Basic Information

Dataset E-MTAB-12386
Status 2022-11-25
Species Homo sapiens
Source EBI ArrayExpress
Subcellular Localization cytoplasm|nucleoplasm
PMID 36366526
Title RNA-seq of cytoplasmic and nucleoplasmic samples of a time-course of Ad5-infected A549 cells
Citation Alemán, M. V., Bertzbach, L. D., Speiseder, T., Ip, W. H., González, R., & Dobner, T. (2022). Global transcriptome analyses of cellular and viral mrnas during hadv-c5 infection highlight new aspects of viral mrna biogenesis and cytoplasmic viral mrna accumulations. Viruses, 14(11), 2428.
Experimental Design Interested in how Adenovirus infection regulates temporal changes and differential export of viral and cellular mRNAs, we infected A549 cells with HAdV-C5 (H5pg4100) at 6, 12, 24 and 48 hours post-infection. Cells were infected with a MOI of 30 ffu and a non-infected (mock) sample was also included. After the infection period, cells were collected by trypsinization and fractionated to separate nucleus and cytoplasm with an NP-40 lysis buffer and RNA was extracted from each sample with TRIzol, followed by a column extraction using the RNeasy Plus Mini Kit. The cDNA libraries were made from mRNAs by first performing a poly(A) selection to the total RNA sample. The cDNA libraries were generated with the ScriptSeq v2 RNAseq Kit using their strand-specific protocol and a multiplex-sequencing was performed on the HiSeq 2500 platform using a paired-end run with a depth of approximately 50 million reads per sample. Two biological replicates of each infection time point and cellular fraction were sequenced using three technical replicates.

Sample Information

BioProject Sample Name Run Localization Treatment Time Source Label
PRJEB57806 ERS14267475 ERR10509572 cytoplasm none None A549 cells Mock - cytoplasm
PRJEB57806 ERS14267475 ERR10509573 cytoplasm none None A549 cells Mock - cytoplasm
PRJEB57806 ERS14267475 ERR10509574 cytoplasm none None A549 cells Mock - cytoplasm
PRJEB57806 ERS14267475 ERR10509575 cytoplasm none None A549 cells Mock - cytoplasm
PRJEB57806 ERS14267475 ERR10509576 cytoplasm none None A549 cells Mock - cytoplasm
PRJEB57806 ERS14267475 ERR10509577 cytoplasm none None A549 cells Mock - cytoplasm
PRJEB57806 ERS14267476 ERR10509578 nucleoplasm none None A549 cells Mock - nucleoplasm
PRJEB57806 ERS14267476 ERR10509579 nucleoplasm none None A549 cells Mock - nucleoplasm
PRJEB57806 ERS14267476 ERR10509580 nucleoplasm none None A549 cells Mock - nucleoplasm
PRJEB57806 ERS14267476 ERR10509581 nucleoplasm none None A549 cells Mock - nucleoplasm
PRJEB57806 ERS14267476 ERR10509582 nucleoplasm none None A549 cells Mock - nucleoplasm
PRJEB57806 ERS14267476 ERR10509583 nucleoplasm none None A549 cells Mock - nucleoplasm
PRJEB57806 ERS14267477 ERR10509584 cytoplasm Human Adenovirus 5 6 hour A549 cells 6 hpi - cytoplasm
PRJEB57806 ERS14267477 ERR10509585 cytoplasm Human Adenovirus 5 6 hour A549 cells 6 hpi - cytoplasm
PRJEB57806 ERS14267477 ERR10509586 cytoplasm Human Adenovirus 5 6 hour A549 cells 6 hpi - cytoplasm
PRJEB57806 ERS14267477 ERR10509587 cytoplasm Human Adenovirus 5 6 hour A549 cells 6 hpi - cytoplasm
PRJEB57806 ERS14267478 ERR10509588 nucleoplasm Human Adenovirus 5 6 hour A549 cells 6 hpi - nucleoplasm
PRJEB57806 ERS14267478 ERR10509589 nucleoplasm Human Adenovirus 5 6 hour A549 cells 6 hpi - nucleoplasm
PRJEB57806 ERS14267478 ERR10509590 nucleoplasm Human Adenovirus 5 6 hour A549 cells 6 hpi - nucleoplasm
PRJEB57806 ERS14267478 ERR10509591 nucleoplasm Human Adenovirus 5 6 hour A549 cells 6 hpi - nucleoplasm
PRJEB57806 ERS14267479 ERR10509592 cytoplasm Human Adenovirus 5 12 hour A549 cells 12 hpi - cytoplasm
PRJEB57806 ERS14267479 ERR10509593 cytoplasm Human Adenovirus 5 12 hour A549 cells 12 hpi - cytoplasm
PRJEB57806 ERS14267479 ERR10509594 cytoplasm Human Adenovirus 5 12 hour A549 cells 12 hpi - cytoplasm
PRJEB57806 ERS14267479 ERR10509595 cytoplasm Human Adenovirus 5 12 hour A549 cells 12 hpi - cytoplasm
PRJEB57806 ERS14267479 ERR10509596 cytoplasm Human Adenovirus 5 12 hour A549 cells 12 hpi - cytoplasm
PRJEB57806 ERS14267479 ERR10509597 cytoplasm Human Adenovirus 5 12 hour A549 cells 12 hpi - cytoplasm
PRJEB57806 ERS14267480 ERR10509598 nucleoplasm Human Adenovirus 5 12 hour A549 cells 12 hpi - nucleoplasm
PRJEB57806 ERS14267480 ERR10509599 nucleoplasm Human Adenovirus 5 12 hour A549 cells 12 hpi - nucleoplasm
PRJEB57806 ERS14267480 ERR10509600 nucleoplasm Human Adenovirus 5 12 hour A549 cells 12 hpi - nucleoplasm
PRJEB57806 ERS14267480 ERR10509601 nucleoplasm Human Adenovirus 5 12 hour A549 cells 12 hpi - nucleoplasm
PRJEB57806 ERS14267480 ERR10509602 nucleoplasm Human Adenovirus 5 12 hour A549 cells 12 hpi - nucleoplasm
PRJEB57806 ERS14267480 ERR10509603 nucleoplasm Human Adenovirus 5 12 hour A549 cells 12 hpi - nucleoplasm
PRJEB57806 ERS14267481 ERR10509604 cytoplasm Human Adenovirus 5 24 hour A549 cells 24 hpi - cytoplasm
PRJEB57806 ERS14267481 ERR10509605 cytoplasm Human Adenovirus 5 24 hour A549 cells 24 hpi - cytoplasm
PRJEB57806 ERS14267481 ERR10509606 cytoplasm Human Adenovirus 5 24 hour A549 cells 24 hpi - cytoplasm
PRJEB57806 ERS14267481 ERR10509607 cytoplasm Human Adenovirus 5 24 hour A549 cells 24 hpi - cytoplasm
PRJEB57806 ERS14267481 ERR10509608 cytoplasm Human Adenovirus 5 24 hour A549 cells 24 hpi - cytoplasm
PRJEB57806 ERS14267481 ERR10509609 cytoplasm Human Adenovirus 5 24 hour A549 cells 24 hpi - cytoplasm
PRJEB57806 ERS14267482 ERR10509610 nucleoplasm Human Adenovirus 5 24 hour A549 cells 24 hpi - nucleoplasm
PRJEB57806 ERS14267482 ERR10509611 nucleoplasm Human Adenovirus 5 24 hour A549 cells 24 hpi - nucleoplasm
PRJEB57806 ERS14267482 ERR10509612 nucleoplasm Human Adenovirus 5 24 hour A549 cells 24 hpi - nucleoplasm
PRJEB57806 ERS14267482 ERR10509613 nucleoplasm Human Adenovirus 5 24 hour A549 cells 24 hpi - nucleoplasm
PRJEB57806 ERS14267482 ERR10509614 nucleoplasm Human Adenovirus 5 24 hour A549 cells 24 hpi - nucleoplasm
PRJEB57806 ERS14267482 ERR10509615 nucleoplasm Human Adenovirus 5 24 hour A549 cells 24 hpi - nucleoplasm
PRJEB57806 ERS14267483 ERR10509616 cytoplasm Human Adenovirus 5 48 hour A549 cells 48 hpi - cytoplasm
PRJEB57806 ERS14267483 ERR10509617 cytoplasm Human Adenovirus 5 48 hour A549 cells 48 hpi - cytoplasm
PRJEB57806 ERS14267483 ERR10509618 cytoplasm Human Adenovirus 5 48 hour A549 cells 48 hpi - cytoplasm
PRJEB57806 ERS14267483 ERR10509619 cytoplasm Human Adenovirus 5 48 hour A549 cells 48 hpi - cytoplasm
PRJEB57806 ERS14267483 ERR10509620 cytoplasm Human Adenovirus 5 48 hour A549 cells 48 hpi - cytoplasm
PRJEB57806 ERS14267483 ERR10509621 cytoplasm Human Adenovirus 5 48 hour A549 cells 48 hpi - cytoplasm
PRJEB57806 ERS14267483 ERR10509622 cytoplasm Human Adenovirus 5 48 hour A549 cells 48 hpi - cytoplasm
PRJEB57806 ERS14267483 ERR10509623 cytoplasm Human Adenovirus 5 48 hour A549 cells 48 hpi - cytoplasm
PRJEB57806 ERS14267484 ERR10509624 nucleoplasm Human Adenovirus 5 48 hour A549 cells 48 hpi - nucleoplasm
PRJEB57806 ERS14267484 ERR10509625 nucleoplasm Human Adenovirus 5 48 hour A549 cells 48 hpi - nucleoplasm
PRJEB57806 ERS14267484 ERR10509626 nucleoplasm Human Adenovirus 5 48 hour A549 cells 48 hpi - nucleoplasm
PRJEB57806 ERS14267484 ERR10509627 nucleoplasm Human Adenovirus 5 48 hour A549 cells 48 hpi - nucleoplasm
PRJEB57806 ERS14267484 ERR10509628 nucleoplasm Human Adenovirus 5 48 hour A549 cells 48 hpi - nucleoplasm
PRJEB57806 ERS14267484 ERR10509629 nucleoplasm Human Adenovirus 5 48 hour A549 cells 48 hpi - nucleoplasm
PRJEB57806 ERS14267484 ERR10509630 nucleoplasm Human Adenovirus 5 48 hour A549 cells 48 hpi - nucleoplasm
PRJEB57806 ERS14267484 ERR10509631 nucleoplasm Human Adenovirus 5 48 hour A549 cells 48 hpi - nucleoplasm

Subcellular Localization Number

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Localization Differential Analysis

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Specific Subcellular Localization

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Dynamic RNA Localization

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Specific Enrichment Analysis

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Specific RNA Ratio

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