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ENCSR770OWW

ENCSR ENCODE
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RNA-seq on K562 cells treated with an shRNA knockdown against LARP7. (LARP7_BGKLV21)

Organism: Homo sapiens
Experiment Types:
shRNA RNA-seq
Status: released
Contact: Brenton Graveley, UConn

Summary

shRNA RNA-seq of LARP7 in Homo sapiens K562 expressing RNAi targeting H. sapiens LARP7

Overall Design

RNA-seq on K562 cells treated with an shRNA knockdown against LARP7. (LARP7_BGKLV21)

Analysis

View Data Processing
Analysis page is available for ENCSR770OWW.

Dataset Citations (3)

PubMed citation (PMID 32728046)
PubMed citation (PMID 32727537)
A large-scale binding and functional map of human RNA-binding proteins.
PMID 32728246 · 2020 · Nature
Eric L Van Nostrand, Peter Freese, Gabriel A Pratt, Xiaofeng Wang, Xintao Wei, Rui Xiao, Steven M Blue, Jia-Yu Chen, Neal A L Cody, Daniel Dominguez, Sara Olson, Balaji Sundararaman, Lijun Zhan, Cassandra Bazile, Louis Philip Benoit Bouvrette, Julie Bergalet, Michael O Duff, Keri E Garcia, Chelsea Gelboin-Burkhart, Myles Hochman, Nicole J Lambert, Hairi Li, Michael P McGurk, Thai B Nguyen, Tsultrim Palden, Ines Rabano, Shashank Sathe, Rebecca Stanton, Amanda Su, Ruth Wang, Brian A Yee, Bing Zhou, Ashley L Louie, Stefan Aigner, Xiang-Dong Fu, Eric Lécuyer, Christopher B Burge, Brenton R Graveley, Gene W Yeo

ENCODE Metadata

Total file size: 86.3 GB
Assay: shRNA RNA-seq
Target: LARP7
Biosample: Homo sapiens K562 expressing RNAi targeting H. sapiens LARP7
Files: 92
Unique ENC file IDs: 92
File Formats
bigWig (48) tsv (19) bam (18) fastq (4) tar (3)
Output types (11)
alignments (12) minus strand signal of all reads (12) minus strand signal of unique reads (12) plus strand signal of all reads (12) plus strand signal of unique reads (12) transcript quantifications (8) gene quantifications (6) transcriptome alignments (6) differential expression quantifications (5) reads (4) differential splicing quantifications (3)

Linked Publications (1)

A large-scale binding and functional map of human RNA-binding proteins.
Nature · 2020

Data Files (92)

Accession File Name Stored Type Output Type Mapping Assembly Size Download
ENCFF090RFI ENCFF090RFI.bam bam (alignments); assembly: GRCh38; genome annotation: V24 alignments GRCh38 3.1 GB link
ENCFF121NYE ENCFF121NYE.bam bam (alignments); assembly: GRCh38; genome annotation: V24 alignments GRCh38 4.3 GB link
ENCFF558WTK ENCFF558WTK.bam bam (alignments); assembly: GRCh38; genome annotation: V24 alignments GRCh38 3.7 GB link
ENCFF664DJA ENCFF664DJA.bam bam (alignments); assembly: GRCh38; genome annotation: V24 alignments GRCh38 3.6 GB link
ENCFF533WGG ENCFF533WGG.bam bam (alignments); assembly: GRCh38; genome annotation: V29 alignments GRCh38 3.7 GB link
ENCFF633IHO ENCFF633IHO.bam bam (alignments); assembly: GRCh38; genome annotation: V29 alignments GRCh38 4.3 GB link
ENCFF328EZV ENCFF328EZV.bam bam (alignments); assembly: hg19; genome annotation: V19 alignments hg19 3.6 GB link
ENCFF330TDS ENCFF330TDS.bam bam (alignments); assembly: hg19; genome annotation: V19 alignments hg19 4.3 GB link
ENCFF392BKD ENCFF392BKD.bam bam (alignments); assembly: hg19; genome annotation: V19 alignments hg19 3.1 GB link
ENCFF616HGG ENCFF616HGG.bam bam (alignments); assembly: hg19; genome annotation: V19 alignments hg19 3.7 GB link
ENCFF740AJJ ENCFF740AJJ.bam bam (alignments); assembly: hg19; genome annotation: V19 alignments hg19 3.6 GB link
ENCFF770AVM ENCFF770AVM.bam bam (alignments); assembly: hg19; genome annotation: V19 alignments hg19 3.1 GB link
ENCFF233RYY ENCFF233RYY.bam bam (transcriptome alignments); assembly: GRCh38; genome annotation: V24 transcriptome alignments GRCh38 4.4 GB link
ENCFF494KWH ENCFF494KWH.bam bam (transcriptome alignments); assembly: GRCh38; genome annotation: V24 transcriptome alignments GRCh38 5.2 GB link
ENCFF357BGK ENCFF357BGK.bam bam (transcriptome alignments); assembly: GRCh38; genome annotation: V29 transcriptome alignments GRCh38 5.8 GB link
ENCFF465CQC ENCFF465CQC.bam bam (transcriptome alignments); assembly: GRCh38; genome annotation: V29 transcriptome alignments GRCh38 4.9 GB link
ENCFF535NOZ ENCFF535NOZ.bam bam (transcriptome alignments); assembly: hg19; genome annotation: V19 transcriptome alignments hg19 4.4 GB link
ENCFF801NZM ENCFF801NZM.bam bam (transcriptome alignments); assembly: hg19; genome annotation: V19 transcriptome alignments hg19 5.1 GB link
ENCFF008NNA ENCFF008NNA.bigWig bigWig (minus strand signal of all reads); assembly: GRCh38; genome annotation: V24 minus strand signal of all reads GRCh38 70.5 MB link
ENCFF026HCN ENCFF026HCN.bigWig bigWig (minus strand signal of all reads); assembly: GRCh38; genome annotation: V24 minus strand signal of all reads GRCh38 73.6 MB link
ENCFF431XCE ENCFF431XCE.bigWig bigWig (minus strand signal of all reads); assembly: GRCh38; genome annotation: V24 minus strand signal of all reads GRCh38 79.3 MB link
ENCFF537EQH ENCFF537EQH.bigWig bigWig (minus strand signal of all reads); assembly: GRCh38; genome annotation: V24 minus strand signal of all reads GRCh38 65.8 MB link
ENCFF293FJE ENCFF293FJE.bigWig bigWig (minus strand signal of all reads); assembly: GRCh38; genome annotation: V29 minus strand signal of all reads GRCh38 79.3 MB link
ENCFF747MXB ENCFF747MXB.bigWig bigWig (minus strand signal of all reads); assembly: GRCh38; genome annotation: V29 minus strand signal of all reads GRCh38 73.6 MB link
ENCFF034KRU ENCFF034KRU.bigWig bigWig (minus strand signal of all reads); assembly: hg19; genome annotation: V19 minus strand signal of all reads hg19 66.7 MB link
ENCFF128LPX ENCFF128LPX.bigWig bigWig (minus strand signal of all reads); assembly: hg19; genome annotation: V19 minus strand signal of all reads hg19 72.1 MB link
ENCFF252IHT ENCFF252IHT.bigWig bigWig (minus strand signal of all reads); assembly: hg19; genome annotation: V19 minus strand signal of all reads hg19 78.3 MB link
ENCFF362JXT ENCFF362JXT.bigWig bigWig (minus strand signal of all reads); assembly: hg19; genome annotation: V19 minus strand signal of all reads hg19 72.5 MB link
ENCFF712YXU ENCFF712YXU.bigWig bigWig (minus strand signal of all reads); assembly: hg19; genome annotation: V19 minus strand signal of all reads hg19 68.0 MB link
ENCFF841GLQ ENCFF841GLQ.bigWig bigWig (minus strand signal of all reads); assembly: hg19; genome annotation: V19 minus strand signal of all reads hg19 63.0 MB link
ENCFF669OGA ENCFF669OGA.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38; genome annotation: V24 minus strand signal of unique reads GRCh38 66.0 MB link
ENCFF860OQP ENCFF860OQP.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38; genome annotation: V24 minus strand signal of unique reads GRCh38 69.1 MB link
ENCFF911WUB ENCFF911WUB.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38; genome annotation: V24 minus strand signal of unique reads GRCh38 64.9 MB link
ENCFF977MRB ENCFF977MRB.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38; genome annotation: V24 minus strand signal of unique reads GRCh38 61.2 MB link
ENCFF810ZCM ENCFF810ZCM.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38; genome annotation: V29 minus strand signal of unique reads GRCh38 64.3 MB link
ENCFF871BNL ENCFF871BNL.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38; genome annotation: V29 minus strand signal of unique reads GRCh38 70.1 MB link
ENCFF073HLZ ENCFF073HLZ.bigWig bigWig (minus strand signal of unique reads); assembly: hg19; genome annotation: V19 minus strand signal of unique reads hg19 65.0 MB link
ENCFF238MCA ENCFF238MCA.bigWig bigWig (minus strand signal of unique reads); assembly: hg19; genome annotation: V19 minus strand signal of unique reads hg19 62.7 MB link
ENCFF255HOL ENCFF255HOL.bigWig bigWig (minus strand signal of unique reads); assembly: hg19; genome annotation: V19 minus strand signal of unique reads hg19 57.6 MB link
ENCFF428TVQ ENCFF428TVQ.bigWig bigWig (minus strand signal of unique reads); assembly: hg19; genome annotation: V19 minus strand signal of unique reads hg19 69.3 MB link
ENCFF449GOA ENCFF449GOA.bigWig bigWig (minus strand signal of unique reads); assembly: hg19; genome annotation: V19 minus strand signal of unique reads hg19 64.7 MB link
ENCFF551WFG ENCFF551WFG.bigWig bigWig (minus strand signal of unique reads); assembly: hg19; genome annotation: V19 minus strand signal of unique reads hg19 61.1 MB link
ENCFF434DWX ENCFF434DWX.bigWig bigWig (plus strand signal of all reads); assembly: GRCh38; genome annotation: V24 plus strand signal of all reads GRCh38 74.7 MB link
ENCFF671GCS ENCFF671GCS.bigWig bigWig (plus strand signal of all reads); assembly: GRCh38; genome annotation: V24 plus strand signal of all reads GRCh38 80.5 MB link
ENCFF742USS ENCFF742USS.bigWig bigWig (plus strand signal of all reads); assembly: GRCh38; genome annotation: V24 plus strand signal of all reads GRCh38 71.6 MB link
ENCFF767ZFD ENCFF767ZFD.bigWig bigWig (plus strand signal of all reads); assembly: GRCh38; genome annotation: V24 plus strand signal of all reads GRCh38 66.8 MB link
ENCFF525GJL ENCFF525GJL.bigWig bigWig (plus strand signal of all reads); assembly: GRCh38; genome annotation: V29 plus strand signal of all reads GRCh38 80.5 MB link
ENCFF886HMT ENCFF886HMT.bigWig bigWig (plus strand signal of all reads); assembly: GRCh38; genome annotation: V29 plus strand signal of all reads GRCh38 74.7 MB link
ENCFF068QMB ENCFF068QMB.bigWig bigWig (plus strand signal of all reads); assembly: hg19; genome annotation: V19 plus strand signal of all reads hg19 73.8 MB link
ENCFF173TWZ ENCFF173TWZ.bigWig bigWig (plus strand signal of all reads); assembly: hg19; genome annotation: V19 plus strand signal of all reads hg19 79.6 MB link
ENCFF249GUT ENCFF249GUT.bigWig bigWig (plus strand signal of all reads); assembly: hg19; genome annotation: V19 plus strand signal of all reads hg19 69.6 MB link
ENCFF309YVG ENCFF309YVG.bigWig bigWig (plus strand signal of all reads); assembly: hg19; genome annotation: V19 plus strand signal of all reads hg19 68.2 MB link
ENCFF399WMI ENCFF399WMI.bigWig bigWig (plus strand signal of all reads); assembly: hg19; genome annotation: V19 plus strand signal of all reads hg19 64.6 MB link
ENCFF736TRG ENCFF736TRG.bigWig bigWig (plus strand signal of all reads); assembly: hg19; genome annotation: V19 plus strand signal of all reads hg19 73.7 MB link
ENCFF418YDL ENCFF418YDL.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38; genome annotation: V24 plus strand signal of unique reads GRCh38 62.7 MB link
ENCFF509VVD ENCFF509VVD.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38; genome annotation: V24 plus strand signal of unique reads GRCh38 71.0 MB link
ENCFF892FAY ENCFF892FAY.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38; genome annotation: V24 plus strand signal of unique reads GRCh38 67.6 MB link
ENCFF950ESA ENCFF950ESA.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38; genome annotation: V24 plus strand signal of unique reads GRCh38 66.7 MB link
ENCFF481IOW ENCFF481IOW.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38; genome annotation: V29 plus strand signal of unique reads GRCh38 66.1 MB link
ENCFF808YMZ ENCFF808YMZ.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38; genome annotation: V29 plus strand signal of unique reads GRCh38 72.0 MB link
ENCFF106PEC ENCFF106PEC.bigWig bigWig (plus strand signal of unique reads); assembly: hg19; genome annotation: V19 plus strand signal of unique reads hg19 66.9 MB link
ENCFF415PQG ENCFF415PQG.bigWig bigWig (plus strand signal of unique reads); assembly: hg19; genome annotation: V19 plus strand signal of unique reads hg19 66.7 MB link
ENCFF420YMA ENCFF420YMA.bigWig bigWig (plus strand signal of unique reads); assembly: hg19; genome annotation: V19 plus strand signal of unique reads hg19 71.4 MB link
ENCFF440CKC ENCFF440CKC.bigWig bigWig (plus strand signal of unique reads); assembly: hg19; genome annotation: V19 plus strand signal of unique reads hg19 64.8 MB link
ENCFF861LWH ENCFF861LWH.bigWig bigWig (plus strand signal of unique reads); assembly: hg19; genome annotation: V19 plus strand signal of unique reads hg19 63.0 MB link
ENCFF972FVW ENCFF972FVW.bigWig bigWig (plus strand signal of unique reads); assembly: hg19; genome annotation: V19 plus strand signal of unique reads hg19 59.6 MB link
ENCFF202DDK ENCFF202DDK.fastq fastq (reads) reads 2.4 GB link
ENCFF225DFF ENCFF225DFF.fastq fastq (reads) reads 2.3 GB link
ENCFF233GFO ENCFF233GFO.fastq fastq (reads) reads 2.1 GB link
ENCFF732ENI ENCFF732ENI.fastq fastq (reads) reads 1.9 GB link
ENCFF876PYP ENCFF876PYP.tar tar (differential splicing quantifications); assembly: hg19; genome annotation: V19 differential splicing quantifications hg19 14.6 MB link
ENCFF924LZP ENCFF924LZP.tar tar (differential splicing quantifications); assembly: hg19; genome annotation: V19 differential splicing quantifications hg19 3.9 MB link
ENCFF957ZRI ENCFF957ZRI.tar tar (differential splicing quantifications); assembly: hg19; genome annotation: V19 differential splicing quantifications hg19 3.4 MB link
ENCFF177ZHW ENCFF177ZHW.tsv tsv (differential expression quantifications); assembly: hg19; genome annotation: V19 differential expression quantifications hg19 1.7 MB link
ENCFF185JZT ENCFF185JZT.tsv tsv (differential expression quantifications); assembly: hg19; genome annotation: V19 differential expression quantifications hg19 2.8 MB link
ENCFF498ACT ENCFF498ACT.tsv tsv (differential expression quantifications); assembly: hg19; genome annotation: V19 differential expression quantifications hg19 1.9 MB link
ENCFF698SWE ENCFF698SWE.tsv tsv (differential expression quantifications); assembly: hg19; genome annotation: V19 differential expression quantifications hg19 4.2 MB link
ENCFF717PTW ENCFF717PTW.tsv tsv (differential expression quantifications); assembly: hg19; genome annotation: V19 differential expression quantifications hg19 5.5 MB link
ENCFF180DTK ENCFF180DTK.tsv tsv (gene quantifications); assembly: GRCh38; genome annotation: V24 gene quantifications GRCh38 9.5 MB link
ENCFF501PSF ENCFF501PSF.tsv tsv (gene quantifications); assembly: GRCh38; genome annotation: V24 gene quantifications GRCh38 9.4 MB link
ENCFF122QHJ ENCFF122QHJ.tsv tsv (gene quantifications); assembly: GRCh38; genome annotation: V29 gene quantifications GRCh38 10.4 MB link
ENCFF281LBT ENCFF281LBT.tsv tsv (gene quantifications); assembly: GRCh38; genome annotation: V29 gene quantifications GRCh38 10.4 MB link
ENCFF500MVK ENCFF500MVK.tsv tsv (gene quantifications); assembly: hg19; genome annotation: V19 gene quantifications hg19 9.1 MB link
ENCFF558YCU ENCFF558YCU.tsv tsv (gene quantifications); assembly: hg19; genome annotation: V19 gene quantifications hg19 9.1 MB link
ENCFF101TYB ENCFF101TYB.tsv tsv (transcript quantifications); assembly: GRCh38; genome annotation: V24 transcript quantifications GRCh38 25.3 MB link
ENCFF180YNA ENCFF180YNA.tsv tsv (transcript quantifications); assembly: GRCh38; genome annotation: V24 transcript quantifications GRCh38 25.3 MB link
ENCFF056JBK ENCFF056JBK.tsv tsv (transcript quantifications); assembly: GRCh38; genome annotation: V29 transcript quantifications GRCh38 27.3 MB link
ENCFF069HEQ ENCFF069HEQ.tsv tsv (transcript quantifications); assembly: GRCh38; genome annotation: V29 transcript quantifications GRCh38 29.8 MB link
ENCFF248PPG ENCFF248PPG.tsv tsv (transcript quantifications); assembly: GRCh38; genome annotation: V29 transcript quantifications GRCh38 27.3 MB link
ENCFF686LFF ENCFF686LFF.tsv tsv (transcript quantifications); assembly: GRCh38; genome annotation: V29 transcript quantifications GRCh38 29.8 MB link
ENCFF139REL ENCFF139REL.tsv tsv (transcript quantifications); assembly: hg19; genome annotation: V19 transcript quantifications hg19 24.9 MB link
ENCFF696GMW ENCFF696GMW.tsv tsv (transcript quantifications); assembly: hg19; genome annotation: V19 transcript quantifications hg19 24.9 MB link