Integrated database for experimental data
Within the Collaborative Research Center / Transregio 124 “Pathogenic fungi and their human host: Networks of Interaction – FungiNet”, the INF project is responsible to analyse and share OMICS data. Databases help to foster the collaboration within FungiNet as an important point of the Collaborative Research Center. Therefore, we set-up two databases:
a) SEEK is a web-based platform to find, share and exchange unstructured data and knowledge, such as project descriptions, presentations, posters, meeting reports, SOPs, experiment descriptions and data (in future with link to FuniNet DB), etc.
This database is available for you since 2012. For details how to register and use SEEK: see our E-mails.
b) The datawarehouse FungiNetDB. It is used for structured data, e.g. high-throughput expression data. This database offers the possibility for advanced search, visualization and analysis. Today, we give you informations how to use FungiNetDB.
FungiNetDB currently stores gene expression data and experimental descriptions generated within FungiNet but also downloaded from public resources. The datawarehouse allows for standard visualisation of gene expression data.
Here is the link to FungiNetDB
Aims of the FungiNet INF project are:
- Support sharing and exchange of data, models and expertise (e. g., SOPs)
- Pre-processing and standardised analysis of experimental data
- Direct and support further experiments and modeling via information retrieval
- Web-based platform and service to foster collaboration and standardisation within the FungiNet consortium
Public web page: http://www.funginet.de/project-inf.html
INF PALs: No PALs for this Project
Project created: 21st Feb 2013
- People (11)
- Institutions (3)
- Investigations (0+4)
- Studies (0+10)
- Assays (0+23)
- Data files (2+4)
- Models (0+3)
- Publications (23)
- Presentations (0+23)
- Events (0+10)
- Documents (0+1)
- Samples (0+41)
Projects: FungiNet total, INF, A1, A2, A3, A4, A5, A6, B1, B3 (E), B4, B5, C1, C2, C3, C4, C5, C6, Z1, Z2, FungiNet A - Aspergillus projects, FungiNet B - Bioinformatics projects, FungiNet C - Candida projects, B2https://orcid.org/0000-0001-6106-724X
I study the analysis of high-throughput transcriptom and genome data.
For transcritom data (RNA-Seq, microarrays), I perform preprocessing and statistics to identify differentially expressed genes, as well as their functional analysis. My main focus is the analysis of transcriptom data
from human fungal pathogens in infection related conditions (f.e. nutrient limitation) as well as during the interaction with the host (dual RNA-seq).
Experimental data is used to set up mathematical models for
Authors: M. Tscherner, F. Zwolanek, S. Jenull, F. J. Sedlazeck, A. Petryshyn, I. E. Frohner, J. Mavrianos, N. Chauhan, A. von Haeseler, K. Kuchler
Date Published: No date defined
Journal: PLoS Pathog
PubMed ID: 26473952
Citation: PLoS Pathog. 2015 Oct 16;11(10):e1005218. doi: 10.1371/journal.ppat.1005218. eCollection 2015 Oct.
Date Published: 7th Sep 2016
Journal: Fungal Genet Biol
PubMed ID: 27593501
Date Published: 28th Jun 2016
Journal: Sci Rep
PubMed ID: 27346433
Date Published: 27th Apr 2016
Journal: Clin Microbiol Infect
PubMed ID: 27113568
Date Published: 22nd Apr 2016
Journal: Front Microbiol
PubMed ID: 27148247