Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

IMPRS Bioinformatics Course 2020

ABSTRACT: bacteria and fungal interaction data for bioinformatics course

INSTRUMENT(S): Q Exactive

ORGANISM(S): Raffaelea Ambrosiae (ncbitaxon:45346) Pseudomonas Fluorescens (ncbitaxon:294)

SUBMITTER: Ales Svatos

PROVIDER: MSV000084932 | MassIVE | Fri Feb 07 05:44:00 GMT 2020

REPOSITORIES: MassIVE

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Innate and adaptive immunity in zebrafish: time course (zebrafish)

2014-11-03 | GSE51603 | GEO

Host and pathogen interaction: time course

Project description:Host and pathogen interaction: time course

| PRJNA147451 | ENA

Innate and adaptive immunity in zebrafish: time course (zebrafish)

Project description:The interaction between fungal pathogen and host innnate and adaptive immunity during infection is a complex and dynamic process. To resolve this, we chose the zebrafish model organism as the host to study C. albicans infection via systems biology approach. Transcriptome microarray data and histological analysis of surviving fish were sampled at different post-infection time points. Time-course microarray data following primary and secondary infection of zebrafish by Candida albicans were obatined. From this set of data, we constructed two intracellular proteinM-bM-^@M-^Sprotein interaction (PPI) networks for primary and secondary responses of the host. Each fish in the first group was intraperitoneally injected with 1 M-CM-^W 10E5 and 1 M-CM-^W 10E7 CFU C. albicans at day 0 and 14, respectively. These infected fish were collected at 1, 2, 3, 6, 14, 17.5, 21 dpi (day post infection). For the second group, a second injection of C. albicans was given on 14th day of the first infeciton, and the repeated infeceted fish were collected at 2, 6, 12, 18, 24, 30, 36, 42 hours post second injection. 1.65 M-NM-<g of Cy3 cRNA for zebrafish array was fragmented to an average size of about 50-100 nucleotides by incubation with fragmentation buffer at 60M-BM-0C for 30 minutes. Each time points contain two biological repeats.

2014-11-03 | E-GEOD-51603 | biostudies-arrayexpress

Wound healing process after TBI in zebrafish: time course (zebrafish)

Project description:The interaction between neurogenesis and angiogenesis after traumatic brain injury is a complex and dynamic process. To resolve this, we chose the zebrafish model organism for studying brain wound healing via systems biology approach. Transcriptome microarray data and histological analysis of injured fish were sampled at different time points during recovery process. Time-course microarray data following wound healing of zebrafish were obtained. From this set of data, we constructed two intracellular protein–protein interaction (PPI) networks for the traumatic brain injury healing mechanism.

2014-09-30 | GSE56375 | GEO

Circadian time course

Project description:Circadian time course

| PRJNA98585 | ENA

GIGANTEA interaction proteomics time course

Project description:Interaction proteomics time course over 24h every 4h, looking for novel interactors of the circadian clock and flowering time protein GIGANTEA. Plants expressing 35S:GIGANTEA:3xFlag6His were used, as well as WT plants for a background control.

2017-07-03 | MSV000081217 | MassIVE

Simultaneous host parasite RNA sequencing of rodent malaria infection time course

Project description:We have shown previously (Reid & Berriman, NAR, 2012) that by simultaneously examining host and parasite gene expression over the course of infection we can determine pairs of genes involved in host-parasite interaction. Here we are producing a high quality dataset which will specifically allow us to exploit this finding to identify genes involved in malaria host-parasite interaction. This has been done in collaboration with Jean Langhorne at NIMR. This data is part of a pre-publication release. For information on the proper use of pre-publication data shared by the Wellcome Trust Sanger Institute (including details of any publication moratoria), please see http://www.sanger.ac.uk/datasharing/

2013-05-13 | E-ERAD-136 | biostudies-arrayexpress

Time-course microarray study of Cryptococcus neoformans var. neoformans spore germination

Project description:To identify the genome-wide transcriptional changes that occur throughout germination of C. neoformans spores, we conducted a time-course microarray experiment spanning six timepoints to generate a temporal expression pattern for each known gene. Spores were placed in rich medium and allowed to germinate for 10 hours, when they start to replicate as yeast. Each time point was flash frozen in liquid nitrogen and RNA was harvested for each time point at the same time. Microarray hybridizations were conducted in a reference pool design, where each time point was mixed together in equal amounts to make a reference pool sample. Then each time point was hybrdized against the reference pool. Characterization of the genes and pathways that are regulated during germination of this ubiquitous fungal pathogen will allow us to better understand how infectious spores resume vegetative growth, a process that likely is critical for interaction between C. neoformans and a host.

2014-07-31 | GSE53912 | GEO

Antagonism between P. doughuensis and M. phaseolina

Project description:Antagonism between P.donghuensis SVBP6, biocontrol soil bacteria, and M.phaseolina on potato dextrose agar. Untargeted metabolomics of ethyl acetate extracts. Fungal, bacterial, and interaction agar samples.

| MSV000090343 | MassIVE

Kidney development time course

Project description:Kidney development time course

| PRJNA91337 | ENA