Browse
Submit Data
Databases
API
Help

Dataset Information

321 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Global Interactome of ZIKV (FSS13025) viral proteins.

ABSTRACT: To identify the global cellular interactome of each ZIKV proteins, individual HA-tagged ZIKV proteins (FSS13025 Asian strain) were expressed in the neuroblastoma cell line SK-N-BE2 using lentivirus-mediated delivery. Cellular lysates were subjected to Affinity purification (AP) using HA-agarose beads, and eluates digested with Trypsin and LysC before analysis via LC-MS/MS using an Orbitrap instrument.

INSTRUMENT(S): LTQ Orbitrap Velos

ORGANISM(S): Zika Virus Zikv/h. Sapiens/frenchpolynesia/10087pf/2013 Homo Sapiens (human)

TISSUE(S): Neuroblast

DISEASE(S): Neuroblastoma

SUBMITTER: Pietro Scaturro

LAB HEAD: Andreas Pichlmair

PROVIDER: PXD009551 | Pride | 2018-09-03

REPOSITORIES: Pride

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	20160817_Orbi2_PiSc_SA_2k-NS4B_1.raw	Raw
	20160817_Orbi2_PiSc_SA_2k-NS4B_2.raw	Raw
	20160817_Orbi2_PiSc_SA_2k-NS4B_3.raw	Raw
	20160817_Orbi2_PiSc_SA_2k-NS4B_4.raw	Raw
	20160817_Orbi2_PiSc_SA_Capsid_1.raw	Raw

Items per page:

1 - 5 of 59

Publications

An orthogonal proteomic survey uncovers novel Zika virus host factors.

Scaturro Pietro P Stukalov Alexey A Haas Darya A DA Cortese Mirko M Draganova Kalina K Płaszczyca Anna A Bartenschlager Ralf R Götz Magdalena M Pichlmair Andreas A

Nature 20180903 7722

Zika virus (ZIKV) has recently emerged as a global health concern owing to its widespread diffusion and its association with severe neurological symptoms and microcephaly in newborns<sup>1</sup>. However, the molecular mechanisms that are responsible for the pathogenicity of ZIKV remain largely unknown. Here we use human neural progenitor cells and the neuronal cell line SK-N-BE2 in an integrated proteomics approach to characterize the cellular responses to viral infection at the proteome and ph ...[more]

PMID: 30177828

Similar Datasets

Extended ZIKV-NS4B interactome (AP-MS/MS analysis of ZIKV interacting proteins)

Project description:To identify the cellular interactors of ZIKV-NS4B-interacting proteins and their differential composition upon ZIKV infection, individual cDNAs expressing FLAG-tagged variants of the following ZIKV-NS4B-interacting proteins were generated (GeneBank and UniProt Accession numbers are given in parenthesis): CEND1 (BC034732.1; Q8N111), CHP1 (BC031293; Q99653), CLN6 (BC010849.1; Q9NWW5), TMEM41b (BC035034.1; Q5BJD5), RBFOX2 (NM_001082579.1; O43251-6), BSG (BC009040.2;P35613). Lentiviruses expressing each of these proteins were used to transduce SK-N-BE2 cells, which were either mock-infected or infected with ZIKV (H/PF/2013, MOI=3), and 72 hours later subjected to AP-MS/MS to identify the respective cellular interactors.

2018-09-03 | PXD009561 | Pride

Time-resolved phosphoproteomic analysis of ZIKV-infected cells

Project description:To investigate cellular pathway dysregulation upon ZIKV infection, time-resolved phosphoproteomics LC-MS/MS analysis was used. ZIKV-infected SK-N-BE2 cells or mock-treated cells were harvested 24, 48 and 72 hours post virus infection and their phosphoproteome was quantitatively analyzed by label-free LC-MS/MS.

2018-09-03 | PXD009560 | Pride

Guillain-Barré syndrome following Zika virus infection is associated with a diverse spectrum of peripheral nerve reactive antibodies

Project description:Recent outbreaks of Zika virus (ZIKV) in South and Central America have highlighted significant neurological side effects. Concurrence with the inflammatory neuropathy Guillain-Barré syndrome (GBS) is observed in 1:4000 ZIKV cases. Whether the neurological symptoms of ZIKV infection are a consequence of autoimmunity or direct neurotoxicity is unclear.

2023-03-10 | PXD028476 | Pride

RNASeq of African green monkey (Vero) cells and human malignant glioblastoma multiforme (U251) cells infected at a multiplicity of infection (MOI) of 3 with the Asian/American Zika virus (ZIKV), PE243; and the African ZIKV strain, Dak84

Project description:Vero and U251 cells were infected with the Asian/American ZIKV (PE243) and the African ZIKV (Dak84) at MOI:3 to assess the viral transcriptome in two cell lines. Samples were harvested at 24 hours post-infection (h p.i.) by flash-freezing, without cycloheximide pre-treatment. Ribosomal RNA was removed using Illumina's RiboZero kit, and RNA was hydrolysed and then gel purified to select fragments 25-35nt long. Fragments were cloned into adapters using the TruSeq small RNA adapter kit and sequenced on Illumina NextSeq.

2024-09-04 | E-MTAB-12967 | biostudies-arrayexpress

Proteome of ZIKV-infected and NS4B-transduced hNPC (H/PF/2013)

Project description:To investigate the effects of ZIKV infection or ZIKV-NS4B-transduction on the global proteome scale at early stages of hNPC differentiation into neurons, hNPC cells were infected with ZIKV (Asian strain: H/PF/2013; MOI=0.01) or transduced with ZIKV-NS4B or HCV-NS4B and one day later cells were either left under proliferative conditions or neuronal differentiation was induced with ROCK inhibitors treatment and growth factors withdrawals. Five days later samples were harvested and processed for quantitative label-free proteomics.

2018-09-03 | PXD009557 | Pride

Zika virus remodels the IGF2BP2 and VCP cellular interactome

Project description:Zika virus (ZIKV) infection causes significant human disease that, with no approved treatment or vaccine, constitutes a major public health concern. Its life cycle entirely relies on the cytoplasmic fate of the viral RNA genome (vRNA) through a fine-tuned equilibrium between vRNA translation, replication and packaging into new virions, all within virus-induced replication organelles (vRO). In this study, we characterized the cellular interactome of insulin-like growth factor 2 mRNA-binding protein 2 (IGF2BP2) and the valosin-containing protein (VCP, also known as p97)

2024-10-28 | PXD052835 | Pride

RNASeq of African green monkey (Vero) cells infected at a multiplicity of infection (MOI) of 3 with the African Zika virus (ZIKV) strain, Dak84. A contamination with Toscana virus (TOSV) was discovered during bioinformatic analysis

Project description:Vero cells were infected with the African ZIKV (Dak84) at MOI:3 to assess the viral transcriptome. Samples were harvested at 24 hours post-infection (h p.i.) by flash-freezing, without cycloheximide pre-treatment. Ribosomal RNA was removed using Illumina's RiboZero kit, and RNA was hydrolysed and then gel purified to select fragments 25-35nt long. Fragments were cloned into adapters using the TruSeq small RNA adapter kit and sequenced on Illumina NextSeq. After bioinformatic analysis, it was discovered that infected cells were contaminated with another arbovirus, Toscana virus (TOSV).

2024-11-08 | E-MTAB-14056 | biostudies-arrayexpress

RiboSeq of African green monkey (Vero) cells infected at a multiplicity of infection (MOI) of 3 with the African Zika virus (ZIKV) strain, Dak84. A contamination with Toscana virus (TOSV) was discovered during bioinformatic analysis.

Project description:Vero cells were infected with the African ZIKV (Dak84) at MOI:3 to assess the viral translatome. Samples were harvested at 24 hours post-infection (h p.i.) by flash-freezing, without cycloheximide pre-treatment. RNase I treatment was carried out, following which ribosomes and enclosed RNA were isolated by centrifugation through a sucrose cushion. RNA was extracted, ribosomal RNA was removed using Illumina's RiboZero kit, and remaining RNA was gel purified to select fragments 25-35nt long. Fragments were cloned into adapters using the TruSeq small RNA adapter kit and sequenced on Illumina NextSeq. After bioinformatic analysis, it was discovered that infected cells were contaminated with another arbovirus, Toscana virus (TOSV).

2024-11-08 | E-MTAB-14055 | biostudies-arrayexpress

Quantitative proteomic analysis of ZIKV infected C6/36 cells

Project description:An iTRAQ-based quantitative proteomic analysis of ZIKV infected Aedes albopictus C6/36 cells was performed to investigate host proteins involved in ZIKV infection process. A total of 3,544 host proteins were quantified, with 200 being differentially regulated. Bioinformatics analysis on regulated host proteins highlights several ZIKV infection regulated biological processes.

2017-04-21 | PXD004727 | Pride

RiboSeq of African green monkey (Vero) cells and human malignant glioblastoma multiforme (U251) cells infected at a multiplicity of infection (MOI) of 3 with the Asian/American Zika virus (ZIKV), PE243; and the African ZIKV strain, Dak84

Project description:Vero and U251 cells were infected with the Asian/American ZIKV (PE243) and the African ZIKV (Dak84) at MOI:3 to assess the viral transcriptome in two cell lines. Samples were harvested at 24 hours post-infection (h p.i.) by flash-freezing, without cycloheximide pre-treatment. RNase I treatment was carried out, following which ribosomes and enclosed RNA were isolated by centrifugation through a sucrose cushion. RNA was extracted, ribosomal RNA was removed using Illumina's RiboZero kit, and remaining RNA was gel purified to select fragments 25-35nt long. Fragments were cloned into adapters using the TruSeq small RNA adapter kit and sequenced on Illumina NextSeq.

2024-09-04 | E-MTAB-12970 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data