3H2DSXX_S63_L004_R1_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set42/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab17NovaSeq6000100paired-ended1NT-BGKcLV13-1_ATATCTCG+ATCTTAGT_HK3H2DSXX_S49_L004_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGKcLV13-2_GCGCTCTA+GCTCCGAC_HK3H2DSXX_S50_L004_R1_001.filtered.trimmed.paired.fastq.gzENCODE4349
EIF2AK2-BGKcLV13-53_TTGCCTAG+ACCACTTA_HK3H2DSXX_S63_L004_R2_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set42/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab17NovaSeq6000100paired-ended2NT-BGKcLV13-1_ATATCTCG+ATCTTAGT_HK3H2DSXX_S49_L004_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGKcLV13-2_GCGCTCTA+GCTCCGAC_HK3H2DSXX_S50_L004_R2_001.filtered.trimmed.paired.fastq.gzENCODE4431
EIF2AK2-BGKcLV13-53_Aligned.sortedByCoord.out.bamENCODE_DATA/set42/STAR_ENCORE2_trimmed_file_linksbamalignmentsknockdown followed by RNA-seqGraveley Lab17GRCh38V40EIF2AK2-BGKcLV13-53_TTGCCTAG+ACCACTTA_HK3H2DSXX_S63_L004_R1_001.filtered.trimmed.paired.fastq.gz,EIF2AK2-BGKcLV13-53_TTGCCTAG+ACCACTTA_HK3H2DSXX_S63_L004_R2_001.filtered.trimmed.paired.fastq.gzENCORE223688
EIF2AK2-BGKcLV13-53_Signal.Unique.strand+.bwENCODE_DATA/set42/STAR_ENCORE2_trimmed_file_linksbigWig+uniqueplus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab17GRCh38V40EIF2AK2-BGKcLV13-53/Aligned.sortedByCoord.out.bamENCORE223770
EIF2AK2-BGKcLV13-53_Signal.Unique.strand-.bwENCODE_DATA/set42/STAR_ENCORE2_trimmed_file_linksbigWig-uniqueminus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab17GRCh38V40EIF2AK2-BGKcLV13-53/Aligned.sortedByCoord.out.bamENCORE223852
EIF2AK2-BGKcLV13-53_Signal.UniqueMultiple.strand+.bwENCODE_DATA/set42/STAR_ENCORE2_trimmed_file_linksbigWig+allplus strand signal of all readsknockdown followed by RNA-seqGraveley Lab17GRCh38V40EIF2AK2-BGKcLV13-53/Aligned.sortedByCoord.out.bamENCORE223934
EIF2AK2-BGKcLV13-53_Signal.UniqueMultiple.strand-.bwENCODE_DATA/set42/STAR_ENCORE2_trimmed_file_linksbigWig-allminus strand signal of all readsknockdown followed by RNA-seqGraveley Lab17GRCh38V40EIF2AK2-BGKcLV13-53/Aligned.sortedByCoord.out.bamENCORE224016
EIF2AK2-BGKcLV13-53_quant.sfENCODE_DATA/set42/salmon_ENCORE2transcript_quantificationtranscript quantificationsknockdown followed by RNA-seqGraveley Lab17GRCh38V40EIF2AK2-BGKcLV13-53_TTGCCTAG+ACCACTTA_HK3H2DSXX_S63_L004_R1_001.filtered.trimmed.paired.fastq.gz,EIF2AK2-BGKcLV13-53_TTGCCTAG+ACCACTTA_HK3H2DSXX_S63_L004_R2_001.filtered.trimmed.paired.fastq.gzENCORE224098
EIF2AK2-BGKcLV13-54_CCATTCGA+GTTGTCCG_HK3H2DSXX_S64_L004_R1_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set42/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab18NovaSeq6000100paired-ended1NT-BGKcLV13-1_ATATCTCG+ATCTTAGT_HK3H2DSXX_S49_L004_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGKcLV13-2_GCGCTCTA+GCTCCGAC_HK3H2DSXX_S50_L004_R1_001.filtered.trimmed.paired.fastq.gzENCODE4350
EIF2AK2-BGKcLV13-54_CCATTCGA+GTTGTCCG_HK3H2DSXX_S64_L004_R2_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set42/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab18NovaSeq6000100paired-ended2NT-BGKcLV13-1_ATATCTCG+ATCTTAGT_HK3H2DSXX_S49_L004_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGKcLV13-2_GCGCTCTA+GCTCCGAC_HK3H2DSXX_S50_L004_R2_001.filtered.trimmed.paired.fastq.gzENCODE4432
EIF2AK2-BGKcLV13-54_Aligned.sortedByCoord.out.bamENCODE_DATA/set42/STAR_ENCORE2_trimmed_file_linksbamalignmentsknockdown followed by RNA-seqGraveley Lab18GRCh38V40EIF2AK2-BGKcLV13-54_CCATTCGA+GTTGTCCG_HK3H2DSXX_S64_L004_R1_001.filtered.trimmed.paired.fastq.gz,EIF2AK2-BGKcLV13-54_CCATTCGA+GTTGTCCG_HK3H2DSXX_S64_L004_R2_001.filtered.trimmed.paired.fastq.gzENCORE223689
EIF2AK2-BGKcLV13-54_Signal.Unique.strand+.bwENCODE_DATA/set42/STAR_ENCORE2_trimmed_file_linksbigWig+uniqueplus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab18GRCh38V40EIF2AK2-BGKcLV13-54/Aligned.sortedByCoord.out.bamENCORE223771
EIF2AK2-BGKcLV13-54_Signal.Unique.strand-.bwENCODE_DATA/set42/STAR_ENCORE2_trimmed_file_linksbigWig-uniqueminus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab18GRCh38V40EIF2AK2-BGKcLV13-54/Aligned.sortedByCoord.out.bamENCORE223853
EIF2AK2-BGKcLV13-54_Signal.UniqueMultiple.strand+.bwENCODE_DATA/set42/STAR_ENCORE2_trimmed_file_linksbigWig+allplus strand signal of all readsknockdown followed by RNA-seqGraveley Lab18GRCh38V40EIF2AK2-BGKcLV13-54/Aligned.sortedByCoord.out.bamENCORE223935
EIF2AK2-BGKcLV13-54_Signal.UniqueMultiple.strand-.bwENCODE_DATA/set42/STAR_ENCORE2_trimmed_file_linksbigWig-allminus strand signal of all readsknockdown followed by RNA-seqGraveley Lab18GRCh38V40EIF2AK2-BGKcLV13-54/Aligned.sortedByCoord.out.bamENCORE224017
EIF2AK2-BGKcLV13-54_quant.sfENCODE_DATA/set42/salmon_ENCORE2transcript_quantificationtranscript quantificationsknockdown followed by RNA-seqGraveley Lab18GRCh38V40EIF2AK2-BGKcLV13-54_CCATTCGA+GTTGTCCG_HK3H2DSXX_S64_L004_R1_001.filtered.trimmed.paired.fastq.gz,EIF2AK2-BGKcLV13-54_CCATTCGA+GTTGTCCG_HK3H2DSXX_S64_L004_R2_001.filtered.trimmed.paired.fastq.gzENCORE224099